Psyllid ID: psy6316

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------26
Protein Sequence
MQAVFNKRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQIL
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHccccccccccccEEEEEcccccccccHHHHHHHccccccccccHHHccccEEEcccHHHHccccccccccccccccccccccEEEEccccHHHHHHHHHcccccccEEEEEEEccccccHHHHHHHHHHHHccccEEEEEccccccccccccccHHHHHHHHHcccccccEEEEHHHHHHHHHHHHHccccccccHHHcccccccccEEEccccccHHHHHHHHHHHHcHHHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHccHHHccccccEEEEEEcccccHHHHHHHHHHccccccccccccEEcccEEEcHHHHHHHHHHHHHHEEcccccccccccEEEEEccccHHHHHHHHHcccccccEEEEEEEccccccHHHHHHHHHHHHccccEEEEEEcccccccccccccHHHHHHHHHHHHHHHccccccHHccccEEEEEEEccccccccHcccccccccHHHHHHHHHHHHHHHHHcHHHccHHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
MQAVFNKRREkieenpedenFMRAAIVCVLGhvdtgktkILDKLRrtnvqdgeaggitqqigatnvpadairentkhvrgpggevggpgpleipglliidtpghesfsnlrnrgsslcdiAILVVDImhglepqtiESINilkskktpfVVALNKIDRlynwntmnrrDVRDIIKSQESSVQTHKTVESARKGQEICikiepipgeapkmfgrhfdendfLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQIL
Flexible Loop (DISEMBL)
mqavfnkrrekieenpedenfmRAAIVCVLGhvdtgktkildkLRRTNVqdgeaggitqqigatnvpaDAIRENTKhvrgpggevggpgPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIEsinilkskktpfVVALNkidrlynwntmnrrDVRDIIKsqessvqthktvesarkgqeICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQIL
Low Complexity Region (SEG)
MQAVFNKRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRgpggevggpgpleipglliiDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQIL
Disordered region (IsUnstruct)
********************FMRAAIVCVLGHVDTGKTKILDKLRRTNVQD**AGGITQQIGA***************************LEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDII********************EICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQ**
Disordered Region (DISOPRED)
************************AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVR*IIK**ESSVQTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQIL
Disordered Region (DISEMBL)
********REKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ**************KGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQIL
Disordered Region (DISPRO)
*****NKRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQIL
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQAVFNKRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQIL
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	259	2.2.26 [Sep-21-2011]
O60841	1220	Eukaryotic translation in	yes	N/A	0.602	0.127	0.720	9e-62
Q05D44	1216	Eukaryotic translation in	yes	N/A	0.602	0.128	0.726	1e-61
B2GUV7	1216	Eukaryotic translation in	yes	N/A	0.602	0.128	0.726	2e-61
Q5RDE1	1220	Eukaryotic translation in	yes	N/A	0.602	0.127	0.677	3e-57
Q10251	1079	Eukaryotic translation in	yes	N/A	0.613	0.147	0.621	7e-56
P39730	1002	Eukaryotic translation in	yes	N/A	0.602	0.155	0.633	1e-54
Q54XP6	1045	Eukaryotic translation in	yes	N/A	0.652	0.161	0.553	4e-51
A6VIS4	598	Probable translation init	yes	N/A	0.532	0.230	0.587	1e-41
Q6M0I6	598	Probable translation init	yes	N/A	0.532	0.230	0.587	2e-41
A4FZQ3	598	Probable translation init	yes	N/A	0.532	0.230	0.580	2e-41

>sp|O60841|IF2P_HUMAN Eukaryotic translation initiation factor 5B OS=Homo sapiens GN=EIF5B PE=1 SV=4

 Score =  236 bits (603), Expect = 9e-62,   Method: Compositional matrix adjust.
 Identities = 116/161 (72%), Positives = 131/161 (81%), Gaps = 5/161 (3%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +RA I+CVLGHVDTGKTKILDKLR T+VQDGEAGGITQQIGATNVP +AI E TK ++  
Sbjct: 629 LRAPIICVLGHVDTGKTKILDKLRHTHVQDGEAGGITQQIGATNVPLEAINEQTKMIKNF 688

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
             E      + IPG+LIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN+
Sbjct: 689 DRE-----NVRIPGMLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINL 743

Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
           LKSKK PF+VALNKIDRLY+W      DV   +K Q+ + +
Sbjct: 744 LKSKKCPFIVALNKIDRLYDWKKSPDSDVAATLKKQKKNTK 784

Function in general translation initiation by promoting the binding of the formylmethionine-tRNA to ribosomes. Seems to function along with eIF-2.
Homo sapiens (taxid: 9606)

>sp|Q05D44|IF2P_MOUSE Eukaryotic translation initiation factor 5B OS=Mus musculus GN=Eif5b PE=1 SV=2

 Score =  236 bits (602), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 117/161 (72%), Positives = 131/161 (81%), Gaps = 5/161 (3%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +RA I+CVLGHVDTGKTKILDKLR T+VQDGEAGGITQQIGATNVP +AI E TK ++  
Sbjct: 625 LRAPIICVLGHVDTGKTKILDKLRHTHVQDGEAGGITQQIGATNVPLEAINEQTKMIKNF 684

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
             E      + IPG+LIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI
Sbjct: 685 DRE-----NVRIPGMLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 739

Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
           LKSKK PF+VALNKIDRLY+W      DV   +K Q+ + +
Sbjct: 740 LKSKKCPFIVALNKIDRLYDWKKSPDSDVAVTLKKQKKNTK 780

Function in general translation initiation by promoting the binding of the formylmethionine-tRNA to ribosomes. Seems to function along with eIF-2.

Mus musculus (taxid: 10090)

>sp|B2GUV7|IF2P_RAT Eukaryotic translation initiation factor 5B OS=Rattus norvegicus GN=Eif5b PE=1 SV=1

 Score =  236 bits (601), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 117/161 (72%), Positives = 131/161 (81%), Gaps = 5/161 (3%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +RA I+CVLGHVDTGKTKILDKLR T+VQDGEAGGITQQIGATNVP +AI E TK ++  
Sbjct: 625 LRAPIICVLGHVDTGKTKILDKLRHTHVQDGEAGGITQQIGATNVPLEAINEQTKMIKNF 684

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
             E      + IPG+LIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI
Sbjct: 685 DRE-----NVRIPGMLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 739

Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
           LKSKK PF+VALNKIDRLY+W      DV   +K Q+ + +
Sbjct: 740 LKSKKCPFIVALNKIDRLYDWKKSPDSDVAVTLKKQKKNTK 780

Function in general translation initiation by promoting the binding of the formylmethionine-tRNA to ribosomes. Seems to function along with eIF-2.

Rattus norvegicus (taxid: 10116)

>sp|Q5RDE1|IF2P_PONAB Eukaryotic translation initiation factor 5B OS=Pongo abelii GN=EIF5B PE=2 SV=2

 Score =  221 bits (564), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 109/161 (67%), Positives = 126/161 (78%), Gaps = 5/161 (3%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +RA I+CVLGHVDTGKTKILDKLR T+VQDGEAGGITQQIGATNVP +AI E TK ++  
Sbjct: 629 LRAPIICVLGHVDTGKTKILDKLRHTHVQDGEAGGITQQIGATNVPLEAINEQTKMIKNF 688

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
           G E      + IPG+LIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG EPQ ++  N+
Sbjct: 689 GRE-----NVRIPGMLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGGEPQKMKPTNL 743

Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
            K KK PF+VALNKIDRLY+W      DV   +K Q+ + +
Sbjct: 744 PKPKKCPFMVALNKIDRLYDWKKSPDSDVAATLKKQKKNTK 784

Function in general translation initiation by promoting the binding of the formylmethionine-tRNA to ribosomes. Seems to function along with eIF-2.

Pongo abelii (taxid: 9601)

>sp|Q10251|IF2P_SCHPO Eukaryotic translation initiation factor 5B OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC56F8.03 PE=1 SV=1

 Score =  217 bits (553), Expect = 7e-56,   Method: Compositional matrix adjust.
 Identities = 102/164 (62%), Positives = 131/164 (79%), Gaps = 5/164 (3%)

Query: 19  ENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHV 78
           E+ +R+ I C+LGHVDTGKTK+LD LRR+NVQ+GEAGGITQQIGAT  P ++I++ TK V
Sbjct: 479 ESDLRSPICCILGHVDTGKTKLLDNLRRSNVQEGEAGGITQQIGATYFPIESIKQKTKVV 538

Query: 79  RGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIES 138
              G          IPGLLIIDTPGHESF+NLR+RG+SLC+IAILV+DIMHGLEPQTIES
Sbjct: 539 NKKG-----KLQYNIPGLLIIDTPGHESFTNLRSRGTSLCNIAILVIDIMHGLEPQTIES 593

Query: 139 INILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
           I +L+ +KTPFVVALNK+DRLY W+++    ++D +  Q+ ++Q
Sbjct: 594 IRLLRDQKTPFVVALNKVDRLYGWHSIKDNAIQDSLSKQKKAIQ 637

Function in general translation initiation by promoting the binding of the formylmethionine-tRNA to ribosomes. Seems to function along with eIF-2.

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

>sp|P39730|IF2P_YEAST Eukaryotic translation initiation factor 5B OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=FUN12 PE=1 SV=2

 Score =  213 bits (541), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 102/161 (63%), Positives = 123/161 (76%), Gaps = 5/161 (3%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +R+ I C+LGHVDTGKTK+LDK+R+TNVQ GEAGGITQQIGAT  P DAI+  TK +   
Sbjct: 403 LRSPICCILGHVDTGKTKLLDKIRQTNVQGGEAGGITQQIGATYFPIDAIKAKTKVMAEY 462

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
             +       ++PGLL+IDTPGHESFSNLR+RGSSLC+IAILV+DIMHGLE QTIESI +
Sbjct: 463 EKQT-----FDVPGLLVIDTPGHESFSNLRSRGSSLCNIAILVIDIMHGLEQQTIESIKL 517

Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
           L+ +K PFVVALNKIDRLY+W  +     RD    Q  +VQ
Sbjct: 518 LRDRKAPFVVALNKIDRLYDWKAIPNNSFRDSFAKQSRAVQ 558

Function in general translation initiation by promoting the binding of the formylmethionine-tRNA to ribosomes. Seems to function along with eIF-2.

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

>sp|Q54XP6|IF2P_DICDI Eukaryotic translation initiation factor 5B OS=Dictyostelium discoideum GN=eif5b PE=3 SV=1

 Score =  201 bits (511), Expect = 4e-51,   Method: Compositional matrix adjust.
 Identities = 99/179 (55%), Positives = 128/179 (71%), Gaps = 10/179 (5%)

Query: 23  RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPG 82
           R+ I+C+LGHVDTGKT +LDK+R TNVQ GEA GITQQIGA+ +P DAI+E TK      
Sbjct: 459 RSPIICILGHVDTGKTSLLDKIRNTNVQGGEARGITQQIGASFIPVDAIKEQTKSFAEKI 518

Query: 83  GEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL 142
                    ++PGLL+IDTPGHESF+NLR+RGS LCD+AILV+DIMHGL+ QT+ESIN+L
Sbjct: 519 K-----MDFKLPGLLLIDTPGHESFNNLRSRGSGLCDLAILVIDIMHGLQAQTLESINLL 573

Query: 143 KSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTH-----KTVESARKGQEI 196
           + +KTPF+VALNK+DR+Y+W      D ++  K Q  S         K + +A  GQE+
Sbjct: 574 RMRKTPFIVALNKVDRIYDWKPCVNTDFKEAYKIQSKSAAQEFDYKVKDIIAALAGQEL 632

Function in general translation initiation by promoting the binding of the formylmethionine-tRNA to ribosomes. Seems to function along with eIF-2.

Dictyostelium discoideum (taxid: 44689)

>sp|A6VIS4|IF2P_METM7 Probable translation initiation factor IF-2 OS=Methanococcus maripaludis (strain C7 / ATCC BAA-1331) GN=infB PE=3 SV=1

 Score =  169 bits (429), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 84/143 (58%), Positives = 105/143 (73%), Gaps = 5/143 (3%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +R  IV VLGHVD GKT +LDK+RRT V   EAGGITQ IGA+ +P + I++ +K + G 
Sbjct: 3   LRCPIVSVLGHVDHGKTSLLDKIRRTRVTQREAGGITQHIGASEIPINTIKKVSKDLLGL 62

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
                    L IPG+L+IDTPGHE+F++LR RG +L DIAILVVDI  G +PQTIE+INI
Sbjct: 63  F-----KADLSIPGILVIDTPGHEAFTSLRKRGGALADIAILVVDINEGFKPQTIEAINI 117

Query: 142 LKSKKTPFVVALNKIDRLYNWNT 164
           LK  KTPFVVA NK+DR+  WN+
Sbjct: 118 LKQCKTPFVVAANKVDRIPGWNS 140

Function in general translation initiation by promoting the binding of the formylmethionine-tRNA to ribosomes. Seems to function along with eIF-2.

Methanococcus maripaludis (strain C7 / ATCC BAA-1331) (taxid: 426368)

>sp|Q6M0I6|IF2P_METMP Probable translation initiation factor IF-2 OS=Methanococcus maripaludis (strain S2 / LL) GN=infB PE=3 SV=1

 Score =  169 bits (428), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 84/143 (58%), Positives = 105/143 (73%), Gaps = 5/143 (3%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +R  IV VLGHVD GKT +LDK+RRT V   EAGGITQ IGA+ +P + I++ +K + G 
Sbjct: 3   LRCPIVSVLGHVDHGKTSLLDKIRRTRVTQREAGGITQHIGASEIPINTIKKVSKDLLGL 62

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
                    L IPG+L+IDTPGHE+F++LR RG +L DIAILVVDI  G +PQTIE+INI
Sbjct: 63  F-----KADLSIPGILVIDTPGHEAFTSLRKRGGALADIAILVVDINEGFKPQTIEAINI 117

Query: 142 LKSKKTPFVVALNKIDRLYNWNT 164
           LK  KTPFVVA NK+DR+  WN+
Sbjct: 118 LKQCKTPFVVAANKVDRIPGWNS 140

Function in general translation initiation by promoting the binding of the formylmethionine-tRNA to ribosomes. Seems to function along with eIF-2.

Methanococcus maripaludis (strain S2 / LL) (taxid: 267377)

>sp|A4FZQ3|IF2P_METM5 Probable translation initiation factor IF-2 OS=Methanococcus maripaludis (strain C5 / ATCC BAA-1333) GN=infB PE=3 SV=1

 Score =  169 bits (428), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 83/143 (58%), Positives = 105/143 (73%), Gaps = 5/143 (3%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +R  IV VLGHVD GKT +LDK+RRT V   EAGGITQ IGA+ +P + I++ +K + G 
Sbjct: 3   LRCPIVSVLGHVDHGKTSLLDKIRRTRVTQREAGGITQHIGASEIPINTIKKVSKDLLGL 62

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
                    L IPG+L+IDTPGHE+F++LR RG +L DIAILVVDI  G +PQTIE+INI
Sbjct: 63  F-----KADLSIPGILVIDTPGHEAFTSLRKRGGALADIAILVVDINEGFKPQTIEAINI 117

Query: 142 LKSKKTPFVVALNKIDRLYNWNT 164
           LK  KTPF+VA NK+DR+  WN+
Sbjct: 118 LKQCKTPFIVAANKVDRIPGWNS 140

Function in general translation initiation by promoting the binding of the formylmethionine-tRNA to ribosomes. Seems to function along with eIF-2.

Methanococcus maripaludis (strain C5 / ATCC BAA-1333) (taxid: 402880)

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	259
332027003	935	Eukaryotic translation initiation factor	0.656	0.181	0.748	5e-72
157121179	998	translation initiation factor if-2 [Aede	0.610	0.158	0.797	8e-72
383849659	1048	PREDICTED: eukaryotic translation initia	0.602	0.148	0.813	2e-71
91080893	1106	PREDICTED: similar to AGAP004824-PA [Tri	0.660	0.154	0.767	2e-71
350416628	1054	PREDICTED: eukaryotic translation initia	0.633	0.155	0.777	2e-71
170061650	1022	translation initiation factor if-2 [Cule	0.625	0.158	0.782	3e-71
340722400	1053	PREDICTED: eukaryotic translation initia	0.633	0.155	0.777	4e-71
328778392	1080	PREDICTED: eukaryotic translation initia	0.633	0.151	0.771	5e-71
357626559	1178	hypothetical protein KGM_03313 [Danaus p	0.664	0.146	0.747	8e-71
322795774	853	hypothetical protein SINV_10454 [Solenop	0.652	0.198	0.735	1e-70

>gi|332027003|gb|EGI67099.1| Eukaryotic translation initiation factor 5B [Acromyrmex echinatior]

 Score =  276 bits (707), Expect = 5e-72,   Method: Compositional matrix adjust.
 Identities = 134/179 (74%), Positives = 155/179 (86%), Gaps = 9/179 (5%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +RAA+VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVP +AI+E+TKHV+G 
Sbjct: 454 LRAAVVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPIEAIQESTKHVKGF 513

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
             +       +IPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN+
Sbjct: 514 ADK-----KFKIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINL 568

Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIKI 200
           LK+KK PFVVALNKIDRLY+W TMNR+DV+DI+K+QES+ Q     E  R+ ++I ++ 
Sbjct: 569 LKAKKCPFVVALNKIDRLYDWQTMNRKDVQDIVKNQESNTQR----EFERRSKDIIVQF 623

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157121179|ref|XP_001659863.1| translation initiation factor if-2 [Aedes aegypti] gi|108874692|gb|EAT38917.1| AAEL009241-PA, partial [Aedes aegypti]

 Score =  276 bits (705), Expect = 8e-72,   Method: Compositional matrix adjust.
 Identities = 130/163 (79%), Positives = 144/163 (88%), Gaps = 5/163 (3%)

Query: 20  NFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVR 79
           + +RAA+VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVP + I+E TK V+
Sbjct: 619 DVLRAAVVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPIENIKEQTKFVK 678

Query: 80  GPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESI 139
           G           ++PGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESI
Sbjct: 679 GYNDTT-----FKLPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESI 733

Query: 140 NILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
           N+LK+K+TPFVVALNKIDRLY+WNTMNR+DVRDIIK Q S+ Q
Sbjct: 734 NLLKAKRTPFVVALNKIDRLYDWNTMNRKDVRDIIKGQASNTQ 776

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383849659|ref|XP_003700462.1| PREDICTED: eukaryotic translation initiation factor 5B-like [Megachile rotundata]

 Score =  275 bits (702), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 131/161 (81%), Positives = 145/161 (90%), Gaps = 5/161 (3%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +RAA+VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVP DAIRE+TKHVRG 
Sbjct: 457 LRAAVVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPIDAIRESTKHVRGY 516

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
             +       +IPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN+
Sbjct: 517 ADK-----KFKIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINL 571

Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
           LK+KK PF+VALNKIDRLY+W TM+R+DV+DI+KSQ  + Q
Sbjct: 572 LKAKKCPFIVALNKIDRLYDWQTMSRKDVQDIVKSQAINTQ 612

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91080893|ref|XP_973325.1| PREDICTED: similar to AGAP004824-PA [Tribolium castaneum] gi|270005394|gb|EFA01842.1| hypothetical protein TcasGA2_TC007444 [Tribolium castaneum]

 Score =  274 bits (701), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 135/176 (76%), Positives = 151/176 (85%), Gaps = 5/176 (2%)

Query: 7   KRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV 66
           K R++  E  +  + +RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV
Sbjct: 500 KARKEAAEKAKTLDNLRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV 559

Query: 67  PADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVD 126
           P DAI+E  K V+G          L+IPGLLIIDTPGHESFSNLR+RGSSLCDIAILVVD
Sbjct: 560 PIDAIKEQIKIVKG-----ASEMDLKIPGLLIIDTPGHESFSNLRSRGSSLCDIAILVVD 614

Query: 127 IMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
           IMHGLEPQTIESIN+LK+KKTPF+VALNKIDRLY+W TMNR+DVRDIIK+Q S+ Q
Sbjct: 615 IMHGLEPQTIESINLLKTKKTPFIVALNKIDRLYDWQTMNRKDVRDIIKAQASNTQ 670

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350416628|ref|XP_003491025.1| PREDICTED: eukaryotic translation initiation factor 5B-like [Bombus impatiens]

 Score =  274 bits (701), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 133/171 (77%), Positives = 148/171 (86%), Gaps = 7/171 (4%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +RAA+VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVP DAIRE+TKHV+G 
Sbjct: 463 LRAAVVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPIDAIRESTKHVKG- 521

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
                     +IPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN+
Sbjct: 522 ----FDENKFKIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINL 577

Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARK 192
           LK+KK PF+VALNKIDRLY+W TMNR+DV+DI+KSQ  ++ T +  E   K
Sbjct: 578 LKTKKCPFIVALNKIDRLYDWQTMNRKDVQDIVKSQ--AINTQREFEKRSK 626

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170061650|ref|XP_001866326.1| translation initiation factor if-2 [Culex quinquefasciatus] gi|167879790|gb|EDS43173.1| translation initiation factor if-2 [Culex quinquefasciatus]

 Score =  274 bits (700), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 133/170 (78%), Positives = 148/170 (87%), Gaps = 8/170 (4%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +RAA+VCVLGHVDTGKTKILDKLRRTNVQD EAGGITQQIGATNVP D I+E TK V+G 
Sbjct: 635 LRAAVVCVLGHVDTGKTKILDKLRRTNVQDAEAGGITQQIGATNVPIDNIKEQTKFVKGY 694

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
           G         ++PGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN+
Sbjct: 695 GD-----TNFKLPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINL 749

Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ---THKTVE 188
           LK+K+TPFVVALNKIDRLY+WNTMNR+DVRDI+K+Q S+ Q   T +T E
Sbjct: 750 LKAKRTPFVVALNKIDRLYDWNTMNRKDVRDILKAQASNTQLEFTQRTKE 799

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340722400|ref|XP_003399594.1| PREDICTED: eukaryotic translation initiation factor 5B-like [Bombus terrestris]

 Score =  273 bits (699), Expect = 4e-71,   Method: Compositional matrix adjust.
 Identities = 133/171 (77%), Positives = 147/171 (85%), Gaps = 7/171 (4%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +RAA+VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVP DAIRE+TKHV+G 
Sbjct: 462 LRAAVVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPIDAIRESTKHVKG- 520

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
                     +IPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN+
Sbjct: 521 ----FDENKFKIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINL 576

Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARK 192
           LK KK PF+VALNKIDRLY+W TMNR+DV+DI+KSQ  ++ T +  E   K
Sbjct: 577 LKMKKCPFIVALNKIDRLYDWQTMNRKDVQDIVKSQ--AINTQREFEKRSK 625

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328778392|ref|XP_392101.4| PREDICTED: eukaryotic translation initiation factor 5B [Apis mellifera]

 Score =  273 bits (698), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 132/171 (77%), Positives = 147/171 (85%), Gaps = 7/171 (4%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +RAA+VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVP DAIRE+TKHV+G 
Sbjct: 489 LRAAVVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPIDAIRESTKHVKG- 547

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
                      IPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN+
Sbjct: 548 ----FDEKKFRIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINL 603

Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARK 192
           LK+KK PF+VALNKIDRLY+W TMNR+D++DI+KSQ  ++ T +  E   K
Sbjct: 604 LKTKKCPFIVALNKIDRLYDWQTMNRKDIQDIVKSQ--AINTQREFEKRSK 652

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357626559|gb|EHJ76611.1| hypothetical protein KGM_03313 [Danaus plexippus]

 Score =  272 bits (696), Expect = 8e-71,   Method: Compositional matrix adjust.
 Identities = 133/178 (74%), Positives = 152/178 (85%), Gaps = 6/178 (3%)

Query: 5   FNKRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGAT 64
             KR+E+ E+N  D N +RAA+VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGAT
Sbjct: 571 LEKRKEENEKNKAD-NPLRAAVVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGAT 629

Query: 65  NVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILV 124
           NVP + I+E TKHV+G   E+      ++PGLLIIDTPGHESFSNLRNRGSSLCDIAILV
Sbjct: 630 NVPIENIKEQTKHVKG-VNEIS----FKLPGLLIIDTPGHESFSNLRNRGSSLCDIAILV 684

Query: 125 VDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
           VDIMHGLEPQTIESIN+LK KKTPF+VALNKIDRLY+W +  R+DVRDI+K Q+ + Q
Sbjct: 685 VDIMHGLEPQTIESINLLKQKKTPFIVALNKIDRLYDWQSAQRKDVRDILKMQQPNTQ 742

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322795774|gb|EFZ18453.1| hypothetical protein SINV_10454 [Solenopsis invicta]

 Score =  272 bits (695), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 131/178 (73%), Positives = 154/178 (86%), Gaps = 9/178 (5%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +RAA+VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVP +AI+++TKHV+G 
Sbjct: 470 LRAAVVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPIEAIQDSTKHVKGF 529

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
             +       +IPGLLIIDTPGHESFSNLR+RGSSLCDIAILVVDIMHGLEPQTIESIN+
Sbjct: 530 ADK-----KFKIPGLLIIDTPGHESFSNLRSRGSSLCDIAILVVDIMHGLEPQTIESINL 584

Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIK 199
           LK+KK PFVVALNKIDRLY+W TMNR+DV+DI+K+QE + Q     E  R+ ++I ++
Sbjct: 585 LKAKKCPFVVALNKIDRLYDWQTMNRKDVQDIVKNQEPNTQR----EFERRSKDIIVQ 638

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

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	259
FB|FBgn0026259	1144	eIF5B "eIF5B" [Drosophila mela	0.656	0.148	0.664	2.9e-88
UNIPROTKB|O60841	1220	EIF5B "Eukaryotic translation	0.656	0.139	0.647	5.5e-84
MGI|MGI:2441772	1216	Eif5b "eukaryotic translation	0.656	0.139	0.653	8.8e-84
RGD|1591046	1216	Eif5b-ps1 "eukaryotic translat	0.656	0.139	0.653	8.8e-84
UNIPROTKB|J9P504	1219	EIF5B "Uncharacterized protein	0.656	0.139	0.642	7.1e-82
UNIPROTKB|F1N6Y7	1220	EIF5B "Uncharacterized protein	0.656	0.139	0.642	7.1e-82
UNIPROTKB|F1PMA6	1221	EIF5B "Uncharacterized protein	0.656	0.139	0.642	7.2e-82
UNIPROTKB|E1C8K7	1220	EIF5B "Uncharacterized protein	0.656	0.139	0.642	7.3e-82
UNIPROTKB|E1BVP1	1226	EIF5B "Uncharacterized protein	0.656	0.138	0.642	7.4e-82
UNIPROTKB|I3L8K4	1219	EIF5B "Uncharacterized protein	0.656	0.139	0.642	9.1e-82

FB|FBgn0026259 eIF5B "eIF5B" [Drosophila melanogaster (taxid:7227)]

 Score = 585 (211.0 bits), Expect = 2.9e-88, Sum P(2) = 2.9e-88
 Identities = 117/176 (66%), Positives = 136/176 (77%)

Query:     7 KRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV 66
             KR+ + E+    +  +RA +VCVLGHVDTGKTKILDKLRRT+VQD EAGGITQQIGATNV
Sbjct:   539 KRQAEAEKKRSTDE-LRAGVVCVLGHVDTGKTKILDKLRRTHVQDSEAGGITQQIGATNV 597

Query:    67 PADAIRENTKHVRXXXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVD 126
             P +AI+E TK+V+                    DTPGHESFSNLRNRGSSLCDIAILVVD
Sbjct:   598 PIEAIKEQTKYVKAAAGFEHRLPGLLII-----DTPGHESFSNLRNRGSSLCDIAILVVD 652

Query:   127 IMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
             IMHGLEPQTIESI +LK KK PF+VALNKIDRLY+W  + RRDVRD++K Q+S+ Q
Sbjct:   653 IMHGLEPQTIESIQLLKKKKCPFIVALNKIDRLYDWKQLARRDVRDVLKEQQSNTQ 708

GO:0005829 "cytosol" evidence=ISS

GO:0003743 "translation initiation factor activity" evidence=ISS

GO:0006413 "translational initiation" evidence=ISS

GO:0005515 "protein binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=ISS

GO:0017151 "DEAD/H-box RNA helicase binding" evidence=TAS

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

UNIPROTKB|O60841 EIF5B "Eukaryotic translation initiation factor 5B" [Homo sapiens (taxid:9606)]

 Score = 546 (197.3 bits), Expect = 5.5e-84, Sum P(3) = 5.5e-84
 Identities = 114/176 (64%), Positives = 129/176 (73%)

Query:     7 KRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV 66
             KRR +  +N   E  +RA I+CVLGHVDTGKTKILDKLR T+VQDGEAGGITQQIGATNV
Sbjct:   615 KRRLEHSKNVNTEK-LRAPIICVLGHVDTGKTKILDKLRHTHVQDGEAGGITQQIGATNV 673

Query:    67 PADAIRENTKHVRXXXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVD 126
             P +AI E TK ++                    DTPGHESFSNLRNRGSSLCDIAILVVD
Sbjct:   674 PLEAINEQTKMIKNFDRENVRIPGMLII-----DTPGHESFSNLRNRGSSLCDIAILVVD 728

Query:   127 IMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
             IMHGLEPQTIESIN+LKSKK PF+VALNKIDRLY+W      DV   +K Q+ + +
Sbjct:   729 IMHGLEPQTIESINLLKSKKCPFIVALNKIDRLYDWKKSPDSDVAATLKKQKKNTK 784

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0003743 "translation initiation factor activity" evidence=NAS;IDA

GO:0006446 "regulation of translational initiation" evidence=NAS;IDA

GO:0005829 "cytosol" evidence=TAS

GO:0006412 "translation" evidence=TAS

GO:0006413 "translational initiation" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0044267 "cellular protein metabolic process" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

MGI|MGI:2441772 Eif5b "eukaryotic translation initiation factor 5B" [Mus musculus (taxid:10090)]

 Score = 545 (196.9 bits), Expect = 8.8e-84, Sum P(3) = 8.8e-84
 Identities = 115/176 (65%), Positives = 129/176 (73%)

Query:     7 KRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV 66
             KRR +  +N   E  +RA I+CVLGHVDTGKTKILDKLR T+VQDGEAGGITQQIGATNV
Sbjct:   611 KRRLEHGKNVNTEK-LRAPIICVLGHVDTGKTKILDKLRHTHVQDGEAGGITQQIGATNV 669

Query:    67 PADAIRENTKHVRXXXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVD 126
             P +AI E TK ++                    DTPGHESFSNLRNRGSSLCDIAILVVD
Sbjct:   670 PLEAINEQTKMIKNFDRENVRIPGMLII-----DTPGHESFSNLRNRGSSLCDIAILVVD 724

Query:   127 IMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
             IMHGLEPQTIESINILKSKK PF+VALNKIDRLY+W      DV   +K Q+ + +
Sbjct:   725 IMHGLEPQTIESINILKSKKCPFIVALNKIDRLYDWKKSPDSDVAVTLKKQKKNTK 780

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003743 "translation initiation factor activity" evidence=ISO

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0005737 "cytoplasm" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0006413 "translational initiation" evidence=IEA

GO:0006446 "regulation of translational initiation" evidence=ISO

RGD|1591046 Eif5b-ps1 "eukaryotic translation initiation factor 5B, pseudogene 1" [Rattus norvegicus (taxid:10116)]

 Score = 545 (196.9 bits), Expect = 8.8e-84, Sum P(3) = 8.8e-84
 Identities = 115/176 (65%), Positives = 129/176 (73%)

Query:     7 KRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV 66
             KRR +  +N   E  +RA I+CVLGHVDTGKTKILDKLR T+VQDGEAGGITQQIGATNV
Sbjct:   611 KRRLEHGKNVNTEK-LRAPIICVLGHVDTGKTKILDKLRHTHVQDGEAGGITQQIGATNV 669

Query:    67 PADAIRENTKHVRXXXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVD 126
             P +AI E TK ++                    DTPGHESFSNLRNRGSSLCDIAILVVD
Sbjct:   670 PLEAINEQTKMIKNFDRENVRIPGMLII-----DTPGHESFSNLRNRGSSLCDIAILVVD 724

Query:   127 IMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
             IMHGLEPQTIESINILKSKK PF+VALNKIDRLY+W      DV   +K Q+ + +
Sbjct:   725 IMHGLEPQTIESINILKSKKCPFIVALNKIDRLYDWKKSPDSDVAVTLKKQKKNTK 780

GO:0003743 "translation initiation factor activity" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|J9P504 EIF5B "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 545 (196.9 bits), Expect = 7.1e-82, Sum P(2) = 7.1e-82
 Identities = 113/176 (64%), Positives = 129/176 (73%)

Query:     7 KRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV 66
             KRR +  +N   E  +RA ++CVLGHVDTGKTKILDKLR T+VQDGEAGGITQQIGATNV
Sbjct:   614 KRRLEHSKNVNTEK-LRAPVICVLGHVDTGKTKILDKLRHTHVQDGEAGGITQQIGATNV 672

Query:    67 PADAIRENTKHVRXXXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVD 126
             P +AI E TK ++                    DTPGHESFSNLRNRGSSLCDIAILVVD
Sbjct:   673 PLEAINEQTKMIKNFDRENVRIPGMLII-----DTPGHESFSNLRNRGSSLCDIAILVVD 727

Query:   127 IMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
             IMHGLEPQTIESIN+LKSKK PF+VALNKIDRLY+W      DV   +K Q+ + +
Sbjct:   728 IMHGLEPQTIESINLLKSKKCPFIVALNKIDRLYDWKKSPDSDVAATLKKQKKNTK 783

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

UNIPROTKB|F1N6Y7 EIF5B "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 545 (196.9 bits), Expect = 7.1e-82, Sum P(2) = 7.1e-82
 Identities = 113/176 (64%), Positives = 129/176 (73%)

Query:     7 KRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV 66
             KRR +  +N   E  +RA ++CVLGHVDTGKTKILDKLR T+VQDGEAGGITQQIGATNV
Sbjct:   615 KRRLEHSKNVNTEK-LRAPVICVLGHVDTGKTKILDKLRHTHVQDGEAGGITQQIGATNV 673

Query:    67 PADAIRENTKHVRXXXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVD 126
             P +AI E TK ++                    DTPGHESFSNLRNRGSSLCDIAILVVD
Sbjct:   674 PLEAINEQTKMIKNFDRENVRIPGMLII-----DTPGHESFSNLRNRGSSLCDIAILVVD 728

Query:   127 IMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
             IMHGLEPQTIESIN+LKSKK PF+VALNKIDRLY+W      DV   +K Q+ + +
Sbjct:   729 IMHGLEPQTIESINLLKSKKCPFIVALNKIDRLYDWKKSPDSDVAATLKKQKKNTR 784

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

UNIPROTKB|F1PMA6 EIF5B "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 545 (196.9 bits), Expect = 7.2e-82, Sum P(2) = 7.2e-82
 Identities = 113/176 (64%), Positives = 129/176 (73%)

Query:     7 KRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV 66
             KRR +  +N   E  +RA ++CVLGHVDTGKTKILDKLR T+VQDGEAGGITQQIGATNV
Sbjct:   616 KRRLEHSKNVNTEK-LRAPVICVLGHVDTGKTKILDKLRHTHVQDGEAGGITQQIGATNV 674

Query:    67 PADAIRENTKHVRXXXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVD 126
             P +AI E TK ++                    DTPGHESFSNLRNRGSSLCDIAILVVD
Sbjct:   675 PLEAINEQTKMIKNFDRENVRIPGMLII-----DTPGHESFSNLRNRGSSLCDIAILVVD 729

Query:   127 IMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
             IMHGLEPQTIESIN+LKSKK PF+VALNKIDRLY+W      DV   +K Q+ + +
Sbjct:   730 IMHGLEPQTIESINLLKSKKCPFIVALNKIDRLYDWKKSPDSDVAATLKKQKKNTK 785

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

UNIPROTKB|E1C8K7 EIF5B "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 542 (195.9 bits), Expect = 7.3e-82, Sum P(2) = 7.3e-82
 Identities = 113/176 (64%), Positives = 128/176 (72%)

Query:     7 KRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV 66
             KRR +  +N   E  +RA ++CVLGHVDTGKTKILDKLR T+VQD EAGGITQQIGATNV
Sbjct:   615 KRRAENSKNANTEK-LRAPVICVLGHVDTGKTKILDKLRHTHVQDSEAGGITQQIGATNV 673

Query:    67 PADAIRENTKHVRXXXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVD 126
             P +AI E TK V+                    DTPGHESFSNLRNRGSSLCDIAILVVD
Sbjct:   674 PLEAINEQTKMVKNFDRENIKIPGMLII-----DTPGHESFSNLRNRGSSLCDIAILVVD 728

Query:   127 IMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
             IMHGLEPQTIESIN+LKSKK PF+VALNKIDRLY+W      DV   +K Q+ + +
Sbjct:   729 IMHGLEPQTIESINLLKSKKCPFIVALNKIDRLYDWKKSPDTDVAVTLKKQKKNTK 784

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|E1BVP1 EIF5B "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 542 (195.9 bits), Expect = 7.4e-82, Sum P(2) = 7.4e-82
 Identities = 113/176 (64%), Positives = 128/176 (72%)

Query:     7 KRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV 66
             KRR +  +N   E  +RA ++CVLGHVDTGKTKILDKLR T+VQD EAGGITQQIGATNV
Sbjct:   621 KRRAENSKNANTEK-LRAPVICVLGHVDTGKTKILDKLRHTHVQDSEAGGITQQIGATNV 679

Query:    67 PADAIRENTKHVRXXXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVD 126
             P +AI E TK V+                    DTPGHESFSNLRNRGSSLCDIAILVVD
Sbjct:   680 PLEAINEQTKMVKNFDRENIKIPGMLII-----DTPGHESFSNLRNRGSSLCDIAILVVD 734

Query:   127 IMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
             IMHGLEPQTIESIN+LKSKK PF+VALNKIDRLY+W      DV   +K Q+ + +
Sbjct:   735 IMHGLEPQTIESINLLKSKKCPFIVALNKIDRLYDWKKSPDTDVAVTLKKQKKNTK 790

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|I3L8K4 EIF5B "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 544 (196.6 bits), Expect = 9.1e-82, Sum P(2) = 9.1e-82
 Identities = 113/176 (64%), Positives = 129/176 (73%)

Query:     7 KRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV 66
             KRR +  +N   E  +RA ++CVLGHVDTGKTKILDKLR T+VQDGEAGGITQQIGATNV
Sbjct:   614 KRRLEHSKNVNTEK-LRAPVICVLGHVDTGKTKILDKLRHTHVQDGEAGGITQQIGATNV 672

Query:    67 PADAIRENTKHVRXXXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVD 126
             P +AI E TK ++                    DTPGHESFSNLRNRGSSLCDIAILVVD
Sbjct:   673 PLEAINEQTKMIKNFDRENVRIPGMLII-----DTPGHESFSNLRNRGSSLCDIAILVVD 727

Query:   127 IMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
             IMHGLEPQTIESIN+LKSKK PF+VALNKIDRLY+W      DV   +K Q+ + +
Sbjct:   728 IMHGLEPQTIESINLLKSKKCPFIVALNKIDRLYDWKKSPDTDVAVTLKKQKKNTK 783

GO:0003924 "GTPase activity" evidence=IEA

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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
B0R6U5	IF2P_HALS3	No assigned EC number	0.5578	0.5405	0.2333	yes	N/A
A8A8D3	IF2P_IGNH4	No assigned EC number	0.5454	0.5366	0.2282	yes	N/A
Q97BK4	IF2P_THEVO	No assigned EC number	0.5514	0.4942	0.2173	yes	N/A
O60841	IF2P_HUMAN	No assigned EC number	0.7204	0.6023	0.1278	yes	N/A
P39730	IF2P_YEAST	No assigned EC number	0.6335	0.6023	0.1556	yes	N/A
A6UVG0	IF2P_META3	No assigned EC number	0.5586	0.5405	0.2341	yes	N/A
Q5RDE1	IF2P_PONAB	No assigned EC number	0.6770	0.6023	0.1278	yes	N/A
Q6M0I6	IF2P_METMP	No assigned EC number	0.5874	0.5328	0.2307	yes	N/A
Q12Z93	IF2P_METBU	No assigned EC number	0.5448	0.5096	0.2233	yes	N/A
A3DMS0	IF2P_STAMF	No assigned EC number	0.5153	0.6138	0.2623	yes	N/A
A2BJZ8	IF2P_HYPBU	No assigned EC number	0.5384	0.5328	0.2254	yes	N/A
Q54XP6	IF2P_DICDI	No assigned EC number	0.5530	0.6525	0.1617	yes	N/A
C6A1V3	IF2P_THESM	No assigned EC number	0.5155	0.6023	0.2613	yes	N/A
Q8U1R8	IF2P_PYRFU	No assigned EC number	0.576	0.4633	0.1219	yes	N/A
Q976A1	IF2P_SULTO	No assigned EC number	0.5153	0.6100	0.2624	yes	N/A
Q0W8X2	IF2P_UNCMA	No assigned EC number	0.5155	0.5907	0.2575	yes	N/A
A7IAP7	IF2P_METB6	No assigned EC number	0.5319	0.5135	0.2250	yes	N/A
P95691	IF2P_SULAC	No assigned EC number	0.5217	0.6023	0.2591	yes	N/A
A6URS1	IF2P_METVS	No assigned EC number	0.5793	0.5405	0.2341	yes	N/A
A6VIS4	IF2P_METM7	No assigned EC number	0.5874	0.5328	0.2307	yes	N/A
Q05D44	IF2P_MOUSE	No assigned EC number	0.7267	0.6023	0.1282	yes	N/A
Q2FU48	IF2P_METHJ	No assigned EC number	0.5133	0.5482	0.2350	yes	N/A
O29490	IF2P_ARCFU	No assigned EC number	0.5270	0.5405	0.2352	yes	N/A
Q5UXU6	IF2P_HALMA	No assigned EC number	0.5185	0.5984	0.2579	yes	N/A
Q9Y9B3	IF2P_AERPE	No assigned EC number	0.5176	0.5945	0.2495	yes	N/A
Q9HNQ2	IF2P_HALSA	No assigned EC number	0.5578	0.5405	0.2333	yes	N/A
A4FZQ3	IF2P_METM5	No assigned EC number	0.5804	0.5328	0.2307	yes	N/A
A4YCQ5	IF2P_METS5	No assigned EC number	0.5403	0.6023	0.2613	yes	N/A
B6YWH3	IF2P_THEON	No assigned EC number	0.5341	0.6023	0.2613	yes	N/A
Q10251	IF2P_SCHPO	No assigned EC number	0.6219	0.6138	0.1473	yes	N/A
B2GUV7	IF2P_RAT	No assigned EC number	0.7267	0.6023	0.1282	yes	N/A
Q9HJ60	IF2P_THEAC	No assigned EC number	0.5588	0.4942	0.2173	yes	N/A
A9A813	IF2P_METM6	No assigned EC number	0.5734	0.5328	0.2307	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	259
cd01887	169	cd01887, IF2_eIF5B, Initiation Factor 2 (IF2)/ euk	2e-72
PRK04004	586	PRK04004, PRK04004, translation initiation factor	5e-72
COG0532	509	COG0532, InfB, Translation initiation factor 2 (IF	4e-60
TIGR00491	590	TIGR00491, aIF-2, translation initiation factor aI	4e-54
PRK14845	1049	PRK14845, PRK14845, translation initiation factor	8e-45
PRK05306	746	PRK05306, infB, translation initiation factor IF-2	6e-40
CHL00189	742	CHL00189, infB, translation initiation factor 2; P	8e-37
TIGR00487	587	TIGR00487, IF-2, translation initiation factor IF-	2e-34
pfam00009	184	pfam00009, GTP_EFTU, Elongation factor Tu GTP bind	1e-32
cd00881	183	cd00881, GTP_translation_factor, GTP translation f	2e-23
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	1e-11
cd01889	192	cd01889, SelB_euk, SelB, the dedicated elongation	3e-11
cd04169	268	cd04169, RF3, Release Factor 3 (RF3) protein invol	4e-10
TIGR00475	581	TIGR00475, selB, selenocysteine-specific elongatio	5e-10
cd04171	170	cd04171, SelB, SelB, the dedicated elongation fact	1e-09
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	1e-09
cd01890	179	cd01890, LepA, LepA also known as Elongation Facto	4e-09
PRK13351	687	PRK13351, PRK13351, elongation factor G; Reviewed	4e-09
cd04167	213	cd04167, Snu114p, Snu114p, a spliceosome protein,	7e-09
cd01885	218	cd01885, EF2, Elongation Factor 2 (EF2) in archaea	8e-09
cd04166	209	cd04166, CysN_ATPS, CysN, together with protein Cy	9e-09
COG2895	431	COG2895, CysN, GTPases - Sulfate adenylate transfe	3e-08
COG0480	697	COG0480, FusA, Translation elongation factors (GTP	6e-08
COG4108	528	COG4108, PrfC, Peptide chain release factor RF-3 [	7e-08
TIGR00503	527	TIGR00503, prfC, peptide chain release factor 3	1e-07
PRK05124	474	PRK05124, cysN, sulfate adenylyltransferase subuni	1e-07
TIGR03918	391	TIGR03918, GTP_HydF, [FeFe] hydrogenase H-cluster	3e-07
TIGR02034	406	TIGR02034, CysN, sulfate adenylyltransferase, larg	3e-07
TIGR03680	406	TIGR03680, eif2g_arch, translation initiation fact	3e-07
COG3276	447	COG3276, SelB, Selenocysteine-specific translation	3e-07
cd04163	168	cd04163, Era, E	3e-07
cd01876	170	cd01876, YihA_EngB, YihA (EngB) GTPase family	5e-07
cd01891	194	cd01891, TypA_BipA, Tyrosine phosphorylated protei	9e-07
PRK00741	526	PRK00741, prfC, peptide chain release factor 3; Pr	1e-06
PRK00089	292	PRK00089, era, GTPase Era; Reviewed	1e-06
PRK10512	614	PRK10512, PRK10512, selenocysteinyl-tRNA-specific	2e-06
TIGR01394	594	TIGR01394, TypA_BipA, GTP-binding protein TypA/Bip	2e-06
TIGR01393	595	TIGR01393, lepA, GTP-binding protein LepA	3e-06
COG1217	603	COG1217, TypA, Predicted membrane GTPase involved	4e-06
TIGR00490	720	TIGR00490, aEF-2, translation elongation factor aE	5e-06
COG1159	298	COG1159, Era, GTPase [General function prediction	6e-06
PRK12740	668	PRK12740, PRK12740, elongation factor G; Reviewed	6e-06
cd04168	237	cd04168, TetM_like, Tet(M)-like family includes Te	7e-06
COG5257	415	COG5257, GCD11, Translation initiation factor 2, g	1e-05
TIGR00484	689	TIGR00484, EF-G, translation elongation factor EF-	2e-05
PRK05506	632	PRK05506, PRK05506, bifunctional sulfate adenylylt	2e-05
cd00880	161	cd00880, Era_like, E	4e-05
COG5256	428	COG5256, TEF1, Translation elongation factor EF-1a	7e-05
COG0481	603	COG0481, LepA, Membrane GTPase LepA [Cell envelope	7e-05
PRK10218	607	PRK10218, PRK10218, GTP-binding protein; Provision	8e-05
TIGR00485	394	TIGR00485, EF-Tu, translation elongation factor TU	1e-04
COG1160	444	COG1160, COG1160, Predicted GTPases [General funct	1e-04
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	3e-04
TIGR03594	429	TIGR03594, GTPase_EngA, ribosome-associated GTPase	3e-04
cd01884	195	cd01884, EF_Tu, Elongation Factor Tu (EF-Tu) GTP-b	3e-04
cd01886	270	cd01886, EF-G, Elongation factor G (EF-G) family i	4e-04
TIGR00483	426	TIGR00483, EF-1_alpha, translation elongation fact	4e-04
PRK07560	731	PRK07560, PRK07560, elongation factor EF-2; Review	5e-04
PRK12317	425	PRK12317, PRK12317, elongation factor 1-alpha; Rev	6e-04
cd01894	157	cd01894, EngA1, EngA1 GTPase contains the first do	6e-04
COG0218	200	COG0218, COG0218, Predicted GTPase [General functi	7e-04
TIGR03598	178	TIGR03598, GTPase_YsxC, ribosome biogenesis GTP-bi	7e-04
CHL00071	409	CHL00071, tufA, elongation factor Tu	8e-04
cd04170	268	cd04170, EF-G_bact, Elongation factor G (EF-G) fam	9e-04
PLN03127	447	PLN03127, PLN03127, Elongation factor Tu; Provisio	9e-04
COG2229	187	COG2229, COG2229, Predicted GTPase [General functi	9e-04
PRK04000	411	PRK04000, PRK04000, translation initiation factor	0.001
pfam01926	117	pfam01926, MMR_HSR1, 50S ribosome-binding GTPase	0.001
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	0.002
cd01883	219	cd01883, EF1_alpha, Elongation Factor 1-alpha (EF1	0.003
TIGR03594	429	TIGR03594, GTPase_EngA, ribosome-associated GTPase	0.004
PRK05433	600	PRK05433, PRK05433, GTP-binding protein LepA; Prov	0.004

>gnl|CDD|206674 cd01887, IF2_eIF5B, Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family

 Score =  218 bits (558), Expect = 2e-72
 Identities = 76/175 (43%), Positives = 101/175 (57%), Gaps = 25/175 (14%)

Query: 26  IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEV 85
           +V V+GHVD GKT +LDK+R+TNV  GEAGGITQ IGA  VP D                
Sbjct: 2   VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPID---------------- 45

Query: 86  GGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSK 145
                ++IPG+  IDTPGHE+F+N+R RG+S+ DIAILVV    G+ PQTIE+IN  K+ 
Sbjct: 46  -----VKIPGITFIDTPGHEAFTNMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAA 100

Query: 146 KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVE----SARKGQEI 196
             P +VA+NKID+ Y       R   ++ +      +    V     SA+ G+ I
Sbjct: 101 NVPIIVAINKIDKPYGTEADPERVKNELSELGLVGEEWGGDVSIVPISAKTGEGI 155

IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s. Length = 169

>gnl|CDD|235195 PRK04004, PRK04004, translation initiation factor IF-2; Validated

 Score =  230 bits (589), Expect = 5e-72
 Identities = 92/161 (57%), Positives = 108/161 (67%), Gaps = 5/161 (3%)

Query: 23  RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPG 82
           R  IV VLGHVD GKT +LDK+R T V   EAGGITQ IGAT VP D I +    ++ P 
Sbjct: 5   RQPIVVVLGHVDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPL 64

Query: 83  GEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL 142
                P  L+IPGLL IDTPGHE+F+NLR RG +L DIAILVVDI  G +PQTIE+INIL
Sbjct: 65  -----PIKLKIPGLLFIDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTIEAINIL 119

Query: 143 KSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQT 183
           K +KTPFVVA NKIDR+  W +       + I+ Q   VQ 
Sbjct: 120 KRRKTPFVVAANKIDRIPGWKSTEDAPFLESIEKQSQRVQQ 160

Length = 586

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

 Score =  197 bits (504), Expect = 4e-60
 Identities = 70/136 (51%), Positives = 88/136 (64%), Gaps = 20/136 (14%)

Query: 23  RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPG 82
           R  +V ++GHVD GKT +LDK+R+TNV  GEAGGITQ IGA  VP D I           
Sbjct: 4   RPPVVTIMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVI----------- 52

Query: 83  GEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL 142
                    +IPG+  IDTPGHE+F+ +R RG+S+ DIAILVV    G+ PQTIE+IN  
Sbjct: 53  ---------KIPGITFIDTPGHEAFTAMRARGASVTDIAILVVAADDGVMPQTIEAINHA 103

Query: 143 KSKKTPFVVALNKIDR 158
           K+   P VVA+NKID+
Sbjct: 104 KAAGVPIVVAINKIDK 119

Length = 509

>gnl|CDD|129582 TIGR00491, aIF-2, translation initiation factor aIF-2/yIF-2

 Score =  183 bits (466), Expect = 4e-54
 Identities = 84/161 (52%), Positives = 104/161 (64%), Gaps = 5/161 (3%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +R+ IV VLGHVD GKT +LDK+R + V   EAGGITQ IGAT +P D I      +   
Sbjct: 2   LRSPIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKK 61

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
                    L+IPGLL IDTPGHE+F+NLR RG +L D+AIL+VDI  G +PQT E++NI
Sbjct: 62  F-----KIRLKIPGLLFIDTPGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEALNI 116

Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
           L+  KTPFVVA NKIDR+  W +   R   +    QE  VQ
Sbjct: 117 LRMYKTPFVVAANKIDRIPGWRSHEGRPFMESFSKQEIQVQ 157

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; the alignment generated by This model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region [Protein synthesis, Translation factors]. Length = 590

>gnl|CDD|237833 PRK14845, PRK14845, translation initiation factor IF-2; Provisional

 Score =  160 bits (407), Expect = 8e-45
 Identities = 72/132 (54%), Positives = 90/132 (68%), Gaps = 17/132 (12%)

Query: 38  TKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGP------GPL 91
           T +LDK+R+T V   EAGGITQ IGAT +P D I++           + GP        +
Sbjct: 475 TTLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKK-----------ICGPLLKLLKAEI 523

Query: 92  EIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVV 151
           +IPGLL IDTPGHE+F++LR RG SL D+A+LVVDI  G +PQTIE+INIL+  KTPFVV
Sbjct: 524 KIPGLLFIDTPGHEAFTSLRKRGGSLADLAVLVVDINEGFKPQTIEAINILRQYKTPFVV 583

Query: 152 ALNKIDRLYNWN 163
           A NKID +  WN
Sbjct: 584 AANKIDLIPGWN 595

Length = 1049

>gnl|CDD|235401 PRK05306, infB, translation initiation factor IF-2; Validated

 Score =  146 bits (370), Expect = 6e-40
 Identities = 64/157 (40%), Positives = 87/157 (55%), Gaps = 35/157 (22%)

Query: 7   KRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV 66
           K    +E++ E++   R  +V ++GHVD GKT +LD +R+TNV  GEAGGITQ IGA  V
Sbjct: 232 KLVSLLEDDDEEDLVPRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQV 291

Query: 67  PADAIRENTKHVRGPGGEVGGPGPLEIPGLLI--IDTPGHESFSNLRNRGSSLCDIAILV 124
                                    E  G  I  +DTPGHE+F+ +R RG+ + DI +LV
Sbjct: 292 -------------------------ETNGGKITFLDTPGHEAFTAMRARGAQVTDIVVLV 326

Query: 125 V----DIMHGLEPQTIESINILKSKKTPFVVALNKID 157
           V     +M    PQTIE+IN  K+   P +VA+NKID
Sbjct: 327 VAADDGVM----PQTIEAINHAKAAGVPIIVAINKID 359

Length = 746

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

 Score =  137 bits (346), Expect = 8e-37
 Identities = 64/153 (41%), Positives = 94/153 (61%), Gaps = 20/153 (13%)

Query: 7   KRREKIEENPEDENFM-RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATN 65
           K       +   EN + R  IV +LGHVD GKT +LDK+R+T +   EAGGITQ+IGA  
Sbjct: 226 KTSNLDNTSAFTENSINRPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYE 285

Query: 66  VPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVV 125
           V  +   EN K                   ++ +DTPGHE+FS++R+RG+++ DIAIL++
Sbjct: 286 VEFEYKDENQK-------------------IVFLDTPGHEAFSSMRSRGANVTDIAILII 326

Query: 126 DIMHGLEPQTIESINILKSKKTPFVVALNKIDR 158
               G++PQTIE+IN +++   P +VA+NKID+
Sbjct: 327 AADDGVKPQTIEAINYIQAANVPIIVAINKIDK 359

Length = 742

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

 Score =  129 bits (326), Expect = 2e-34
 Identities = 61/149 (40%), Positives = 88/149 (59%), Gaps = 22/149 (14%)

Query: 10  EKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPAD 69
           E+ +E+  D    R  +V ++GHVD GKT +LD +R+T V  GEAGGITQ IGA +V   
Sbjct: 73  EEQDEDSGDLLVERPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHV--- 129

Query: 70  AIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMH 129
              E+ K +                    +DTPGHE+F+++R RG+ + DI +LVV    
Sbjct: 130 -ENEDGKMI------------------TFLDTPGHEAFTSMRARGAKVTDIVVLVVAADD 170

Query: 130 GLEPQTIESINILKSKKTPFVVALNKIDR 158
           G+ PQTIE+I+  K+   P +VA+NKID+
Sbjct: 171 GVMPQTIEAISHAKAANVPIIVAINKIDK 199

This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU [Protein synthesis, Translation factors]. Length = 587

>gnl|CDD|215653 pfam00009, GTP_EFTU, Elongation factor Tu GTP binding domain

 Score =  117 bits (295), Expect = 1e-32
 Identities = 45/151 (29%), Positives = 66/151 (43%), Gaps = 39/151 (25%)

Query: 26  IVCVLGHVDTGKTKILDKLRR----------------TNVQDGEAGGITQQIGATNVPAD 69
            + ++GHVD GKT + D L                    +++    GIT +I A +    
Sbjct: 5   NIGIIGHVDHGKTTLTDALLYVTGAISKESAKGARVLDKLKEERERGITIKIAAVSFE-- 62

Query: 70  AIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMH 129
                 + +                   IIDTPGH  F+    RG+S  D AILVVD + 
Sbjct: 63  ---TKKRLI------------------NIIDTPGHVDFTKEMIRGASQADGAILVVDAVE 101

Query: 130 GLEPQTIESINILKSKKTPFVVALNKIDRLY 160
           G+ PQT E + + K+   P +V +NKIDR+ 
Sbjct: 102 GVMPQTREHLLLAKTLGVPIIVFINKIDRVD 132

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

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

 Score = 93.5 bits (233), Expect = 2e-23
 Identities = 49/150 (32%), Positives = 64/150 (42%), Gaps = 39/150 (26%)

Query: 26  IVCVLGHVDTGKTKILDKL--------RRTNVQDGE--------AGGITQQIGATNVPAD 69
            V V+GHVD GKT +   L        RR   ++            GIT + G       
Sbjct: 1   NVGVIGHVDHGKTTLTGSLLYQTGAIDRRGTRKETFLDTLKEERERGITIKTGVVEFEW- 59

Query: 70  AIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMH 129
                 + +                    IDTPGHE FS    RG +  D A+LVVD   
Sbjct: 60  ----PKRRIN------------------FIDTPGHEDFSKETVRGLAQADGALLVVDANE 97

Query: 130 GLEPQTIESINILKSKKTPFVVALNKIDRL 159
           G+EPQT E +NI  +   P +VA+NKIDR+
Sbjct: 98  GVEPQTREHLNIALAGGLPIIVAVNKIDRV 127

The GTP translation factor family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function. Length = 183

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

 Score = 60.8 bits (148), Expect = 1e-11
 Identities = 33/139 (23%), Positives = 55/139 (39%), Gaps = 30/139 (21%)

Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAG-GITQQIGATNVPADAIRENTKHVRGPGGEV 85
           + ++G  + GK+ +L++L    +   E   G T+     N     I E+ K  +      
Sbjct: 4   IVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTR-----NYVTTVIEEDGKTYK------ 52

Query: 86  GGPGPLEIPGLLIIDTPGHESFSNLR-------NRGSSLCDIAILVVDIMHGLEPQTIES 138
                       ++DT G E +  +R            + DI ILV+D+   LE QT + 
Sbjct: 53  ----------FNLLDTAGQEDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQT-KE 101

Query: 139 INILKSKKTPFVVALNKID 157
           I        P ++  NKID
Sbjct: 102 IIHHAESGVPIILVGNKID 120

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

>gnl|CDD|206676 cd01889, SelB_euk, SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome

 Score = 60.8 bits (148), Expect = 3e-11
 Identities = 53/194 (27%), Positives = 83/194 (42%), Gaps = 38/194 (19%)

Query: 27  VCVLGHVDTGKTKI------------LDKLRRTNVQDGEAGGITQQIG--ATNVPADAIR 72
           V +LGHVD+GKT +             DK  ++  +     GIT  +G  +  V      
Sbjct: 3   VGLLGHVDSGKTSLAKALSEIASTAAFDKNPQSQER-----GITLDLGFSSFEVDKPKHL 57

Query: 73  ENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLE 132
           E+ ++   P  E       +I    ++D PGH S       G+ + D+ +LVVD   G++
Sbjct: 58  EDNEN---PQIE-----NYQI---TLVDCPGHASLIRTIIGGAQIIDLMLLVVDAKKGIQ 106

Query: 133 PQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARK 192
            QT E + I +    P +V LNKID +       R+   + +K      +  KT+E  R 
Sbjct: 107 TQTAECLVIGELLCKPLIVVLNKIDLI---PEEERKRKIEKMKK-----RLQKTLEKTRL 158

Query: 193 GQEICIKIEPIPGE 206
                I +   PGE
Sbjct: 159 KDSPIIPVSAKPGE 172

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 eukaryotes, they do share a common feature. Unlike in E. coli, these SECIS elements are located in the 3' UTRs. This group contains eukaryotic SelBs and some from archaea. Length = 192

>gnl|CDD|206732 cd04169, RF3, Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria

 Score = 58.4 bits (142), Expect = 4e-10
 Identities = 23/61 (37%), Positives = 37/61 (60%)

Query: 98  IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKID 157
           ++DTPGHE FS    R  +  D A++V+D   G+EPQT +   + + +  P +  +NK+D
Sbjct: 75  LLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLRGIPIITFINKLD 134

Query: 158 R 158
           R
Sbjct: 135 R 135

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. Length = 268

>gnl|CDD|129567 TIGR00475, selB, selenocysteine-specific elongation factor SelB

 Score = 59.1 bits (143), Expect = 5e-10
 Identities = 54/177 (30%), Positives = 74/177 (41%), Gaps = 30/177 (16%)

Query: 26  IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEV 85
           I+   GHVD GKT +L  L                   T + AD + E  K  RG   ++
Sbjct: 2   IIATAGHVDHGKTTLLKAL-------------------TGIAADRLPEEKK--RGMTIDL 40

Query: 86  G-GPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDI--AILVVDIMHGLEPQTIESINIL 142
           G    PL    L  ID PGHE F  + N  +    I  A+LVVD   G+  QT E + +L
Sbjct: 41  GFAYFPLPDYRLGFIDVPGHEKF--ISNAIAGGGGIDAALLVVDADEGVMTQTGEHLAVL 98

Query: 143 KSKKTPF-VVALNKIDRLYNWNTMNR--RDVRDIIKSQESSVQTHKTVESARKGQEI 196
                P  +V + K DR+ N   + R    ++ I+ S            SA+ GQ I
Sbjct: 99  DLLGIPHTIVVITKADRV-NEEEIKRTEMFMKQILNSYIFLKNAKIFKTSAKTGQGI 154

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 [Protein synthesis, Translation factors]. Length = 581

>gnl|CDD|206734 cd04171, SelB, SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome

 Score = 55.7 bits (135), Expect = 1e-09
 Identities = 37/142 (26%), Positives = 55/142 (38%), Gaps = 36/142 (25%)

Query: 26  IVCVLGHVDTGKTKILDKLRRTNVQDGE------AGGITQQIGATNVPADAIRENTKHVR 79
           I+   GH+D GKT ++   +     + +        GIT  +G   +             
Sbjct: 1   IIGTAGHIDHGKTTLI---KALTGIETDRLPEEKKRGITIDLGFAYLDL----------- 46

Query: 80  GPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLC--DIAILVVDIMHGLEPQTIE 137
            P G+  G           ID PGHE F  ++N  +     D  +LVV    G+ PQT E
Sbjct: 47  -PDGKRLG----------FIDVPGHEKF--VKNMLAGAGGIDAVLLVVAADEGIMPQTRE 93

Query: 138 SINILKSKKTP-FVVALNKIDR 158
            + IL+       +V L K D 
Sbjct: 94  HLEILELLGIKKGLVVLTKADL 115

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 eukaryotes, they do share a common feature. Unlike in E. coli, these SECIS elements are located in the 3' UTRs. This group contains bacterial SelBs, as well as, one from archaea. Length = 170

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

 Score = 55.5 bits (134), Expect = 1e-09
 Identities = 36/177 (20%), Positives = 64/177 (36%), Gaps = 33/177 (18%)

Query: 28  CVLGHVDTGKTKILDKLRRTNV-QDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVG 86
            V+G    GK+ +L+ L    V +  +  G T               +        G+V 
Sbjct: 1   VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTT------------RDPDVYVKELDKGKVK 48

Query: 87  GPGPLEIPGLLIIDTPGHESFSNLRNRGSSL-----CDIAILVVDIMHG--LEPQTIESI 139
                    L+++DTPG + F  L     +       D+ +LVVD       E   +  +
Sbjct: 49  ---------LVLVDTPGLDEFGGLGREELARLLLRGADLILLVVDSTDRESEEDAKLLIL 99

Query: 140 NILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEI 196
             L+ +  P ++  NKID L          +R    ++   V   +   SA+ G+ +
Sbjct: 100 RRLRKEGIPIILVGNKIDLLEERE--VEELLRLEELAKILGVPVFEV--SAKTGEGV 152

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

>gnl|CDD|206677 cd01890, LepA, LepA also known as Elongation Factor 4 (EF4)

 Score = 54.1 bits (131), Expect = 4e-09
 Identities = 39/145 (26%), Positives = 58/145 (40%), Gaps = 33/145 (22%)

Query: 28  CVLGHVDTGKTKILDK-LRRTNVQDGEAG--------------GITQQIGATNVPADAIR 72
            ++ H+D GK+ + D+ L  T                      GIT       + A A+R
Sbjct: 4   SIIAHIDHGKSTLADRLLELTGTVSEREMKEQVLDSMDLERERGIT-------IKAQAVR 56

Query: 73  ENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLE 132
              K   G               L +IDTPGH  FS   +R  + C+ A+LVVD   G+E
Sbjct: 57  LFYKAKDGEEYL-----------LNLIDTPGHVDFSYEVSRSLAACEGALLVVDATQGVE 105

Query: 133 PQTIESINILKSKKTPFVVALNKID 157
            QT+ +  +        +  +NKID
Sbjct: 106 AQTLANFYLALENNLEIIPVINKID 130

LepA (also known as elongation factor 4, EF4) belongs to the GTPase family 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. Length = 179

>gnl|CDD|237358 PRK13351, PRK13351, elongation factor G; Reviewed

 Score = 56.5 bits (137), Expect = 4e-09
 Identities = 38/148 (25%), Positives = 60/148 (40%), Gaps = 41/148 (27%)

Query: 29  VLGHVDTGKTKILDKL--------RRTNVQDGEA----------GGITQQIGATNVPADA 70
           +L H+D GKT + +++        +   V+DG             GIT +  AT+   D 
Sbjct: 13  ILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDN 72

Query: 71  IRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG 130
            R N                       +IDTPGH  F+    R   + D A++V D + G
Sbjct: 73  HRIN-----------------------LIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTG 109

Query: 131 LEPQTIESINILKSKKTPFVVALNKIDR 158
           ++PQT            P ++ +NK+DR
Sbjct: 110 VQPQTETVWRQADRYGIPRLIFINKMDR 137

Length = 687

>gnl|CDD|206730 cd04167, Snu114p, Snu114p, a spliceosome protein, is a GTPase

 Score = 54.2 bits (131), Expect = 7e-09
 Identities = 27/62 (43%), Positives = 35/62 (56%)

Query: 98  IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKID 157
           IIDTPGH +F +       LCD  +LVVD++ GL   T   I     +  P V+ +NKID
Sbjct: 75  IIDTPGHVNFMDEVAAALRLCDGVVLVVDVVEGLTSVTERLIRHAIQEGLPMVLVINKID 134

Query: 158 RL 159
           RL
Sbjct: 135 RL 136

Snu114p subfamily. 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. Length = 213

>gnl|CDD|206672 cd01885, EF2, Elongation Factor 2 (EF2) in archaea and eukarya

 Score = 54.2 bits (131), Expect = 8e-09
 Identities = 42/150 (28%), Positives = 69/150 (46%), Gaps = 32/150 (21%)

Query: 27  VCVLGHVDTGKTKILD---------------KLRRTNVQDGE-AGGITQQIGATNVPADA 70
           +C++ HVD GKT + D               K R  + ++ E   GIT  I ++ +    
Sbjct: 3   ICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYLDTREDEQERGIT--IKSSAI---- 56

Query: 71  IRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG 130
               + +      ++ G   L    + +ID+PGH  FS+       L D A++VVD + G
Sbjct: 57  ----SLYFEYEEEKMDGNDYL----INLIDSPGHVDFSSEVTAALRLTDGALVVVDAVEG 108

Query: 131 LEPQTIESI-NILKSKKTPFVVALNKIDRL 159
           +  QT   +   L+ +  P V+ +NKIDRL
Sbjct: 109 VCVQTETVLRQALEERVKP-VLVINKIDRL 137

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. Second, the protein can be post-translationally modified by ADP-ribosylation. Various bacterial toxins perform this reaction after modification of a specific histidine residue to diphthamide, but there is evidence for endogenous ADP ribosylase activity. Similar to the bacterial toxins, it is presumed that modification by the endogenous enzyme also inhibits eEF2 activity. Length = 218

>gnl|CDD|206729 cd04166, CysN_ATPS, CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex

 Score = 53.7 bits (130), Expect = 9e-09
 Identities = 29/67 (43%), Positives = 38/67 (56%), Gaps = 13/67 (19%)

Query: 98  IIDTPGHESFSNLRN--RGSSLCDIAILVVDIMHGLEPQT-----IESINILKSKKTPFV 150
           I DTPGHE +   RN   G+S  D+AIL+VD   G+  QT     I S  +L  +    V
Sbjct: 82  IADTPGHEQY--TRNMVTGASTADLAILLVDARKGVLEQTRRHSYIAS--LLGIRH--VV 135

Query: 151 VALNKID 157
           VA+NK+D
Sbjct: 136 VAVNKMD 142

CysN_ATPS subfamily. 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. Length = 209

>gnl|CDD|225448 COG2895, CysN, GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

 Score = 53.5 bits (129), Expect = 3e-08
 Identities = 29/67 (43%), Positives = 38/67 (56%), Gaps = 13/67 (19%)

Query: 98  IIDTPGHESFSNLRN--RGSSLCDIAILVVDIMHGLEPQT-----IESINILKSKKTPFV 150
           I DTPGHE +   RN   G+S  D+AIL+VD   G+  QT     I S  +L  +    V
Sbjct: 90  IADTPGHEQY--TRNMATGASTADLAILLVDARKGVLEQTRRHSFIAS--LLGIRH--VV 143

Query: 151 VALNKID 157
           VA+NK+D
Sbjct: 144 VAVNKMD 150

Length = 431

>gnl|CDD|223556 COG0480, FusA, Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

 Score = 52.6 bits (127), Expect = 6e-08
 Identities = 38/151 (25%), Positives = 61/151 (40%), Gaps = 40/151 (26%)

Query: 27  VCVLGHVDTGKTKILDKL--------RRTNVQDGEA----------GGITQQIGATNVPA 68
           + ++ H+D GKT + +++        +   V DG A           GIT    AT +  
Sbjct: 13  IGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFW 72

Query: 69  DAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIM 128
               +    +                   +IDTPGH  F+    R   + D A++VVD +
Sbjct: 73  ----KGDYRIN------------------LIDTPGHVDFTIEVERSLRVLDGAVVVVDAV 110

Query: 129 HGLEPQTIESINILKSKKTPFVVALNKIDRL 159
            G+EPQT            P ++ +NK+DRL
Sbjct: 111 EGVEPQTETVWRQADKYGVPRILFVNKMDRL 141

Length = 697

>gnl|CDD|226593 COG4108, PrfC, Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

 Score = 52.6 bits (127), Expect = 7e-08
 Identities = 23/61 (37%), Positives = 37/61 (60%)

Query: 98  IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKID 157
           ++DTPGHE FS    R  +  D A++V+D   G+EPQT++   + + +  P    +NK+D
Sbjct: 85  LLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQTLKLFEVCRLRDIPIFTFINKLD 144

Query: 158 R 158
           R
Sbjct: 145 R 145

Length = 528

>gnl|CDD|129594 TIGR00503, prfC, peptide chain release factor 3

 Score = 51.8 bits (124), Expect = 1e-07
 Identities = 35/131 (26%), Positives = 61/131 (46%), Gaps = 3/131 (2%)

Query: 29  VLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIR-ENTKHVRGPGGEVGG 87
           ++ H D GKT I +K+         AG +  +    +  +D +  E  + +      +  
Sbjct: 16  IISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQF 75

Query: 88  PGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKT 147
           P    +  LL  DTPGHE FS    R  +  D  ++V+D   G+E +T + + + + + T
Sbjct: 76  PYRDCLVNLL--DTPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRLRDT 133

Query: 148 PFVVALNKIDR 158
           P    +NK+DR
Sbjct: 134 PIFTFMNKLDR 144

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 [Protein synthesis, Translation factors]. Length = 527

>gnl|CDD|235349 PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional

 Score = 51.5 bits (124), Expect = 1e-07
 Identities = 28/67 (41%), Positives = 40/67 (59%), Gaps = 13/67 (19%)

Query: 98  IIDTPGHESFSNLRN--RGSSLCDIAILVVDIMHGLEPQT-----IESINILKSKKTPFV 150
           I DTPGHE ++  RN   G+S CD+AIL++D   G+  QT     I ++  +K      V
Sbjct: 111 IADTPGHEQYT--RNMATGASTCDLAILLIDARKGVLDQTRRHSFIATLLGIKH----LV 164

Query: 151 VALNKID 157
           VA+NK+D
Sbjct: 165 VAVNKMD 171

Length = 474

>gnl|CDD|234395 TIGR03918, GTP_HydF, [FeFe] hydrogenase H-cluster maturation GTPase HydF

 Score = 50.6 bits (122), Expect = 3e-07
 Identities = 26/78 (33%), Positives = 39/78 (50%), Gaps = 10/78 (12%)

Query: 90  PLEIPGL---LIIDTPGHE---SFSNLRNRGS----SLCDIAILVVDIMHGLEPQTIESI 139
            +E+  L   ++IDT G +       LR   +       D+A+LVVD   G     +E I
Sbjct: 48  AMELLPLGPVVLIDTAGLDDEGELGELRVEKTREVLDKTDLALLVVDAGVGPGEYELELI 107

Query: 140 NILKSKKTPFVVALNKID 157
             LK +K P++V +NKID
Sbjct: 108 EELKERKIPYIVVINKID 125

This model describes the family of the [Fe] hydrogenase maturation protein HypF as characterized in Chlamydomonas reinhardtii and found, in an operon with radical SAM proteins HydE and HydG, in numerous bacteria. It has GTPase activity, can bind an 4Fe-4S cluster, and is essential for hydrogenase activity [Protein fate, Protein modification and repair]. Length = 391

>gnl|CDD|213679 TIGR02034, CysN, sulfate adenylyltransferase, large subunit

 Score = 50.4 bits (121), Expect = 3e-07
 Identities = 25/65 (38%), Positives = 38/65 (58%), Gaps = 7/65 (10%)

Query: 97  LIIDTPGHESFSNLRN--RGSSLCDIAILVVDIMHGLEPQTIE--SINILKSKKTPFVVA 152
           ++ DTPGHE ++  RN   G+S  D+A+L+VD   G+  QT     I  L   +   V+A
Sbjct: 83  IVADTPGHEQYT--RNMATGASTADLAVLLVDARKGVLEQTRRHSYIASLLGIRH-VVLA 139

Query: 153 LNKID 157
           +NK+D
Sbjct: 140 VNKMD 144

Metabolic assimilation of sulfur from inorganic sulfate, requires sulfate activation by coupling to a nucleoside, for the production of high-energy nucleoside phosphosulfates. This pathway appears to be similar in all prokaryotic organisms. Activation is first achieved through sulfation of sulfate with ATP by sulfate adenylyltransferase (ATP sulfurylase) to produce 5'-phosphosulfate (APS), coupled by GTP hydrolysis. Subsequently, APS is phosphorylated by an APS kinase to produce 3'-phosphoadenosine-5'-phosphosulfate (PAPS). In Escherichia coli, ATP sulfurylase is a heterodimer composed of two subunits encoded by cysD and cysN, with APS kinase encoded by cysC. These genes are located in a unidirectionally transcribed gene cluster, and have been shown to be required for the synthesis of sulfur-containing amino acids. 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) [Central intermediary metabolism, Sulfur metabolism]. Length = 406

>gnl|CDD|211860 TIGR03680, eif2g_arch, translation initiation factor 2 subunit gamma

 Score = 50.4 bits (121), Expect = 3e-07
 Identities = 37/143 (25%), Positives = 60/143 (41%), Gaps = 12/143 (8%)

Query: 25  AIVCVLGHVDTGKTKILDKLR--RTNVQDGEAG-GITQQIGATNVP---ADAIRENTKHV 78
             + ++GHVD GKT +   L    T+    E   GI+ ++G  +              + 
Sbjct: 5   VNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYT 64

Query: 79  RGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGL-EPQTIE 137
             P     G     +  +  +D PGHE+       G++L D A+LV+       +PQT E
Sbjct: 65  TEPVCPNCGSETELLRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTRE 124

Query: 138 ---SINILKSKKTPFVVALNKID 157
              ++ I+  K    V+  NKID
Sbjct: 125 HLMALEIIGIKN--IVIVQNKID 145

This model represents the archaeal translation initiation factor 2 subunit gamma and is found in all known archaea. eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. Length = 406

>gnl|CDD|225815 COG3276, SelB, Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

 Score = 50.5 bits (121), Expect = 3e-07
 Identities = 44/177 (24%), Positives = 60/177 (33%), Gaps = 34/177 (19%)

Query: 26  IVCVLGHVDTGKTKILDKLRRTNVQDG---EAG--GITQQIGATNVPADAIRENTKHVRG 80
           I+   GH+D GKT +L  L  T        E    GIT  +G      +           
Sbjct: 2   IIGTAGHIDHGKTTLLKAL--TGGVTDRLPEEKKRGITIDLGFYYRKLEDGV-------- 51

Query: 81  PGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN 140
                          +  ID PGH  F +    G    D A+LVV    GL  QT E + 
Sbjct: 52  ---------------MGFIDVPGHPDFISNLLAGLGGIDYALLVVAADEGLMAQTGEHLL 96

Query: 141 ILKSKKTP-FVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEI 196
           IL        ++ L K DR+   +          I +  S         SA+ G+ I
Sbjct: 97  ILDLLGIKNGIIVLTKADRV---DEARIEQKIKQILADLSLANAKIFKTSAKTGRGI 150

Length = 447

>gnl|CDD|206726 cd04163, Era, E

 Score = 48.6 bits (117), Expect = 3e-07
 Identities = 23/74 (31%), Positives = 37/74 (50%), Gaps = 8/74 (10%)

Query: 96  LLIIDTPG-HESFSNLRNR-----GSSL--CDIAILVVDIMHGLEPQTIESINILKSKKT 147
           ++ +DTPG H+    L  R      S+L   D+ + VVD    +       + +LK  KT
Sbjct: 53  IIFVDTPGIHKPKKKLGERMVKAAWSALKDVDLVLFVVDASEWIGEGDEFILELLKKSKT 112

Query: 148 PFVVALNKIDRLYN 161
           P ++ LNKID + +
Sbjct: 113 PVILVLNKIDLVKD 126

coli Ras-like protein (Era) is a multifunctional GTPase. 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. Length = 168

>gnl|CDD|206665 cd01876, YihA_EngB, YihA (EngB) GTPase family

 Score = 48.3 bits (116), Expect = 5e-07
 Identities = 29/120 (24%), Positives = 46/120 (38%), Gaps = 22/120 (18%)

Query: 94  PGLLIIDTPG----------HESFSN-----LRNRGSSLCDIAILVVDIMHGLEPQTIES 138
               ++D PG           E +       L NR  +L    +L++D  HG  P  +E 
Sbjct: 45  DKFRLVDLPGYGYAKVSKEVREKWGKLIEEYLENR-ENLK-GVVLLIDARHGPTPIDLEM 102

Query: 139 INILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVE--SARKGQEI 196
           +  L+    PF++ L K D+L          V   IK + +       V   S++KG  I
Sbjct: 103 LEFLEELGIPFLIVLTKADKL---KKSELAKVLKKIKEELNLFNILPPVILFSSKKGTGI 159

The YihA (EngB) 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. Length = 170

>gnl|CDD|206678 cd01891, TypA_BipA, Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases

 Score = 47.6 bits (114), Expect = 9e-07
 Identities = 46/151 (30%), Positives = 59/151 (39%), Gaps = 45/151 (29%)

Query: 27  VCVLGHVDTGKTKILDKL------RRTNVQDGE----------AGGITQQIGATNVPADA 70
           + ++ HVD GKT ++D L       R N + GE            GIT  I A N    A
Sbjct: 5   IAIIAHVDHGKTTLVDALLKQSGTFRENEEVGERVMDSNDLERERGIT--ILAKNT---A 59

Query: 71  IRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG 130
           I      +                   IIDTPGH  F     R  S+ D  +L+VD   G
Sbjct: 60  ITYKDTKIN------------------IIDTPGHADFGGEVERVLSMVDGVLLLVDASEG 101

Query: 131 LEPQTIESINILK---SKKTPFVVALNKIDR 158
             PQT     +LK         +V +NKIDR
Sbjct: 102 PMPQT---RFVLKKALEAGLKPIVVINKIDR 129

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. coli has been shown to be phosphorylated on a tyrosine residue, while BipA from Salmonella and from E. coli K12 strains is not phosphorylated under the conditions assayed. The phosphorylation apparently modifies the rate of nucleotide hydrolysis, with the phosphorylated form showing greatly increased GTPase activity. Length = 194

>gnl|CDD|179105 PRK00741, prfC, peptide chain release factor 3; Provisional

 Score = 48.6 bits (117), Expect = 1e-06
 Identities = 24/61 (39%), Positives = 38/61 (62%)

Query: 98  IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKID 157
           ++DTPGHE FS    R  +  D A++V+D   G+EPQT + + + + + TP    +NK+D
Sbjct: 83  LLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQTRKLMEVCRLRDTPIFTFINKLD 142

Query: 158 R 158
           R
Sbjct: 143 R 143

Length = 526

>gnl|CDD|234624 PRK00089, era, GTPase Era; Reviewed

 Score = 48.1 bits (116), Expect = 1e-06
 Identities = 26/70 (37%), Positives = 35/70 (50%), Gaps = 10/70 (14%)

Query: 99  IDTPG-HESFSNLRNRG------SSL--CDIAILVVDIMHGLEPQTIESINILKSKKTPF 149
           +DTPG H+    L NR       SSL   D+ + VVD    + P     +  LK  KTP 
Sbjct: 58  VDTPGIHKPKRAL-NRAMNKAAWSSLKDVDLVLFVVDADEKIGPGDEFILEKLKKVKTPV 116

Query: 150 VVALNKIDRL 159
           ++ LNKID +
Sbjct: 117 ILVLNKIDLV 126

Length = 292

>gnl|CDD|182508 PRK10512, PRK10512, selenocysteinyl-tRNA-specific translation factor; Provisional

 Score = 48.1 bits (115), Expect = 2e-06
 Identities = 51/147 (34%), Positives = 59/147 (40%), Gaps = 46/147 (31%)

Query: 26  IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRG----- 80
           I+   GHVD GKT +L                 Q I  T V AD + E  K  RG     
Sbjct: 2   IIATAGHVDHGKTTLL-----------------QAI--TGVNADRLPEEKK--RGMTIDL 40

Query: 81  -------PGGEVGGPGPLEIPGLLIIDTPGHESF-SNLRNRGSSLCDIAILVVDIMHGLE 132
                  P G V G           ID PGHE F SN+   G    D A+LVV    G+ 
Sbjct: 41  GYAYWPQPDGRVLG----------FIDVPGHEKFLSNMLA-GVGGIDHALLVVACDDGVM 89

Query: 133 PQTIESINILKSKKTP-FVVALNKIDR 158
            QT E + IL+    P   VAL K DR
Sbjct: 90  AQTREHLAILQLTGNPMLTVALTKADR 116

Length = 614

>gnl|CDD|233394 TIGR01394, TypA_BipA, GTP-binding protein TypA/BipA

 Score = 47.7 bits (114), Expect = 2e-06
 Identities = 38/140 (27%), Positives = 60/140 (42%), Gaps = 23/140 (16%)

Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRE--------NTKHV 78
           + ++ HVD GKT ++D L + +        + +++  +N   D  RE        NT  +
Sbjct: 4   IAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSN---DLERERGITILAKNTA-I 59

Query: 79  RGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIES 138
           R  G ++            I+DTPGH  F     R   + D  +L+VD   G  PQT   
Sbjct: 60  RYNGTKIN-----------IVDTPGHADFGGEVERVLGMVDGVLLLVDASEGPMPQTRFV 108

Query: 139 INILKSKKTPFVVALNKIDR 158
           +          +V +NKIDR
Sbjct: 109 LKKALELGLKPIVVINKIDR 128

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 [Regulatory functions, Other, Cellular processes, Adaptations to atypical conditions, Protein synthesis, Translation factors]. Length = 594

>gnl|CDD|130460 TIGR01393, lepA, GTP-binding protein LepA

 Score = 47.3 bits (113), Expect = 3e-06
 Identities = 38/139 (27%), Positives = 64/139 (46%), Gaps = 21/139 (15%)

Query: 28  CVLGHVDTGKTKILDK-LRRTNVQDG--------EAGGITQQIGATNVPADAIRENTKHV 78
            ++ H+D GK+ + D+ L  T             ++  + ++ G T + A A+R N K  
Sbjct: 7   SIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGIT-IKAQAVRLNYKAK 65

Query: 79  RGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIES 138
            G               L +IDTPGH  FS   +R  + C+ A+L+VD   G+E QT+ +
Sbjct: 66  DGETYV-----------LNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLAN 114

Query: 139 INILKSKKTPFVVALNKID 157
           + +        +  +NKID
Sbjct: 115 VYLALENDLEIIPVINKID 133

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 [Unknown function, General]. Length = 595

>gnl|CDD|224138 COG1217, TypA, Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

 Score = 47.2 bits (113), Expect = 4e-06
 Identities = 44/150 (29%), Positives = 59/150 (39%), Gaps = 43/150 (28%)

Query: 27  VCVLGHVDTGKTKILDKLRR-----------------TNVQDGEAGGITQQIGATNVPAD 69
           + ++ HVD GKT ++D L +                 +N  + E G IT  I A N    
Sbjct: 8   IAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERG-IT--ILAKNT--- 61

Query: 70  AIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMH 129
           A+  N   +                   I+DTPGH  F     R  S+ D  +L+VD   
Sbjct: 62  AVNYNGTRIN------------------IVDTPGHADFGGEVERVLSMVDGVLLLVDASE 103

Query: 130 GLEPQT-IESINILKSKKTPFVVALNKIDR 158
           G  PQT       L     P VV +NKIDR
Sbjct: 104 GPMPQTRFVLKKALALGLKPIVV-INKIDR 132

Length = 603

>gnl|CDD|129581 TIGR00490, aEF-2, translation elongation factor aEF-2

 Score = 46.8 bits (111), Expect = 5e-06
 Identities = 50/160 (31%), Positives = 72/160 (45%), Gaps = 15/160 (9%)

Query: 7   KRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV 66
           K  +KI+E      F+R   +    H+D GKT + D L         AG I++++    +
Sbjct: 4   KMIDKIKELMWKPKFIRNIGIV--AHIDHGKTTLSDNLL------AGAGMISEELAGQQL 55

Query: 67  PAD-AIRENTKHVRGPGGEVGGPGPLEIPGLLI--IDTPGHESFSNLRNRGSSLCDIAIL 123
             D   +E  + +      V      E    LI  IDTPGH  F     R     D AI+
Sbjct: 56  YLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGHVDFGGDVTRAMRAVDGAIV 115

Query: 124 VVDIMHGLEPQTIESI--NILKSKKTPFVVALNKIDRLYN 161
           VV  + G+ PQT E++    LK    P V+ +NK+DRL N
Sbjct: 116 VVCAVEGVMPQT-ETVLRQALKENVKP-VLFINKVDRLIN 153

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 [Protein synthesis, Translation factors]. Length = 720

>gnl|CDD|224081 COG1159, Era, GTPase [General function prediction only]

 Score = 46.4 bits (111), Expect = 6e-06
 Identities = 37/147 (25%), Positives = 63/147 (42%), Gaps = 20/147 (13%)

Query: 99  IDTPG-HESFSNL-----RNRGSSL--CDIAILVVDIMHGLEPQTIESINILKSKKTPFV 150
           +DTPG H+    L     +   S+L   D+ + VVD   G  P     +  LK  KTP +
Sbjct: 59  VDTPGIHKPKHALGELMNKAARSALKDVDLILFVVDADEGWGPGDEFILEQLKKTKTPVI 118

Query: 151 VALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVE-SARKGQEI---CIKIEPIPGE 206
           + +NKID++       +  +  +I   +  +   + V  SA KG  +      I+    E
Sbjct: 119 LVVNKIDKVK-----PKTVLLKLIAFLKKLLPFKEIVPISALKGDNVDTLLEIIKEYLPE 173

Query: 207 APKMFGRHF--DEND-FLVSKISRQSI 230
            P  +      D  + FL ++I R+ +
Sbjct: 174 GPWYYPEDQITDRPERFLAAEIIREKL 200

Length = 298

>gnl|CDD|237186 PRK12740, PRK12740, elongation factor G; Reviewed

 Score = 46.7 bits (112), Expect = 6e-06
 Identities = 37/152 (24%), Positives = 55/152 (36%), Gaps = 51/152 (33%)

Query: 30  LGHVDTGKTKILDKL--------RRTNVQDGEAG----------GITQQIGATNVPADAI 71
           +GH   GKT + + +        R   V+DG             GI+    AT       
Sbjct: 1   VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKGH 60

Query: 72  RENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESF-----SNLRNRGSSLCDIAILVVD 126
           + N                       +IDTPGH  F       LR     + D A++VV 
Sbjct: 61  KIN-----------------------LIDTPGHVDFTGEVERALR-----VLDGAVVVVC 92

Query: 127 IMHGLEPQTIESINILKSKKTPFVVALNKIDR 158
            + G+EPQT       +    P ++ +NK+DR
Sbjct: 93  AVGGVEPQTETVWRQAEKYGVPRIIFVNKMDR 124

Length = 668

>gnl|CDD|206731 cd04168, TetM_like, Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins

 Score = 45.7 bits (109), Expect = 7e-06
 Identities = 25/62 (40%), Positives = 35/62 (56%)

Query: 98  IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKID 157
           IIDTPGH  F     R  S+ D AILV+  + G++ QT     +L+    P ++ +NKID
Sbjct: 68  IIDTPGHMDFIAEVERSLSVLDGAILVISAVEGVQAQTRILFRLLRKLNIPTIIFVNKID 127

Query: 158 RL 159
           R 
Sbjct: 128 RA 129

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. Length = 237

>gnl|CDD|227582 COG5257, GCD11, Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

 Score = 45.4 bits (108), Expect = 1e-05
 Identities = 37/153 (24%), Positives = 61/153 (39%), Gaps = 32/153 (20%)

Query: 25  AIVCVLGHVDTGKTKIL------------DKLRRTNVQDGEAGGITQQIGATNVP----A 68
             + ++GHVD GKT +             ++L+R         GIT ++G  +       
Sbjct: 11  VNIGMVGHVDHGKTTLTKALSGVWTDRHSEELKR---------GITIKLGYADAKIYKCP 61

Query: 69  DAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDI- 127
           +  R             G    L    +  +D PGHE+       G++L D A+LV+   
Sbjct: 62  ECYRPECYTTEPKCPNCGAETELV-RRVSFVDAPGHETLMATMLSGAALMDGALLVIAAN 120

Query: 128 MHGLEPQTIE---SINILKSKKTPFVVALNKID 157
               +PQT E   ++ I+  K    ++  NKID
Sbjct: 121 EPCPQPQTREHLMALEIIGIKN--IIIVQNKID 151

Length = 415

>gnl|CDD|129575 TIGR00484, EF-G, translation elongation factor EF-G

 Score = 45.6 bits (108), Expect = 2e-05
 Identities = 20/61 (32%), Positives = 33/61 (54%)

Query: 98  IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKID 157
           IIDTPGH  F+    R   + D A+ V+D + G++PQ+          + P +  +NK+D
Sbjct: 79  IIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVWRQANRYEVPRIAFVNKMD 138

Query: 158 R 158
           +
Sbjct: 139 K 139

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 [Protein synthesis, Translation factors]. Length = 689

>gnl|CDD|180120 PRK05506, PRK05506, bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

 Score = 44.9 bits (107), Expect = 2e-05
 Identities = 28/92 (30%), Positives = 46/92 (50%), Gaps = 30/92 (32%)

Query: 98  IIDTPGHESFSNLRN--RGSSLCDIAILVVDIMHGLEPQT-----------IESINILKS 144
           + DTPGHE ++  RN   G+S  D+AI++VD   G+  QT           I  +     
Sbjct: 108 VADTPGHEQYT--RNMVTGASTADLAIILVDARKGVLTQTRRHSFIASLLGIRHV----- 160

Query: 145 KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS 176
                V+A+NK+D L +++    ++V D I +
Sbjct: 161 -----VLAVNKMD-LVDYD----QEVFDEIVA 182

Length = 632

>gnl|CDD|206646 cd00880, Era_like, E

 Score = 42.2 bits (100), Expect = 4e-05
 Identities = 26/109 (23%), Positives = 43/109 (39%), Gaps = 12/109 (11%)

Query: 95  GLLIIDTPG-HESFSNLRNRGSSL------CDIAILVVDIMHGLEPQTIESINILKSKKT 147
            +++IDTPG  E     R R           D+ +LVVD       +    + +L+ +  
Sbjct: 47  PVVLIDTPGLDEEGGLGRERVEEARQVADRADLVLLVVDSDLTPVEEE-AKLGLLRERGK 105

Query: 148 PFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEI 196
           P ++ LNKID L    +     +R+        +       SA  G+ I
Sbjct: 106 PVLLVLNKID-LVP-ESEEEELLRERKLELLPDLPVIAV--SALPGEGI 150

coli Ras-like protein (Era)-like GTPase. The Era (E. coli Ras-like protein)-like family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngB), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Length = 161

>gnl|CDD|227581 COG5256, TEF1, Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

 Score = 43.1 bits (102), Expect = 7e-05
 Identities = 39/176 (22%), Positives = 63/176 (35%), Gaps = 65/176 (36%)

Query: 27  VCVLGHVDTGKT---------------KILDKLRRTNVQDGEAG---------------- 55
           +  +GHVD GK+               + ++KL +   + G+                  
Sbjct: 10  LVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERER 69

Query: 56  GITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESF-SNLRNRG 114
           G+T  +  +    D                            IID PGH  F  N+   G
Sbjct: 70  GVTIDVAHSKFETDKYN-----------------------FTIIDAPGHRDFVKNMIT-G 105

Query: 115 SSLCDIAILVVD-------IMHGLEPQTIESINILKS-KKTPFVVALNKIDRLYNW 162
           +S  D+A+LVVD          G+  QT E   + ++      +VA+NK+D L +W
Sbjct: 106 ASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLGIKQLIVAVNKMD-LVSW 160

Length = 428

>gnl|CDD|223557 COG0481, LepA, Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

 Score = 43.3 bits (103), Expect = 7e-05
 Identities = 24/60 (40%), Positives = 35/60 (58%)

Query: 98  IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKID 157
           +IDTPGH  FS   +R  + C+ A+LVVD   G+E QT+ ++ +        +  LNKID
Sbjct: 80  LIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALENNLEIIPVLNKID 139

Length = 603

>gnl|CDD|104396 PRK10218, PRK10218, GTP-binding protein; Provisional

 Score = 43.2 bits (101), Expect = 8e-05
 Identities = 39/143 (27%), Positives = 61/143 (42%), Gaps = 29/143 (20%)

Query: 27  VCVLGHVDTGKTKILDKL--------RRTNVQDG--EAGGITQQIGATNVPAD-AIRENT 75
           + ++ HVD GKT ++DKL         R   Q+   ++  + ++ G T +  + AI+ N 
Sbjct: 8   IAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWND 67

Query: 76  KHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT 135
             +                   I+DTPGH  F     R  S+ D  +LVVD   G  PQT
Sbjct: 68  YRIN------------------IVDTPGHADFGGEVERVMSMVDSVLLVVDAFDGPMPQT 109

Query: 136 IESINILKSKKTPFVVALNKIDR 158
                   +     +V +NK+DR
Sbjct: 110 RFVTKKAFAYGLKPIVVINKVDR 132

Length = 607

>gnl|CDD|129576 TIGR00485, EF-Tu, translation elongation factor TU

 Score = 42.5 bits (100), Expect = 1e-04
 Identities = 47/154 (30%), Positives = 61/154 (39%), Gaps = 22/154 (14%)

Query: 9   REKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGIT-QQI-GATNV 66
           +EK E      N      +  +GHVD GKT +   +     ++G A      QI  A   
Sbjct: 3   KEKFERTKPHVN------IGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEE 56

Query: 67  PADAIRENTKHVRGPGGEVGGPGPLEIPG--LLIIDTPGHESFSNLRNRGSSLCDIAILV 124
            A  I  NT HV             E        +D PGH  +      G++  D AILV
Sbjct: 57  KARGITINTAHVE-----------YETENRHYAHVDCPGHADYVKNMITGAAQMDGAILV 105

Query: 125 VDIMHGLEPQTIESINILKSKKTPF-VVALNKID 157
           V    G  PQT E I + +    P+ VV LNK D
Sbjct: 106 VSATDGPMPQTREHILLARQVGVPYIVVFLNKCD 139

This model 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 [Protein synthesis, Translation factors]. Length = 394

>gnl|CDD|224082 COG1160, COG1160, Predicted GTPases [General function prediction only]

 Score = 42.2 bits (100), Expect = 1e-04
 Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 9/72 (12%)

Query: 95  GLLIIDTPGHESFSNL----RNRGSSL-----CDIAILVVDIMHGLEPQTIESINILKSK 145
             ++IDT G +           R  +L      D+ + VVD   G+ P   E   IL+  
Sbjct: 52  EFILIDTGGLDDGDEDELQELIREQALIAIEEADVILFVVDGREGITPADEEIAKILRRS 111

Query: 146 KTPFVVALNKID 157
           K P ++ +NKID
Sbjct: 112 KKPVILVVNKID 123

Length = 444

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

 Score = 40.7 bits (95), Expect = 3e-04
 Identities = 43/225 (19%), Positives = 82/225 (36%), Gaps = 36/225 (16%)

Query: 21  FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRG 80
           FM+   + VLG    GKT +L++L    V D    G    IG    PA  I    ++++ 
Sbjct: 2   FMKEFKIVVLGDGGVGKTTLLNRL----VGDEFPEGYPPTIG-NLDPAKTIEPYRRNIK- 55

Query: 81  PGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIM---HGLE--PQT 135
                          L + DT G E + +LR       +  ++V D        E   + 
Sbjct: 56  ---------------LQLWDTAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEW 100

Query: 136 IESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQE 195
           +E +  L     P ++  NKID        + +   + I +Q +  +    V + +    
Sbjct: 101 LEELRELAPDDVPILLVGNKIDLF------DEQSSSEEILNQLNR-EVVLLVLAPKAVLP 153

Query: 196 ICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDD 240
                  +   A  + G + +E   L  ++ R+ ++  +     +
Sbjct: 154 EVANPALLETSAKSLTGPNVNE---LFKELLRKLLEEIEKLVLKN 195

Length = 219

>gnl|CDD|234274 TIGR03594, GTPase_EngA, ribosome-associated GTPase EngA

 Score = 41.3 bits (98), Expect = 3e-04
 Identities = 22/94 (23%), Positives = 40/94 (42%), Gaps = 17/94 (18%)

Query: 97  LIIDTPG----------HESFSNLRNRGS-SLCDIAILVVDIMHGLEPQ--TIESINILK 143
            +IDT G           E +S LR   +    D+ +LV+D   G+  Q   I  +  L+
Sbjct: 223 TLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERADVVLLVLDATEGITEQDLRIAGL-ALE 281

Query: 144 SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ 177
           + K   V+ +NK D + +  T      +  ++ +
Sbjct: 282 AGK-ALVIVVNKWDLVKDEKTREE--FKKELRRK 312

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 [Protein synthesis, Other]. Length = 429

>gnl|CDD|206671 cd01884, EF_Tu, Elongation Factor Tu (EF-Tu) GTP-binding proteins

 Score = 40.3 bits (95), Expect = 3e-04
 Identities = 42/142 (29%), Positives = 53/142 (37%), Gaps = 36/142 (25%)

Query: 31  GHVDTGKT-------KILDKLRRTNVQDGEAGGITQQI-GATNVPADAIRENTKHV---- 78
           GHVD GKT       K+L K      +  +      +I  A    A  I  NT HV    
Sbjct: 9   GHVDHGKTTLTAAITKVLAKKGGAKAKKYD------EIDKAPEEKARGITINTAHVEYET 62

Query: 79  --RGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI 136
             R                   +D PGH  +      G++  D AILVV    G  PQT 
Sbjct: 63  ANRHYAH---------------VDCPGHADYIKNMITGAAQMDGAILVVSATDGPMPQTR 107

Query: 137 ESINILKSKKTP-FVVALNKID 157
           E + + +    P  VV LNK D
Sbjct: 108 EHLLLARQVGVPYIVVFLNKAD 129

EF-Tu subfamily. 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. Length = 195

>gnl|CDD|206673 cd01886, EF-G, Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis

 Score = 40.6 bits (96), Expect = 4e-04
 Identities = 40/146 (27%), Positives = 54/146 (36%), Gaps = 41/146 (28%)

Query: 32  HVDTGKT----KIL---DKLRRT-NVQDGEAG----------GITQQIGATNVPADAIRE 73
           H+D GKT    +IL    ++ +   V  G A           GIT Q  AT       R 
Sbjct: 7   HIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDWMEQERERGITIQSAATTCFWKDHRI 66

Query: 74  NTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEP 133
           N                       IIDTPGH  F+    R   + D A+ V D + G++P
Sbjct: 67  N-----------------------IIDTPGHVDFTIEVERSLRVLDGAVAVFDAVAGVQP 103

Query: 134 QTIESINILKSKKTPFVVALNKIDRL 159
           QT            P +  +NK+DR 
Sbjct: 104 QTETVWRQADRYGVPRIAFVNKMDRT 129

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 contains both eukaryotic and bacterial members. Length = 270

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

 Score = 41.0 bits (96), Expect = 4e-04
 Identities = 40/155 (25%), Positives = 65/155 (41%), Gaps = 25/155 (16%)

Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQI-----------GATNVPADAIRENT 75
           V  +GHVD GK+  +  L        + G I +Q            G  +     + +  
Sbjct: 10  VAFIGHVDHGKSTTVGHLLY------KCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRL 63

Query: 76  KHVRGPGGEVG-GPGPLEIPG--LLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG-- 130
           K  R  G  +       E     + I+D PGH  F      G+S  D A+LVV +  G  
Sbjct: 64  KEERERGVTIDVAHWKFETDKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEF 123

Query: 131 -LEPQTIESINILKSKK-TPFVVALNKIDRLYNWN 163
            ++PQT E   + ++      +VA+NK+D + N++
Sbjct: 124 EVQPQTREHAFLARTLGINQLIVAINKMDSV-NYD 157

This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels [Protein synthesis, Translation factors]. Length = 426

>gnl|CDD|236047 PRK07560, PRK07560, elongation factor EF-2; Reviewed

 Score = 40.6 bits (96), Expect = 5e-04
 Identities = 27/65 (41%), Positives = 37/65 (56%), Gaps = 4/65 (6%)

Query: 99  IDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESI--NILKSKKTPFVVALNKI 156
           IDTPGH  F     R     D AI+VVD + G+ PQT E++    L+ +  P V+ +NK+
Sbjct: 92  IDTPGHVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQT-ETVLRQALRERVKP-VLFINKV 149

Query: 157 DRLYN 161
           DRL  
Sbjct: 150 DRLIK 154

Length = 731

>gnl|CDD|237055 PRK12317, PRK12317, elongation factor 1-alpha; Reviewed

 Score = 40.3 bits (95), Expect = 6e-04
 Identities = 24/64 (37%), Positives = 35/64 (54%), Gaps = 5/64 (7%)

Query: 98  IIDTPGHESFSNLRNRGSSLCDIAILVV---DIMHGLEPQTIESINILKSKKTP-FVVAL 153
           I+D PGH  F      G+S  D A+LVV   D   G+ PQT E + + ++      +VA+
Sbjct: 88  IVDCPGHRDFVKNMITGASQADAAVLVVAADDAG-GVMPQTREHVFLARTLGINQLIVAI 146

Query: 154 NKID 157
           NK+D
Sbjct: 147 NKMD 150

Length = 425

>gnl|CDD|206681 cd01894, EngA1, EngA1 GTPase contains the first domain of EngA

 Score = 39.0 bits (92), Expect = 6e-04
 Identities = 21/69 (30%), Positives = 30/69 (43%), Gaps = 8/69 (11%)

Query: 97  LIIDTPGHESFSNL---RNRGSSL-----CDIAILVVDIMHGLEPQTIESINILKSKKTP 148
           ++IDT G E          R  +       D+ + VVD   GL P   E    L+  K P
Sbjct: 48  ILIDTGGIEPDDEGISKEIREQAEIAIEEADVILFVVDGREGLTPADEEIAKYLRKSKKP 107

Query: 149 FVVALNKID 157
            ++ +NKID
Sbjct: 108 VILVVNKID 116

This EngA1 subfamily 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. Length = 157

>gnl|CDD|223296 COG0218, COG0218, Predicted GTPase [General function prediction only]

 Score = 39.5 bits (93), Expect = 7e-04
 Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 2/50 (4%)

Query: 110 LRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRL 159
           L  R ++L    +L++D  H  +    E I  L     P +V L K D+L
Sbjct: 101 LEKR-ANLK-GVVLLIDARHPPKDLDREMIEFLLELGIPVIVVLTKADKL 148

Length = 200

>gnl|CDD|213835 TIGR03598, GTPase_YsxC, ribosome biogenesis GTP-binding protein YsxC/EngB

 Score = 39.0 bits (92), Expect = 7e-04
 Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 2/50 (4%)

Query: 110 LRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRL 159
           L  R  +L  + +L++DI H L+   +E I  L+ +  P ++ L K D+L
Sbjct: 95  LEKR-ENLKGV-VLLMDIRHPLKELDLEMIEWLRERGIPVLIVLTKADKL 142

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 [Protein synthesis, Other]. Length = 178

>gnl|CDD|177010 CHL00071, tufA, elongation factor Tu

 Score = 39.9 bits (94), Expect = 8e-04
 Identities = 25/62 (40%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 99  IDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKID 157
           +D PGH  +      G++  D AILVV    G  PQT E I + K    P  VV LNK D
Sbjct: 80  VDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTKEHILLAKQVGVPNIVVFLNKED 139

Query: 158 RL 159
           ++
Sbjct: 140 QV 141

Length = 409

>gnl|CDD|206733 cd04170, EF-G_bact, Elongation factor G (EF-G) family

 Score = 39.5 bits (93), Expect = 9e-04
 Identities = 23/66 (34%), Positives = 34/66 (51%), Gaps = 10/66 (15%)

Query: 98  IIDTPG-----HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVA 152
           +IDTPG      E+ S LR       D A++VV+   G+E  T +    L   K P ++ 
Sbjct: 68  LIDTPGYADFVGETLSALR-----AVDAALIVVEAQSGVEVGTEKVWEFLDDAKLPRIIF 122

Query: 153 LNKIDR 158
           +NK+DR
Sbjct: 123 INKMDR 128

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 contains only bacterial members. Length = 268

>gnl|CDD|178673 PLN03127, PLN03127, Elongation factor Tu; Provisional

 Score = 39.8 bits (93), Expect = 9e-04
 Identities = 41/140 (29%), Positives = 57/140 (40%), Gaps = 24/140 (17%)

Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGIT-QQIG-ATNVPADAIRENTKHV------ 78
           V  +GHVD GKT +   + +   ++G+A  +   +I  A    A  I   T HV      
Sbjct: 64  VGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYETAK 123

Query: 79  RGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIES 138
           R                   +D PGH  +      G++  D  ILVV    G  PQT E 
Sbjct: 124 RHYAH---------------VDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEH 168

Query: 139 INILKSKKTP-FVVALNKID 157
           I + +    P  VV LNK+D
Sbjct: 169 ILLARQVGVPSLVVFLNKVD 188

Length = 447

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

 Score = 39.0 bits (91), Expect = 9e-04
 Identities = 36/142 (25%), Positives = 55/142 (38%), Gaps = 19/142 (13%)

Query: 20  NFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVR 79
           N M    + V+G V  GKT  +  L              + +  T   A ++    K   
Sbjct: 6   NKMIETKIVVIGPVGAGKTTFVRAL------------SDKPLVITEADASSVSGKGKRPT 53

Query: 80  GPGGEVGGPGPLEI---PGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI 136
               +    G +E+    G+ +  TPG E F  +    S     AI++VD    +     
Sbjct: 54  TVAMD---FGSIELDEDTGVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITFHAE 110

Query: 137 ESINILKSKKT-PFVVALNKID 157
           E I+ L S+   P VVA+NK D
Sbjct: 111 EIIDFLTSRNPIPVVVAINKQD 132

Length = 187

>gnl|CDD|235194 PRK04000, PRK04000, translation initiation factor IF-2 subunit gamma; Validated

 Score = 39.8 bits (94), Expect = 0.001
 Identities = 40/152 (26%), Positives = 63/152 (41%), Gaps = 30/152 (19%)

Query: 25  AIVCVLGHVDTGKTKI--------LDK----LRRTNVQDGEAGGITQQIGATNVP---AD 69
             + ++GHVD GKT +         D+    L+R         GIT ++G  +       
Sbjct: 10  VNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKR---------GITIRLGYADATIRKCP 60

Query: 70  AIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDI-M 128
              E   +   P     G     +  +  +D PGHE+       G++L D AILV+    
Sbjct: 61  DCEEPEAYTTEPKCPNCGSETELLRRVSFVDAPGHETLMATMLSGAALMDGAILVIAANE 120

Query: 129 HGLEPQTIE---SINILKSKKTPFVVALNKID 157
              +PQT E   +++I+  K    V+  NKID
Sbjct: 121 PCPQPQTKEHLMALDIIGIKN--IVIVQNKID 150

Length = 411

>gnl|CDD|216791 pfam01926, MMR_HSR1, 50S ribosome-binding GTPase

 Score = 37.3 bits (87), Expect = 0.001
 Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 10/70 (14%)

Query: 96  LLIIDTPG--HESFSNLRNRGSSL-------CDIAILVVDIMHGLEPQTIESINIL-KSK 145
           ++++DTPG    +       G +         D+ +LVVD   GL     E +  L K  
Sbjct: 48  IILVDTPGLIEGASEGKGVEGFNRFLEAIREADLILLVVDASEGLTEDDEEILEELEKLP 107

Query: 146 KTPFVVALNK 155
           K P ++ LNK
Sbjct: 108 KKPIILVLNK 117

The full-length GTPase protein is required for the complete activity of the protein of interacting with the 50S ribosome and binding of both adenine and guanine nucleotides, with a preference for guanine nucleotide. Length = 117

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

 Score = 37.9 bits (88), Expect = 0.002
 Identities = 22/70 (31%), Positives = 30/70 (42%), Gaps = 11/70 (15%)

Query: 98  IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKS--------KKTPF 149
           I+DT G  SF  +R       D   LV  +    +P++ E +  L+         K  P 
Sbjct: 51  ILDTSGSYSFPAMRKLSIQNGDAFALVYSVD---DPESFEEVKRLREEILEVKEDKFVPI 107

Query: 150 VVALNKIDRL 159
           VV  NKID L
Sbjct: 108 VVVGNKIDSL 117

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

>gnl|CDD|206670 cd01883, EF1_alpha, Elongation Factor 1-alpha (EF1-alpha) protein family

 Score = 37.5 bits (88), Expect = 0.003
 Identities = 25/71 (35%), Positives = 36/71 (50%), Gaps = 14/71 (19%)

Query: 98  IIDTPGHESF-SNLRNRGSSLCDIAILVVDIMHG-------LEPQTIESINILKS---KK 146
           IID PGH  F  N+   G+S  D+A+LVV    G          QT E   + ++   K+
Sbjct: 81  IIDAPGHRDFVKNMIT-GASQADVAVLVVSARKGEFEAGFEKGGQTREHALLARTLGVKQ 139

Query: 147 TPFVVALNKID 157
              +VA+NK+D
Sbjct: 140 --LIVAVNKMD 148

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 yeast, and to associate with Dom34. It has been speculated that yeast Hbs1 and Dom34 proteins may function as part of a complex with a role in gene expression. Length = 219

>gnl|CDD|234274 TIGR03594, GTPase_EngA, ribosome-associated GTPase EngA

 Score = 37.8 bits (89), Expect = 0.004
 Identities = 14/40 (35%), Positives = 20/40 (50%)

Query: 118 CDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKID 157
            D+ + VVD   GL P+  E    L+    P ++  NKID
Sbjct: 79  ADVILFVVDGREGLTPEDEEIAKWLRKSGKPVILVANKID 118

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 [Protein synthesis, Other]. Length = 429

>gnl|CDD|235462 PRK05433, PRK05433, GTP-binding protein LepA; Provisional

 Score = 37.7 bits (89), Expect = 0.004
 Identities = 26/61 (42%), Positives = 35/61 (57%), Gaps = 4/61 (6%)

Query: 99  IDTPGHESFSNLRNRGSSL--CDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKI 156
           IDTPGH  FS   +R  SL  C+ A+LVVD   G+E QT+ ++ +        +  LNKI
Sbjct: 79  IDTPGHVDFSYEVSR--SLAACEGALLVVDASQGVEAQTLANVYLALENDLEIIPVLNKI 136

Query: 157 D 157
           D
Sbjct: 137 D 137

Length = 600

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	259
COG1159	298	Era GTPase [General function prediction only]	99.97
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.94
PRK15494	339	era GTPase Era; Provisional	99.93
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.93
PRK00089	292	era GTPase Era; Reviewed	99.93
KOG0084|consensus	205		99.92
KOG0092|consensus	200		99.91
KOG0094|consensus	221		99.91
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.91
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.91
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.91
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.91
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.9
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.9
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.9
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.9
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.9
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.9
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.9
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.9
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.9
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.9
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.9
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.9
PRK05306	787	infB translation initiation factor IF-2; Validated	99.9
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.9
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.9
COG0050	394	TufB GTPases - translation elongation factors [Tra	99.9
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.9
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.9
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.9
PRK12317	425	elongation factor 1-alpha; Reviewed	99.89
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.89
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.89
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.89
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.89
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.89
KOG0078|consensus	207		99.89
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.89
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.89
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.89
PRK12736	394	elongation factor Tu; Reviewed	99.89
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.89
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.89
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.89
CHL00071	409	tufA elongation factor Tu	99.89
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.89
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.89
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.89
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.89
PTZ00369	189	Ras-like protein; Provisional	99.89
KOG0098|consensus	216		99.89
PLN03126	478	Elongation factor Tu; Provisional	99.89
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.89
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.88
PRK12298	390	obgE GTPase CgtA; Reviewed	99.88
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.88
CHL00189	742	infB translation initiation factor 2; Provisional	99.88
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.88
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.88
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.88
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.88
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.88
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.88
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.88
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.88
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.88
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.88
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.88
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.88
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.88
PRK12735	396	elongation factor Tu; Reviewed	99.88
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.88
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.88
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.88
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.88
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.88
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.88
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.88
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.88
COG1160	444	Predicted GTPases [General function prediction onl	99.88
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.88
PRK04004	586	translation initiation factor IF-2; Validated	99.88
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.88
PLN03127	447	Elongation factor Tu; Provisional	99.88
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.88
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.88
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.88
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.87
PLN00043	447	elongation factor 1-alpha; Provisional	99.87
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.87
PLN03110	216	Rab GTPase; Provisional	99.87
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.87
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.87
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.87
cd00881	189	GTP_translation_factor GTP translation factor fami	99.87
PTZ00141	446	elongation factor 1- alpha; Provisional	99.87
KOG0460|consensus	449		99.87
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.87
PRK00049	396	elongation factor Tu; Reviewed	99.87
KOG1145|consensus	683		99.87
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.87
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.87
COG0218	200	Predicted GTPase [General function prediction only	99.87
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.87
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.87
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.87
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.87
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.87
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.87
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.87
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.87
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.87
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.87
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.87
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.87
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.87
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.87
KOG1423|consensus	379		99.86
PLN00223	181	ADP-ribosylation factor; Provisional	99.86
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.86
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.86
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.86
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.86
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.86
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.86
KOG0080|consensus	209		99.86
KOG1144|consensus	1064		99.86
KOG0394|consensus	210		99.86
PLN03118	211	Rab family protein; Provisional	99.86
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.86
PLN03108	210	Rab family protein; Provisional	99.86
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.86
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.86
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.85
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.85
KOG0087|consensus	222		99.85
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.85
COG1160	444	Predicted GTPases [General function prediction onl	99.85
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.85
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.85
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.85
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.85
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.85
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.85
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.85
KOG0079|consensus	198		99.85
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.85
PTZ00133	182	ADP-ribosylation factor; Provisional	99.85
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.85
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.85
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.85
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.84
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.84
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.84
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.84
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.84
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.84
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.84
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.84
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.84
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.84
PRK03003	472	GTP-binding protein Der; Reviewed	99.84
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.84
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.84
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.84
KOG0093|consensus	193		99.84
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.84
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.84
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.84
PRK04213	201	GTP-binding protein; Provisional	99.83
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.83
PRK10218	607	GTP-binding protein; Provisional	99.83
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.83
PRK03003	472	GTP-binding protein Der; Reviewed	99.83
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.83
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.83
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.83
KOG0086|consensus	214		99.83
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.83
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.82
PRK12299	335	obgE GTPase CgtA; Reviewed	99.82
COG0486	454	ThdF Predicted GTPase [General function prediction	99.82
PRK05433	600	GTP-binding protein LepA; Provisional	99.82
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.82
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.82
KOG0458|consensus	603		99.82
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.82
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.82
PRK00093	435	GTP-binding protein Der; Reviewed	99.82
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.82
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.82
KOG0095|consensus	213		99.82
PRK00093	435	GTP-binding protein Der; Reviewed	99.81
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.81
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.81
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.81
COG2229	187	Predicted GTPase [General function prediction only	99.81
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.81
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.81
KOG0462|consensus	650		99.81
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.81
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.8
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.8
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.8
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.8
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.8
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.8
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.79
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.79
PRK12297	424	obgE GTPase CgtA; Reviewed	99.79
KOG0073|consensus	185		99.79
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.79
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.79
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.78
PRK12296	500	obgE GTPase CgtA; Reviewed	99.78
PRK11058	426	GTPase HflX; Provisional	99.77
KOG0091|consensus	213		99.77
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.77
KOG0088|consensus	218		99.77
PLN00023	334	GTP-binding protein; Provisional	99.77
KOG0461|consensus	522		99.76
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.76
KOG0081|consensus	219		99.75
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.75
KOG0097|consensus	215		99.75
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.75
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.75
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.74
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.74
PRK09866	741	hypothetical protein; Provisional	99.74
KOG0395|consensus	196		99.74
KOG0070|consensus	181		99.74
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.73
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	99.73
KOG0075|consensus	186		99.73
PRK00007	693	elongation factor G; Reviewed	99.73
COG1100	219	GTPase SAR1 and related small G proteins [General	99.72
KOG0083|consensus	192		99.72
COG1084	346	Predicted GTPase [General function prediction only	99.72
PRK12739	691	elongation factor G; Reviewed	99.72
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.71
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.71
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.7
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.7
PRK14845	1049	translation initiation factor IF-2; Provisional	99.7
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.7
COG3276	447	SelB Selenocysteine-specific translation elongatio	99.7
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.7
COG3596	296	Predicted GTPase [General function prediction only	99.69
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.68
KOG1489|consensus	366		99.67
KOG0076|consensus	197		99.67
KOG0071|consensus	180		99.66
PRK13351	687	elongation factor G; Reviewed	99.66
PRK07560	731	elongation factor EF-2; Reviewed	99.66
PTZ00416	836	elongation factor 2; Provisional	99.65
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.65
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.65
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.64
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.64
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.63
COG2262	411	HflX GTPases [General function prediction only]	99.63
KOG4252|consensus	246		99.62
KOG0393|consensus	198		99.61
KOG1191|consensus	531		99.6
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.6
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.59
PTZ00099	176	rab6; Provisional	99.59
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.58
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	99.58
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	99.58
COG0536	369	Obg Predicted GTPase [General function prediction	99.57
KOG0072|consensus	182		99.56
KOG0074|consensus	185		99.56
COG1163	365	DRG Predicted GTPase [General function prediction	99.52
PRK12740	668	elongation factor G; Reviewed	99.51
PRK09602	396	translation-associated GTPase; Reviewed	99.51
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.5
COG5258	527	GTPBP1 GTPase [General function prediction only]	99.5
KOG1707|consensus	625		99.48
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.46
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.46
PRK13768	253	GTPase; Provisional	99.46
KOG1490|consensus	620		99.44
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	99.43
KOG0077|consensus	193		99.43
KOG0468|consensus	971		99.43
KOG1532|consensus	366		99.42
KOG3883|consensus	198		99.42
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	99.41
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.4
KOG0463|consensus	641		99.4
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.4
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.4
KOG0448|consensus	749		99.4
KOG0096|consensus	216		99.39
KOG0459|consensus	501		99.39
KOG0466|consensus	466		99.36
KOG0465|consensus	721		99.34
KOG1673|consensus	205		99.34
KOG2486|consensus	320		99.33
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.31
KOG1954|consensus	532		99.31
KOG0464|consensus	753		99.31
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.31
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	99.31
KOG0467|consensus	887		99.3
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.25
PRK09601	364	GTP-binding protein YchF; Reviewed	99.25
PTZ00258	390	GTP-binding protein; Provisional	99.24
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	99.23
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	99.22
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.21
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	99.21
COG0012	372	Predicted GTPase, probable translation factor [Tra	99.21
KOG1143|consensus	591		99.2
KOG0090|consensus	238		99.19
TIGR00101	199	ureG urease accessory protein UreG. This model rep	99.17
KOG4423|consensus	229		99.13
KOG0410|consensus	410		99.12
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	99.12
KOG3886|consensus	295		99.11
COG5019	373	CDC3 Septin family protein [Cell division and chro	99.11
KOG0469|consensus	842		99.1
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	99.08
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	99.04
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	99.02
KOG2655|consensus	366		99.0
KOG1547|consensus	336		98.97
KOG1486|consensus	364		98.89
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.89
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.88
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	98.84
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.8
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.73
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	98.72
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.71
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.68
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.68
KOG3905|consensus	473		98.67
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	98.67
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.66
PRK10416	318	signal recognition particle-docking protein FtsY;	98.65
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.65
PRK00098	298	GTPase RsgA; Reviewed	98.64
cd03112	158	CobW_like The function of this protein family is u	98.63
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.61
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.61
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.57
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.56
PRK14974	336	cell division protein FtsY; Provisional	98.56
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	98.54
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.54
PRK12289	352	GTPase RsgA; Reviewed	98.53
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.49
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.48
cd03114	148	ArgK-like The function of this protein family is u	98.47
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.47
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.47
KOG3887|consensus	347		98.46
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.46
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.45
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.44
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.44
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	98.44
COG1161	322	Predicted GTPases [General function prediction onl	98.43
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.42
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.41
KOG1487|consensus	358		98.4
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.37
PRK12288	347	GTPase RsgA; Reviewed	98.37
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.36
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	98.35
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	98.35
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	98.32
cd03115	173	SRP The signal recognition particle (SRP) mediates	98.3
KOG1491|consensus	391		98.3
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.3
KOG0082|consensus	354		98.3
PRK12289	352	GTPase RsgA; Reviewed	98.29
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.29
PRK00771	437	signal recognition particle protein Srp54; Provisi	98.28
COG1162	301	Predicted GTPases [General function prediction onl	98.27
PRK01889	356	GTPase RsgA; Reviewed	98.24
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.24
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	98.23
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	98.22
PRK13796	365	GTPase YqeH; Provisional	98.21
KOG3859|consensus	406		98.21
PRK11537	318	putative GTP-binding protein YjiA; Provisional	98.2
PRK12288	347	GTPase RsgA; Reviewed	98.2
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	98.18
COG0523	323	Putative GTPases (G3E family) [General function pr	98.16
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	98.16
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	98.12
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.11
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	98.11
PRK00098	298	GTPase RsgA; Reviewed	98.1
PRK10867	433	signal recognition particle protein; Provisional	98.08
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	98.04
TIGR00959	428	ffh signal recognition particle protein. This mode	98.04
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	98.03
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	98.02
KOG1707|consensus	625		98.01
KOG0447|consensus	980		98.0
KOG1424|consensus	562		97.97
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	97.97
KOG1534|consensus	273		97.95
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	97.94
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.94
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	97.94
PRK13796	365	GTPase YqeH; Provisional	97.92
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	97.89
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.88
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.87
KOG2485|consensus	335		97.84
cd03111	106	CpaE_like This protein family consists of proteins	97.82
COG3523	1188	IcmF Type VI protein secretion system component Va	97.8
cd02036	179	MinD Bacterial cell division requires the formatio	97.79
PRK13695	174	putative NTPase; Provisional	97.79
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	97.78
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.75
KOG2423|consensus	572		97.67
KOG0099|consensus	379		97.6
KOG1533|consensus	290		97.59
cd03110	179	Fer4_NifH_child This protein family's function is	97.59
KOG2484|consensus	435		97.54
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.54
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	97.53
KOG0780|consensus	483		97.53
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	97.52
cd02037	169	MRP-like MRP (Multiple Resistance and pH adaptatio	97.52
KOG1144|consensus	1064		97.47
KOG2743|consensus	391		97.44
KOG2484|consensus	435		97.41
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	97.33
PHA02518	211	ParA-like protein; Provisional	97.33
PRK01889	356	GTPase RsgA; Reviewed	97.28
COG1161	322	Predicted GTPases [General function prediction onl	97.24
KOG4181|consensus	491		97.21
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.21
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.17
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.15
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	97.13
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.07
COG1162	301	Predicted GTPases [General function prediction onl	97.07
KOG0085|consensus	359		97.06
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.04
cd02032	267	Bchl_like This family of proteins contains bchL an	97.02
PF00005	137	ABC_tran: ABC transporter This structure is on hol	97.02
KOG0781|consensus	587		97.02
PRK07261	171	topology modulation protein; Provisional	97.0
PRK13849	231	putative crown gall tumor protein VirC1; Provision	96.99
KOG0052|consensus	391		96.98
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.97
PRK08233	182	hypothetical protein; Provisional	96.97
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	96.96
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.91
KOG0446|consensus	657		96.9
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.88
PRK08118	167	topology modulation protein; Reviewed	96.83
KOG3347|consensus	176		96.83
cd02117	212	NifH_like This family contains the NifH (iron prot	96.82
PRK14530	215	adenylate kinase; Provisional	96.81
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	96.79
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.77
PRK14737	186	gmk guanylate kinase; Provisional	96.76
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.75
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	96.75
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	96.75
KOG0705|consensus	749		96.73
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	96.72
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.7
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.69
COG3638	258	ABC-type phosphate/phosphonate transport system, A	96.68
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.67
PLN02200	234	adenylate kinase family protein	96.67
KOG1424|consensus	562		96.66
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.65
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.65
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.63
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	96.62
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	96.62
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	96.62
PRK05480	209	uridine/cytidine kinase; Provisional	96.62
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.61
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	96.61
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.61
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.61
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.6
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.6
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.59
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	96.58
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	96.57
PTZ00301	210	uridine kinase; Provisional	96.57
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.57
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.56
cd03269	210	ABC_putative_ATPase This subfamily is involved in	96.55
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	96.55

>COG1159 Era GTPase [General function prediction only]

Probab=99.97  E-value=2.1e-31  Score=214.07  Aligned_cols=200  Identities=20%  Similarity=0.319  Sum_probs=155.1

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEE
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLII   99 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li   99 (259)
                      ..||++.|+++|+||+|||||+|+|+|.+.            +.++..+++++....++...+..          +++|+
T Consensus         2 ~~~ksGfVaIiGrPNvGKSTLlN~l~G~Ki------------sIvS~k~QTTR~~I~GI~t~~~~----------QiIfv   59 (298)
T COG1159           2 MKFKSGFVAIIGRPNVGKSTLLNALVGQKI------------SIVSPKPQTTRNRIRGIVTTDNA----------QIIFV   59 (298)
T ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhcCce------------EeecCCcchhhhheeEEEEcCCc----------eEEEE
Confidence            368899999999999999999999976664            34667778888888777654432          59999


Q ss_pred             eCCC-Ccc-------hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHH
Q psy6316         100 DTPG-HES-------FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVR  171 (259)
Q Consensus       100 DtpG-~~~-------~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~  171 (259)
                      |||| |..       +.......+..+|+++||+|+++++...+...+..++..+.|+++++||+|...+.     ..+.
T Consensus        60 DTPGih~pk~~l~~~m~~~a~~sl~dvDlilfvvd~~~~~~~~d~~il~~lk~~~~pvil~iNKID~~~~~-----~~l~  134 (298)
T COG1159          60 DTPGIHKPKHALGELMNKAARSALKDVDLILFVVDADEGWGPGDEFILEQLKKTKTPVILVVNKIDKVKPK-----TVLL  134 (298)
T ss_pred             eCCCCCCcchHHHHHHHHHHHHHhccCcEEEEEEeccccCCccHHHHHHHHhhcCCCeEEEEEccccCCcH-----HHHH
Confidence            9999 322       33344457789999999999999999988889999999889999999999998532     2133


Q ss_pred             HHHhhhhcccc-ccccccccccCcceeEEee---cCCCCCCcccccCC---cchhhHHHHhhhhhHHHHHHHHHhhcCch
Q psy6316         172 DIIKSQESSVQ-THKTVESARKGQEICIKIE---PIPGEAPKMFGRHF---DENDFLVSKISRQSIDACKDYFRDDLQKT  244 (259)
Q Consensus       172 ~~~~~~~~~~~-~~~i~~Sa~~g~gv~~~l~---~i~~~~~~~~~~~~---~~~~~~~~~~~~e~~~~l~~~~~~~~~~~  244 (259)
                      ...+....... ..++++||++|.|++.++.   ..+++.+++|+..+   .+++|+++|++||++      +.....++
T Consensus       135 ~~~~~~~~~~~f~~ivpiSA~~g~n~~~L~~~i~~~Lpeg~~~yp~d~itD~~~rf~~aEiiREk~------~~~l~eEl  208 (298)
T COG1159         135 KLIAFLKKLLPFKEIVPISALKGDNVDTLLEIIKEYLPEGPWYYPEDQITDRPERFLAAEIIREKL------LLLLREEL  208 (298)
T ss_pred             HHHHHHHhhCCcceEEEeeccccCCHHHHHHHHHHhCCCCCCcCChhhccCChHHHHHHHHHHHHH------HHhccccc
Confidence            33333333332 3778999999999998654   44788999998877   599999999999999      77777777


Q ss_pred             hhHHHHHH
Q psy6316         245 DWQLMVDL  252 (259)
Q Consensus       245 ~~~~~~~i  252 (259)
                      ++...+.|
T Consensus       209 Phsv~VeI  216 (298)
T COG1159         209 PHSVAVEI  216 (298)
T ss_pred             CceEEEEE
Confidence            77654433

>TIGR00436 era GTP-binding protein Era

Probab=99.94  E-value=1.7e-26  Score=191.09  Aligned_cols=189  Identities=21%  Similarity=0.292  Sum_probs=128.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      .|+++|++|||||||+|+|++.++.      +....      +.+++....++...          ...++.||||||+.
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~------~vs~~------~~TTr~~i~~i~~~----------~~~qii~vDTPG~~   59 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKIS------ITSPK------AQTTRNRISGIHTT----------GASQIIFIDTPGFH   59 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEe------ecCCC------CCcccCcEEEEEEc----------CCcEEEEEECcCCC
Confidence            5999999999999999999987652      11111      11111111111111          11139999999954


Q ss_pred             ch--------HHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         106 SF--------SNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       106 ~~--------~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      ..        ......++..+|++++|+|+++..... ..++..+...+.|+++|+||+|+..      .......+..+
T Consensus        60 ~~~~~l~~~~~~~~~~~l~~aDvvl~VvD~~~~~~~~-~~i~~~l~~~~~p~ilV~NK~Dl~~------~~~~~~~~~~~  132 (270)
T TIGR00436        60 EKKHSLNRLMMKEARSAIGGVDLILFVVDSDQWNGDG-EFVLTKLQNLKRPVVLTRNKLDNKF------KDKLLPLIDKY  132 (270)
T ss_pred             CCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCchH-HHHHHHHHhcCCCEEEEEECeeCCC------HHHHHHHHHHH
Confidence            32        122345678999999999998765543 4566677778899999999999862      23333334444


Q ss_pred             hccccc-cccccccccCcceeEEeecC---CCCCCcccccCC---cchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHH
Q psy6316         178 ESSVQT-HKTVESARKGQEICIKIEPI---PGEAPKMFGRHF---DENDFLVSKISRQSIDACKDYFRDDLQKTDWQLM  249 (259)
Q Consensus       178 ~~~~~~-~~i~~Sa~~g~gv~~~l~~i---~~~~~~~~~~~~---~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~  249 (259)
                      ....++ +++++||++|.|+++++..+   +.+.+++|+..+   .+.++.++|++||++      +.....++++.+.
T Consensus       133 ~~~~~~~~v~~iSA~~g~gi~~L~~~l~~~l~~~~~~~~~~~~t~~~~~~~~~e~ire~~------~~~~~~e~p~~~~  205 (270)
T TIGR00436       133 AILEDFKDIVPISALTGDNTSFLAAFIEVHLPEGPFRYPEDYVTDQPDRFKISEIIREKI------IRYTKEEIPHSVR  205 (270)
T ss_pred             HhhcCCCceEEEecCCCCCHHHHHHHHHHhCCCCCCCCCCcccCCCCHHHHHHHHHHHHH------HHhcccccCceEE
Confidence            333333 67899999999999865444   667777777665   478999999999999      7767777666544

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

>PRK15494 era GTPase Era; Provisional

Probab=99.93  E-value=7.2e-26  Score=192.41  Aligned_cols=194  Identities=20%  Similarity=0.306  Sum_probs=132.0

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+++|++|||||||+|+|++.++..     .+....       +++....++..          ....++.|||||
T Consensus        51 k~~kV~ivG~~nvGKSTLin~l~~~k~~i-----vs~k~~-------tTr~~~~~~~~----------~~~~qi~~~DTp  108 (339)
T PRK15494         51 KTVSVCIIGRPNSGKSTLLNRIIGEKLSI-----VTPKVQ-------TTRSIITGIIT----------LKDTQVILYDTP  108 (339)
T ss_pred             ceeEEEEEcCCCCCHHHHHHHHhCCceee-----ccCCCC-------CccCcEEEEEE----------eCCeEEEEEECC
Confidence            34579999999999999999999876531     111111       11111111110          111139999999


Q ss_pred             CCcc-hHH-------HHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316         103 GHES-FSN-------LRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus       103 G~~~-~~~-------~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      |+.. +..       ....++..+|++++|+|+++++...+..++..++..+.|.++|+||+|+...    ...+..+.+
T Consensus       109 G~~~~~~~l~~~~~r~~~~~l~~aDvil~VvD~~~s~~~~~~~il~~l~~~~~p~IlViNKiDl~~~----~~~~~~~~l  184 (339)
T PRK15494        109 GIFEPKGSLEKAMVRCAWSSLHSADLVLLIIDSLKSFDDITHNILDKLRSLNIVPIFLLNKIDIESK----YLNDIKAFL  184 (339)
T ss_pred             CcCCCcccHHHHHHHHHHHHhhhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEEEEEEhhcCccc----cHHHHHHHH
Confidence            9632 221       1223478999999999998877766666777788788899999999998631    122222222


Q ss_pred             hhhhccccccccccccccCcceeEEeecC---CCCCCcccccCC---cchhhHHHHhhhhhHHHHHHHHHhhcCchhhHH
Q psy6316         175 KSQESSVQTHKTVESARKGQEICIKIEPI---PGEAPKMFGRHF---DENDFLVSKISRQSIDACKDYFRDDLQKTDWQL  248 (259)
Q Consensus       175 ~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i---~~~~~~~~~~~~---~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~  248 (259)
                      ....  ....++++||++|.|+++++..+   ..+.+++|+...   .+.+++++|++||++      +.....++++..
T Consensus       185 ~~~~--~~~~i~~iSAktg~gv~eL~~~L~~~l~~~~~~~~~~~~td~~~~~~~~eiiRe~~------~~~~~~EiP~~~  256 (339)
T PRK15494        185 TENH--PDSLLFPISALSGKNIDGLLEYITSKAKISPWLYAEDDITDLPMRFIAAEITREQL------FLNLQKELPYKL  256 (339)
T ss_pred             HhcC--CCcEEEEEeccCccCHHHHHHHHHHhCCCCCCCCCCCCCCCCCHHHHHHHHHHHHH------HhhCCcccCceE
Confidence            2211  12567899999999999866554   667888888777   488999999999999      888888877765


Q ss_pred             HH
Q psy6316         249 MV  250 (259)
Q Consensus       249 ~~  250 (259)
                      .+
T Consensus       257 ~v  258 (339)
T PRK15494        257 TV  258 (339)
T ss_pred             EE
Confidence            43

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.93  E-value=4.2e-26  Score=190.32  Aligned_cols=211  Identities=23%  Similarity=0.273  Sum_probs=147.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccC------------CCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQ------------DGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLE   92 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (259)
                      .+++|+|++++|||||+.+|+..--.            ....+.-+..++.........+++...+....    ...+..
T Consensus         8 ~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~----~~fet~   83 (428)
T COG5256           8 LNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAH----SKFETD   83 (428)
T ss_pred             eEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEE----EEeecC
Confidence            46999999999999999999643100            00001111122222222222222221111000    000111


Q ss_pred             CCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCC-------CCHHHHHHHHHHHhCCCC-EEEEEecccccCcccc
Q psy6316          93 IPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG-------LEPQTIESINILKSKKTP-FVVALNKIDRLYNWNT  164 (259)
Q Consensus        93 ~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~-------~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~  164 (259)
                      ...|+|+|||||.+|.+.+...+++||++|+|+|+..+       ...++++++-..+..++. +|+++||+|... |++
T Consensus        84 k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlGi~~lIVavNKMD~v~-wde  162 (428)
T COG5256          84 KYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLGIKQLIVAVNKMDLVS-WDE  162 (428)
T ss_pred             CceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcCCceEEEEEEcccccc-cCH
Confidence            22399999999999999999999999999999999987       677889998888888864 788999999985 887


Q ss_pred             cchhhHHHHHhhhhcccc-----ccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHh
Q psy6316         165 MNRRDVRDIIKSQESSVQ-----THKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRD  239 (259)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~-----~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~  239 (259)
                      ...+++...+..+.+..+     ++++|+||.+|.|+-+.-    ...+||.+.              -.+++|+ .+..
T Consensus       163 ~rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~~s----~~~pWY~Gp--------------TLleaLd-~~~~  223 (428)
T COG5256         163 ERFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTKKS----ENMPWYKGP--------------TLLEALD-QLEP  223 (428)
T ss_pred             HHHHHHHHHHHHHHHHcCCCccCCeEEecccccCCcccccC----cCCcCccCC--------------hHHHHHh-ccCC
Confidence            788888888877665554     457899999999998733    456666433              2445555 4888


Q ss_pred             hcCchhhHHHHHHHHhhccC
Q psy6316         240 DLQKTDWQLMVDLKKVFQIL  259 (259)
Q Consensus       240 ~~~~~~~~~~~~i~~~~~~~  259 (259)
                      +.+.++.||+++|+++|+|.
T Consensus       224 p~~~~d~Plr~pI~~v~~i~  243 (428)
T COG5256         224 PERPLDKPLRLPIQDVYSIS  243 (428)
T ss_pred             CCCCCCCCeEeEeeeEEEec
Confidence            99999999999999999874

>PRK00089 era GTPase Era; Reviewed

Probab=99.93  E-value=4.4e-25  Score=184.96  Aligned_cols=196  Identities=19%  Similarity=0.290  Sum_probs=135.4

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      .+|++.|+++|++|||||||+|+|++.++...            ...+.+++.....+...+          ..+++|||
T Consensus         2 ~~~~g~V~iiG~pn~GKSTLin~L~g~~~~~v------------s~~~~tt~~~i~~i~~~~----------~~qi~~iD   59 (292)
T PRK00089          2 GFKSGFVAIVGRPNVGKSTLLNALVGQKISIV------------SPKPQTTRHRIRGIVTED----------DAQIIFVD   59 (292)
T ss_pred             CceeEEEEEECCCCCCHHHHHHHHhCCceeec------------CCCCCcccccEEEEEEcC----------CceEEEEE
Confidence            46788999999999999999999988765211            111112222211111111          11399999


Q ss_pred             CCCCcch--------HHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHH
Q psy6316         101 TPGHESF--------SNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       101 tpG~~~~--------~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      |||....        .......+..+|++++|+|+++..+..+..++..+...+.|+++|+||+|+...     ......
T Consensus        60 TPG~~~~~~~l~~~~~~~~~~~~~~~D~il~vvd~~~~~~~~~~~i~~~l~~~~~pvilVlNKiDl~~~-----~~~l~~  134 (292)
T PRK00089         60 TPGIHKPKRALNRAMNKAAWSSLKDVDLVLFVVDADEKIGPGDEFILEKLKKVKTPVILVLNKIDLVKD-----KEELLP  134 (292)
T ss_pred             CCCCCCchhHHHHHHHHHHHHHHhcCCEEEEEEeCCCCCChhHHHHHHHHhhcCCCEEEEEECCcCCCC-----HHHHHH
Confidence            9995432        223344678999999999998877777777777787778999999999999732     233344


Q ss_pred             HHhhhhccc-cccccccccccCcceeEEeecC---CCCCCcccccCC---cchhhHHHHhhhhhHHHHHHHHHhhcCchh
Q psy6316         173 IIKSQESSV-QTHKTVESARKGQEICIKIEPI---PGEAPKMFGRHF---DENDFLVSKISRQSIDACKDYFRDDLQKTD  245 (259)
Q Consensus       173 ~~~~~~~~~-~~~~i~~Sa~~g~gv~~~l~~i---~~~~~~~~~~~~---~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~  245 (259)
                      .++.+.... ..+++++||++|.|++.++..+   ..+.+++++...   .+.++++.|++||++      +.....+++
T Consensus       135 ~~~~l~~~~~~~~i~~iSA~~~~gv~~L~~~L~~~l~~~~~~y~~~~~td~~~r~~~~EiiRe~~------~~~l~~e~p  208 (292)
T PRK00089        135 LLEELSELMDFAEIVPISALKGDNVDELLDVIAKYLPEGPPYYPEDQITDRPERFLAAEIIREKL------LRLLGDELP  208 (292)
T ss_pred             HHHHHHhhCCCCeEEEecCCCCCCHHHHHHHHHHhCCCCCCCCCCCCCCCCCHHHHHHHHHHHHH------HhhCCccCC
Confidence            444444333 3567899999999999865544   455667777654   478999999999988      777777666


Q ss_pred             hHHH
Q psy6316         246 WQLM  249 (259)
Q Consensus       246 ~~~~  249 (259)
                      +...
T Consensus       209 ~~~~  212 (292)
T PRK00089        209 YSVA  212 (292)
T ss_pred             ceEE
Confidence            6543

>KOG0084|consensus

Probab=99.92  E-value=3e-25  Score=167.33  Aligned_cols=153  Identities=18%  Similarity=0.157  Sum_probs=124.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||+|+.++.+..+.+.+..+++.++...+...+....+                     +++|||+||
T Consensus        10 FKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iK---------------------lQIWDTAGQ   68 (205)
T KOG0084|consen   10 FKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIK---------------------LQIWDTAGQ   68 (205)
T ss_pred             EEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEE---------------------EEeeecccc
Confidence            56999999999999999999999999988889998887766665544322                     999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHhC---CCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKSK---KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~~---~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ++|+....++++.|+++|+|+|.++..++.... |+..+...   ++|.++|+||+|+...     +....+..+.+...
T Consensus        69 ERFrtit~syYR~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~-----~~v~~~~a~~fa~~  143 (205)
T KOG0084|consen   69 ERFRTITSSYYRGAHGIIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEK-----RVVSTEEAQEFADE  143 (205)
T ss_pred             HHHhhhhHhhccCCCeEEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhh-----eecCHHHHHHHHHh
Confidence            999999999999999999999999987777654 66666653   5799999999999753     22223334566666


Q ss_pred             cccc-ccccccccCcceeEEeecC
Q psy6316         181 VQTH-KTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~-~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+.+ ++++||+++.+++..+..+
T Consensus       144 ~~~~~f~ETSAK~~~NVe~~F~~l  167 (205)
T KOG0084|consen  144 LGIPIFLETSAKDSTNVEDAFLTL  167 (205)
T ss_pred             cCCcceeecccCCccCHHHHHHHH
Confidence            6777 7789999999998865544

>KOG0092|consensus

Probab=99.91  E-value=3.1e-25  Score=166.65  Aligned_cols=161  Identities=20%  Similarity=0.204  Sum_probs=128.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|..++|||||+-++...++.+...++++..+-..+.......     +                .+.||||+|
T Consensus         5 ~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~-----i----------------kfeIWDTAG   63 (200)
T KOG0092|consen    5 EFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNT-----I----------------KFEIWDTAG   63 (200)
T ss_pred             eEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcE-----E----------------EEEEEEcCC
Confidence            4569999999999999999999999988877777766655555443321     1                189999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHhCCCC---EEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKSKKTP---FVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~~~~p---iivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      +++|..+...|+++|+++|+|+|+++..+... +.|++.+.+..-|   +.+|+||+|+..     .++...+..+.+..
T Consensus        64 QERy~slapMYyRgA~AAivvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~-----~R~V~~~ea~~yAe  138 (200)
T KOG0092|consen   64 QERYHSLAPMYYRGANAAIVVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLLE-----RREVEFEEAQAYAE  138 (200)
T ss_pred             cccccccccceecCCcEEEEEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhh-----cccccHHHHHHHHH
Confidence            99999999999999999999999998777665 4577888775444   456999999984     24455566777777


Q ss_pred             cccccccccccccCcceeEEeecCCCCCCcc
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPIPGEAPKM  210 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~  210 (259)
                      ..+..++++||++|.|+++++..+....+..
T Consensus       139 ~~gll~~ETSAKTg~Nv~~if~~Ia~~lp~~  169 (200)
T KOG0092|consen  139 SQGLLFFETSAKTGENVNEIFQAIAEKLPCS  169 (200)
T ss_pred             hcCCEEEEEecccccCHHHHHHHHHHhccCc
Confidence            7889999999999999999887776665554

>KOG0094|consensus

Probab=99.91  E-value=1.5e-24  Score=162.99  Aligned_cols=164  Identities=16%  Similarity=0.149  Sum_probs=128.2

Q ss_pred             CcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeE
Q psy6316          18 DENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLL   97 (259)
Q Consensus        18 ~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (259)
                      .+..+|..+|+|+|..++||||||+++....+...+..+|+.++-..+........                     .++
T Consensus        16 ~~~~~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~v---------------------rLQ   74 (221)
T KOG0094|consen   16 FGAPLKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTV---------------------RLQ   74 (221)
T ss_pred             cCccceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEE---------------------EEE
Confidence            34567778899999999999999999999999999999999888665554433211                     299


Q ss_pred             EEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHhCC----CCEEEEEecccccCcccccchhhHHH
Q psy6316          98 IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKSKK----TPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus        98 liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~~~----~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      +|||+||++|..+...|++++.++|+|+|.++..+... ..|+.-++..+    +-+++|+||.|+...     ++-...
T Consensus        75 lWDTAGQERFrslipsY~Rds~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dk-----rqvs~e  149 (221)
T KOG0094|consen   75 LWDTAGQERFRSLIPSYIRDSSVAVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDK-----RQVSIE  149 (221)
T ss_pred             EEecccHHHHhhhhhhhccCCeEEEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccch-----hhhhHH
Confidence            99999999999999999999999999999998877665 45777766542    346689999999842     222333


Q ss_pred             HHhhhhccccccccccccccCcceeEEeecCCCCC
Q psy6316         173 IIKSQESSVQTHKTVESARKGQEICIKIEPIPGEA  207 (259)
Q Consensus       173 ~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~~  207 (259)
                      .-.+....++..++.+||+.|+|+..++.++....
T Consensus       150 Eg~~kAkel~a~f~etsak~g~NVk~lFrrIaa~l  184 (221)
T KOG0094|consen  150 EGERKAKELNAEFIETSAKAGENVKQLFRRIAAAL  184 (221)
T ss_pred             HHHHHHHHhCcEEEEecccCCCCHHHHHHHHHHhc
Confidence            33455666678888999999999998777654333

>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions

Probab=99.91  E-value=3.9e-25  Score=165.72  Aligned_cols=145  Identities=22%  Similarity=0.229  Sum_probs=96.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.||+|||||+|+|++.+.....+++.+       .......     +.           +....+.|+|+||..
T Consensus         2 ~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~T-------v~~~~g~-----~~-----------~~~~~~~lvDlPG~y   58 (156)
T PF02421_consen    2 RIALVGNPNVGKSTLFNALTGAKQKVGNWPGTT-------VEKKEGI-----FK-----------LGDQQVELVDLPGIY   58 (156)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSS-------SEEEEEE-----EE-----------ETTEEEEEEE----S
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCceecCCCCCC-------eeeeeEE-----EE-----------ecCceEEEEECCCcc
Confidence            499999999999999999999886433222222       2111100     00           011139999999932


Q ss_pred             c------hHHHHHhhc--cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         106 S------FSNLRNRGS--SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       106 ~------~~~~~~~~~--~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      .      -......++  ...|++++|+|+++  ...+..+..++.+.++|+++++||+|+..      +..+.-....+
T Consensus        59 sl~~~s~ee~v~~~~l~~~~~D~ii~VvDa~~--l~r~l~l~~ql~e~g~P~vvvlN~~D~a~------~~g~~id~~~L  130 (156)
T PF02421_consen   59 SLSSKSEEERVARDYLLSEKPDLIIVVVDATN--LERNLYLTLQLLELGIPVVVVLNKMDEAE------RKGIEIDAEKL  130 (156)
T ss_dssp             SSSSSSHHHHHHHHHHHHTSSSEEEEEEEGGG--HHHHHHHHHHHHHTTSSEEEEEETHHHHH------HTTEEE-HHHH
T ss_pred             cCCCCCcHHHHHHHHHhhcCCCEEEEECCCCC--HHHHHHHHHHHHHcCCCEEEEEeCHHHHH------HcCCEECHHHH
Confidence            2      122233333  68999999999987  56677888999999999999999999984      22222234445


Q ss_pred             hccccccccccccccCcceeEEee
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      ...++++++++||++|+|++++.+
T Consensus       131 s~~Lg~pvi~~sa~~~~g~~~L~~  154 (156)
T PF02421_consen  131 SERLGVPVIPVSARTGEGIDELKD  154 (156)
T ss_dssp             HHHHTS-EEEEBTTTTBTHHHHHH
T ss_pred             HHHhCCCEEEEEeCCCcCHHHHHh
Confidence            555689999999999999987544

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 ....

>cd04120 Rab12 Rab12 subfamily

Probab=99.91  E-value=3.3e-24  Score=169.52  Aligned_cols=153  Identities=17%  Similarity=0.215  Sum_probs=110.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      .|+++|..|+|||||++++....+...+..+++..+.........     ..+                .+.+|||+|++
T Consensus         2 ~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~-----~~v----------------~l~iwDtaGqe   60 (202)
T cd04120           2 QVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRG-----KKI----------------RLQIWDTAGQE   60 (202)
T ss_pred             EEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECC-----EEE----------------EEEEEeCCCch
Confidence            489999999999999999999888776666665444322222111     011                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc-
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS-  180 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~-  180 (259)
                      .|..++..+++.+|++|+|+|+++..+..... |+..+..   .+.|+++|+||+|+... .....    ...+.+... 
T Consensus        61 ~~~~l~~~y~~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~-~~v~~----~~~~~~a~~~  135 (202)
T cd04120          61 RFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETD-REISR----QQGEKFAQQI  135 (202)
T ss_pred             hhHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccc-cccCH----HHHHHHHHhc
Confidence            99999999999999999999999877766654 4444443   35899999999998632 11111    222233323 


Q ss_pred             ccccccccccccCcceeEEeecCC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      .++.++++||++|.|+++++..+.
T Consensus       136 ~~~~~~etSAktg~gV~e~F~~l~  159 (202)
T cd04120         136 TGMRFCEASAKDNFNVDEIFLKLV  159 (202)
T ss_pred             CCCEEEEecCCCCCCHHHHHHHHH
Confidence            256788999999999999776664

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

>cd04171 SelB SelB subfamily

Probab=99.91  E-value=5.6e-24  Score=163.00  Aligned_cols=152  Identities=28%  Similarity=0.306  Sum_probs=100.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccC---CCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQ---DGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +|+++|++|||||||+++|.+....   ....++.+............                      ...+.+||||
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~----------------------~~~~~~~Dtp   59 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPS----------------------GKRLGFIDVP   59 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecC----------------------CcEEEEEECC
Confidence            5999999999999999999864321   11111111111111111000                      1139999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCC-CEEEEEecccccCcccccchhhHHHHHhhhhcc-
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKT-PFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS-  180 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~-piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~-  180 (259)
                      |++++......+++.+|++++|+|++++...+..+.+..+...+. |+++++||+|+....   ......+.+...... 
T Consensus        60 G~~~~~~~~~~~~~~ad~ii~V~d~~~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~---~~~~~~~~~~~~~~~~  136 (164)
T cd04171          60 GHEKFIKNMLAGAGGIDLVLLVVAADEGIMPQTREHLEILELLGIKRGLVVLTKADLVDED---WLELVEEEIRELLAGT  136 (164)
T ss_pred             ChHHHHHHHHhhhhcCCEEEEEEECCCCccHhHHHHHHHHHHhCCCcEEEEEECccccCHH---HHHHHHHHHHHHHHhc
Confidence            999988877888899999999999988666666665555555555 999999999987321   111222233333222 


Q ss_pred             --ccccccccccccCcceeEEeec
Q psy6316         181 --VQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       181 --~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                        .+.+++++||++|+|+++++..
T Consensus       137 ~~~~~~~~~~Sa~~~~~v~~l~~~  160 (164)
T cd04171         137 FLADAPIFPVSAVTGEGIEELKEY  160 (164)
T ss_pred             CcCCCcEEEEeCCCCcCHHHHHHH
Confidence              3568889999999999875543

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

>cd04124 RabL2 RabL2 subfamily

Probab=99.91  E-value=4.3e-24  Score=163.61  Aligned_cols=149  Identities=17%  Similarity=0.198  Sum_probs=104.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++++..+......+.+............     ..+                .+.+|||||++
T Consensus         2 ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~----------------~~~i~Dt~G~~   60 (161)
T cd04124           2 KIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEG-----KTI----------------LVDFWDTAGQE   60 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECC-----EEE----------------EEEEEeCCCch
Confidence            599999999999999999998877654433333222111111110     001                28899999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHhC--CCCEEEEEecccccCcccccchhhHHHHHhhhhcccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKSK--KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ  182 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~~--~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~  182 (259)
                      .|..++..+++.+|++++|+|+++..+..+. .++..++..  +.|+++|+||+|+...    .    ......+....+
T Consensus        61 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~p~ivv~nK~Dl~~~----~----~~~~~~~~~~~~  132 (161)
T cd04124          61 RFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREYRPEIPCIVVANKIDLDPS----V----TQKKFNFAEKHN  132 (161)
T ss_pred             hhhhhhHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCcEEEEEECccCchh----H----HHHHHHHHHHcC
Confidence            9999999999999999999999886665543 455666543  6899999999998521    1    111222233345


Q ss_pred             ccccccccccCcceeEEeecC
Q psy6316         183 THKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       183 ~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ++++++||++|.|+++++..+
T Consensus       133 ~~~~~~Sa~~~~gv~~l~~~l  153 (161)
T cd04124         133 LPLYYVSAADGTNVVKLFQDA  153 (161)
T ss_pred             CeEEEEeCCCCCCHHHHHHHH
Confidence            788899999999998866544

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

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

Probab=99.90  E-value=2.3e-23  Score=164.42  Aligned_cols=165  Identities=24%  Similarity=0.266  Sum_probs=101.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc--cccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR--TNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      ++|+++|++|+|||||+++|++  ..+.....  ...... ...+.+...........      .........+.+||||
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~--~~~~~~-~~~~~e~~~g~t~~~~~------~~~~~~~~~~~l~Dtp   73 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEE--VEERVM-DSNDLERERGITILAKN------TAVTYKDTKINIVDTP   73 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCccCc--cccccc-ccchhHHhcccccccce------eEEEECCEEEEEEECC
Confidence            4799999999999999999986  33322210  000000 00000000000000000      0001112239999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhh---c
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE---S  179 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~---~  179 (259)
                      |+++|...+..+++.+|++++|+|++++.......++..+...++|+++++||+|+.........+++...+....   .
T Consensus        74 G~~~~~~~~~~~~~~~d~~ilV~d~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  153 (194)
T cd01891          74 GHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALELGLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEE  153 (194)
T ss_pred             CcHHHHHHHHHHHHhcCEEEEEEECCCCccHHHHHHHHHHHHcCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccc
Confidence            9999999999999999999999999887666666666766677899999999999864211111122222222111   2


Q ss_pred             cccccccccccccCcceeE
Q psy6316         180 SVQTHKTVESARKGQEICI  198 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~  198 (259)
                      ..+++++++||++|.|+.+
T Consensus       154 ~~~~~iv~~Sa~~g~~~~~  172 (194)
T cd01891         154 QLDFPVLYASAKNGWASLN  172 (194)
T ss_pred             cCccCEEEeehhccccccc
Confidence            3467889999999999865

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

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

Probab=99.90  E-value=1.1e-23  Score=162.21  Aligned_cols=155  Identities=51%  Similarity=0.778  Sum_probs=108.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      |.|+++|.+|+|||||+++|.+..+......+.+............                    .....+.+|||||+
T Consensus         1 ~~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--------------------~~~~~~~iiDtpG~   60 (168)
T cd01887           1 PVVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEV--------------------LKIPGITFIDTPGH   60 (168)
T ss_pred             CEEEEEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEeccc--------------------CCcceEEEEeCCCc
Confidence            4699999999999999999988776544332232222211111100                    01113999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhc-----
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES-----  179 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~-----  179 (259)
                      ..+...+..++..+|++++|+|++++...+....+..+...++|+++|+||+|+....    .+.....+.....     
T Consensus        61 ~~~~~~~~~~~~~~d~il~v~d~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~----~~~~~~~~~~~~~~~~~~  136 (168)
T cd01887          61 EAFTNMRARGASLTDIAILVVAADDGVMPQTIEAIKLAKAANVPFIVALNKIDKPNAN----PERVKNELSELGLQGEDE  136 (168)
T ss_pred             HHHHHHHHHHHhhcCEEEEEEECCCCccHHHHHHHHHHHHcCCCEEEEEEceeccccc----HHHHHHHHHHhhcccccc
Confidence            9999888888999999999999988777777777778888899999999999986321    1222222222211     


Q ss_pred             -cccccccccccccCcceeEEeecC
Q psy6316         180 -SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 -~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                       ...++++++||++|.|+.+++..+
T Consensus       137 ~~~~~~~~~~Sa~~~~gi~~l~~~l  161 (168)
T cd01887         137 WGGDVQIVPTSAKTGEGIDDLLEAI  161 (168)
T ss_pred             ccCcCcEEEeecccCCCHHHHHHHH
Confidence             123678899999999998865544

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.

>cd04121 Rab40 Rab40 subfamily

Probab=99.90  E-value=5.4e-24  Score=166.74  Aligned_cols=155  Identities=17%  Similarity=0.173  Sum_probs=112.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|..|+|||||+.++....+...+..+++.++.........     ..+                .+.||||||+
T Consensus         7 ~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~-----~~~----------------~l~iwDt~G~   65 (189)
T cd04121           7 LKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDG-----RRV----------------KLQLWDTSGQ   65 (189)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECC-----EEE----------------EEEEEeCCCc
Confidence            4599999999999999999998877655444444333222111111     011                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh--CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS--KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      +.|..++..+++.+|++|+|+|.++..+..... |+..+..  .+.|+++|+||+|+.... ...    .+..+.+....
T Consensus        66 ~~~~~l~~~~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~~~~~piilVGNK~DL~~~~-~v~----~~~~~~~a~~~  140 (189)
T cd04121          66 GRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHAPGVPKILVGNRLHLAFKR-QVA----TEQAQAYAERN  140 (189)
T ss_pred             HHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccchhcc-CCC----HHHHHHHHHHc
Confidence            999999999999999999999999877766544 5555544  368999999999986321 111    22344454556


Q ss_pred             cccccccccccCcceeEEeecCCC
Q psy6316         182 QTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      +++++++||++|.|+++++..+.+
T Consensus       141 ~~~~~e~SAk~g~~V~~~F~~l~~  164 (189)
T cd04121         141 GMTFFEVSPLCNFNITESFTELAR  164 (189)
T ss_pred             CCEEEEecCCCCCCHHHHHHHHHH
Confidence            788999999999999987766643

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

>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=99.90  E-value=7.3e-25  Score=172.07  Aligned_cols=171  Identities=30%  Similarity=0.329  Sum_probs=108.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeec-cccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQI-GATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      ..+|+++|+.++|||||+++|+...-............ .....+.+..+...........    ........++|+|||
T Consensus         3 ~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~----~~~~~~~~i~~iDtP   78 (188)
T PF00009_consen    3 IRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISF----EKNENNRKITLIDTP   78 (188)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEE----EBTESSEEEEEEEES
T ss_pred             EEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccc----cccccccceeecccc
Confidence            45799999999999999999986543211100000000 0000000000000000000000    001122249999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHh-hhh---
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK-SQE---  178 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~-~~~---  178 (259)
                      ||.+|...+...++.+|++|+|+|+.++...+..+.+..+...++|+++++||+|+...    ...+..+.+. .+.   
T Consensus        79 G~~~f~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~~~p~ivvlNK~D~~~~----~~~~~~~~~~~~l~~~~  154 (188)
T PF00009_consen   79 GHEDFIKEMIRGLRQADIAILVVDANDGIQPQTEEHLKILRELGIPIIVVLNKMDLIEK----ELEEIIEEIKEKLLKEY  154 (188)
T ss_dssp             SSHHHHHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHTT-SEEEEEETCTSSHH----HHHHHHHHHHHHHHHHT
T ss_pred             cccceeecccceecccccceeeeecccccccccccccccccccccceEEeeeeccchhh----hHHHHHHHHHHHhcccc
Confidence            99999999999999999999999999999999999999999999999999999999832    1222222222 221   


Q ss_pred             -cc--ccccccccccccCcceeEEeec
Q psy6316         179 -SS--VQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       179 -~~--~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                       ..  ..++++++||++|.|++.+++.
T Consensus       155 ~~~~~~~~~vi~~Sa~~g~gi~~Ll~~  181 (188)
T PF00009_consen  155 GENGEEIVPVIPISALTGDGIDELLEA  181 (188)
T ss_dssp             TSTTTSTEEEEEEBTTTTBTHHHHHHH
T ss_pred             ccCccccceEEEEecCCCCCHHHHHHH
Confidence             11  1357889999999999865443

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 ....

>cd01865 Rab3 Rab3 subfamily

Probab=99.90  E-value=7.2e-24  Score=163.00  Aligned_cols=152  Identities=16%  Similarity=0.152  Sum_probs=105.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++.+..+...+.++.+.++...+....     ...+                .+.+|||||++
T Consensus         3 ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~----------------~~~l~Dt~g~~   61 (165)
T cd01865           3 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRN-----DKRV----------------KLQIWDTAGQE   61 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEEC-----CEEE----------------EEEEEECCChH
Confidence            59999999999999999999888765544444332221111110     0011                29999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+...+..+++.+|++++|+|+++..+.... .++..+..   ...|+++|+||+|+..... ..    ...........
T Consensus        62 ~~~~~~~~~~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~-~~----~~~~~~~~~~~  136 (165)
T cd01865          62 RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERV-VS----SERGRQLADQL  136 (165)
T ss_pred             HHHHHHHHHccCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCcccc-cC----HHHHHHHHHHc
Confidence            9999999999999999999999875444433 34555543   3578999999999864211 11    12222333345


Q ss_pred             cccccccccccCcceeEEeecC
Q psy6316         182 QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +++++++||++|.|+.++++.+
T Consensus       137 ~~~~~~~Sa~~~~gv~~l~~~l  158 (165)
T cd01865         137 GFEFFEASAKENINVKQVFERL  158 (165)
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            6788999999999998866554

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

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

Probab=99.90  E-value=2.1e-23  Score=162.50  Aligned_cols=164  Identities=20%  Similarity=0.251  Sum_probs=109.3

Q ss_pred             hhhhhhhhhhhcCCCCcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCC
Q psy6316           3 AVFNKRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPG   82 (259)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (259)
                      ++|.|++.++++.|...    .++|+++|.+|+|||||+|+|++..+........+.+........             +
T Consensus         1 ~~~~~~~~~~~~~~~~~----~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~-------------~   63 (179)
T TIGR03598         1 AEFVKSAVKLKQLPPDD----GPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEV-------------N   63 (179)
T ss_pred             CEEEeeeccHhhCCCCC----CCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEe-------------C
Confidence            46888888888887643    567999999999999999999887532211111111110000000             0


Q ss_pred             CCCCCCCCCCCCCeEEEeCCCCc----------chHHHHHhhcc---CCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCE
Q psy6316          83 GEVGGPGPLEIPGLLIIDTPGHE----------SFSNLRNRGSS---LCDIAILVVDIMHGLEPQTIESINILKSKKTPF  149 (259)
Q Consensus        83 ~~~~~~~~~~~~~~~liDtpG~~----------~~~~~~~~~~~---~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pi  149 (259)
                                 ..+.+|||||+.          .+..+...+++   .+|++++|+|++++.+..+...+..+...++|+
T Consensus        64 -----------~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~~~~~~~~~~~~pv  132 (179)
T TIGR03598        64 -----------DGFRLVDLPGYGYAKVSKEEKEKWQKLIEEYLEKRENLKGVVLLMDIRHPLKELDLEMLEWLRERGIPV  132 (179)
T ss_pred             -----------CcEEEEeCCCCccccCChhHHHHHHHHHHHHHHhChhhcEEEEEecCCCCCCHHHHHHHHHHHHcCCCE
Confidence                       129999999953          23333333443   468999999999888888888888888889999


Q ss_pred             EEEEecccccCcccccchhhHHHHHhhhhccc--cccccccccccCccee
Q psy6316         150 VVALNKIDRLYNWNTMNRRDVRDIIKSQESSV--QTHKTVESARKGQEIC  197 (259)
Q Consensus       150 ivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~--~~~~i~~Sa~~g~gv~  197 (259)
                      ++++||+|+....   ..+...+.++......  .++++++||++|+|++
T Consensus       133 iiv~nK~D~~~~~---~~~~~~~~i~~~l~~~~~~~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       133 LIVLTKADKLKKS---ELNKQLKKIKKALKKDADDPSVQLFSSLKKTGID  179 (179)
T ss_pred             EEEEECcccCCHH---HHHHHHHHHHHHHhhccCCCceEEEECCCCCCCC
Confidence            9999999987321   1222333333333332  3578999999999974

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.

>cd04128 Spg1 Spg1p

Probab=99.90  E-value=1.2e-23  Score=164.23  Aligned_cols=157  Identities=11%  Similarity=0.152  Sum_probs=110.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|..|+|||||++++++..+...+.++++.++.........     ..+                .+.+|||+|++
T Consensus         2 Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~-----~~~----------------~l~iwDt~G~~   60 (182)
T cd04128           2 KIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRG-----TEI----------------TFSIWDLGGQR   60 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECC-----EEE----------------EEEEEeCCCch
Confidence            499999999999999999999888766666655443221121111     011                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .|..++..+++.+|++++|+|+++..+..+. .++..+..   ...| ++|+||+|+................+.+....
T Consensus        61 ~~~~~~~~~~~~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~  139 (182)
T cd04128          61 EFINMLPLVCNDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAKAM  139 (182)
T ss_pred             hHHHhhHHHCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhhhhhHHHHHHHHHHc
Confidence            9999999999999999999999887665553 35555544   2345 68899999863211111122334445555566


Q ss_pred             cccccccccccCcceeEEeecCC
Q psy6316         182 QTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      +++++++||++|.|+++++..+.
T Consensus       140 ~~~~~e~SAk~g~~v~~lf~~l~  162 (182)
T cd04128         140 KAPLIFCSTSHSINVQKIFKIVL  162 (182)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHH
Confidence            77889999999999998766553

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

>cd04122 Rab14 Rab14 subfamily

Probab=99.90  E-value=9.2e-24  Score=162.53  Aligned_cols=152  Identities=16%  Similarity=0.155  Sum_probs=105.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||++++.+..+...+..+++.++.........     ..+                .+.+|||||++
T Consensus         4 ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~l~i~Dt~G~~   62 (166)
T cd04122           4 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNG-----QKI----------------KLQIWDTAGQE   62 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECC-----EEE----------------EEEEEECCCcH
Confidence            599999999999999999998877655444443333211111110     011                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+...+..+++.+|++|+|+|+++..+..... ++..+..   .+.|+++|+||+|+.... ...    .+...++....
T Consensus        63 ~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~-~~~----~~~~~~~~~~~  137 (166)
T cd04122          63 RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQR-DVT----YEEAKQFADEN  137 (166)
T ss_pred             HHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccc-CcC----HHHHHHHHHHc
Confidence            99999999999999999999998865555443 4444433   357899999999986421 111    22233334445


Q ss_pred             cccccccccccCcceeEEeecC
Q psy6316         182 QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +++++++||++|.|+.+.+..+
T Consensus       138 ~~~~~e~Sa~~~~~i~e~f~~l  159 (166)
T cd04122         138 GLLFLECSAKTGENVEDAFLET  159 (166)
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            6788999999999998855433

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.90  E-value=8.5e-24  Score=164.80  Aligned_cols=163  Identities=16%  Similarity=0.107  Sum_probs=109.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++|+|||||++++.+..+...+.++++.++.................           ......+.||||||+
T Consensus         5 ~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~i~Dt~G~   73 (180)
T cd04127           5 IKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLG-----------RGQRIHLQLWDTAGQ   73 (180)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCcccccccc-----------CCCEEEEEEEeCCCh
Confidence            459999999999999999999888876665555443322211111000000000           000012899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      +.+...+..+++.+|++++|+|+++..+..+.. ++..+..    .+.|+++|+||+|+.... ....    +....+..
T Consensus        74 ~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~-~v~~----~~~~~~~~  148 (180)
T cd04127          74 ERFRSLTTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQR-QVSE----EQAKALAD  148 (180)
T ss_pred             HHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcC-ccCH----HHHHHHHH
Confidence            999999999999999999999998765555543 4445543    357899999999986421 1111    22344444


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+++++++||++|.|+++++..+
T Consensus       149 ~~~~~~~e~Sak~~~~v~~l~~~l  172 (180)
T cd04127         149 KYGIPYFETSAATGTNVEKAVERL  172 (180)
T ss_pred             HcCCeEEEEeCCCCCCHHHHHHHH
Confidence            456788999999999998865443

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.90  E-value=1.3e-23  Score=166.83  Aligned_cols=154  Identities=18%  Similarity=0.133  Sum_probs=107.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+++|++..+...+.++++.++.........    ...+                .+.+|||||++
T Consensus         2 KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~----~~~~----------------~l~l~Dt~G~~   61 (201)
T cd04107           2 KVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDP----NTVV----------------RLQLWDIAGQE   61 (201)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECC----CCEE----------------EEEEEECCCch
Confidence            599999999999999999998877666555555433222221110    0001                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH-------hCCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK-------SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~-------~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      .+..++..+++.+|++|+|+|+++..+..... ++..+.       ..++|+++|+||+|+... .....+    .+..+
T Consensus        62 ~~~~~~~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~-~~~~~~----~~~~~  136 (201)
T cd04107          62 RFGGMTRVYYRGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKR-LAKDGE----QMDQF  136 (201)
T ss_pred             hhhhhHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccc-cccCHH----HHHHH
Confidence            99999999999999999999998866655443 333332       246899999999998631 111222    23333


Q ss_pred             hcccc-ccccccccccCcceeEEeecCC
Q psy6316         178 ESSVQ-THKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       178 ~~~~~-~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ....+ ..++++||++|.|+++++..+.
T Consensus       137 ~~~~~~~~~~e~Sak~~~~v~e~f~~l~  164 (201)
T cd04107         137 CKENGFIGWFETSAKEGINIEEAMRFLV  164 (201)
T ss_pred             HHHcCCceEEEEeCCCCCCHHHHHHHHH
Confidence            34444 5788999999999998666553

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.

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

Probab=99.90  E-value=1.2e-23  Score=160.76  Aligned_cols=150  Identities=21%  Similarity=0.161  Sum_probs=103.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++++..+...+.++....+. .......     ...                .+.+|||||++
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~-----~~~----------------~~~i~Dt~G~~   60 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDG-----ETC----------------LLDILDTAGQE   60 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheEE-EEEEECC-----EEE----------------EEEEEECCCCc
Confidence            5999999999999999999988775544443332211 0000000     000                17899999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      .+..++..+++.+|++++|+|.++..+..+.. ++..+.    ..+.|+++|+||+|+...      .............
T Consensus        61 ~~~~l~~~~~~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~~------~~~~~~~~~~~~~  134 (162)
T cd04138          61 EYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAAR------TVSSRQGQDLAKS  134 (162)
T ss_pred             chHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccc------eecHHHHHHHHHH
Confidence            99999999999999999999998754444432 333333    246899999999998631      1112223333344


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+++++++||++|.|+++++..+
T Consensus       135 ~~~~~~~~Sa~~~~gi~~l~~~l  157 (162)
T cd04138         135 YGIPYIETSAKTRQGVEEAFYTL  157 (162)
T ss_pred             hCCeEEEecCCCCCCHHHHHHHH
Confidence            56788999999999998866544

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.90  E-value=1.2e-23  Score=161.70  Aligned_cols=152  Identities=19%  Similarity=0.191  Sum_probs=105.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||++++++..+...+.++++.++.........     ..+                .+.+|||||++
T Consensus         2 ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~l~i~Dt~G~~   60 (168)
T cd04119           2 KVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRN-----KEV----------------RVNFFDLSGHP   60 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECC-----eEE----------------EEEEEECCccH
Confidence            599999999999999999999887665555555443322222111     011                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh--------CCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS--------KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~--------~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      .+..++..+++.+|++|+|+|+++..+.... .++..+..        .+.|+++|+||+|+... ......    ....
T Consensus        61 ~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-~~~~~~----~~~~  135 (168)
T cd04119          61 EYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKH-RAVSED----EGRL  135 (168)
T ss_pred             HHHHHHHHHhccCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccc-cccCHH----HHHH
Confidence            9999999999999999999999876444433 24444432        35789999999998631 111112    2222


Q ss_pred             hhccccccccccccccCcceeEEeecC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +....+++++++||++|.|+++++..+
T Consensus       136 ~~~~~~~~~~~~Sa~~~~gi~~l~~~l  162 (168)
T cd04119         136 WAESKGFKYFETSACTGEGVNEMFQTL  162 (168)
T ss_pred             HHHHcCCeEEEEECCCCCCHHHHHHHH
Confidence            333345678899999999998866544

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.90  E-value=1.6e-23  Score=192.58  Aligned_cols=157  Identities=43%  Similarity=0.630  Sum_probs=121.7

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      ..|+|+|+++|++|+|||||+++|.+..+..++.++++...+.......                       ...++|||
T Consensus       287 ~~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~-----------------------~~~ItfiD  343 (787)
T PRK05306        287 VPRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETN-----------------------GGKITFLD  343 (787)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEEC-----------------------CEEEEEEE
Confidence            5689999999999999999999999888776665556555543322211                       01299999


Q ss_pred             CCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhh---h
Q psy6316         101 TPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS---Q  177 (259)
Q Consensus       101 tpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~---~  177 (259)
                      ||||..|..++..+++.+|++|+|+|++++...++.+.+..+...++|+|+++||+|+...    ..+.+...+..   .
T Consensus       344 TPGhe~F~~m~~rga~~aDiaILVVdAddGv~~qT~e~i~~a~~~~vPiIVviNKiDl~~a----~~e~V~~eL~~~~~~  419 (787)
T PRK05306        344 TPGHEAFTAMRARGAQVTDIVVLVVAADDGVMPQTIEAINHAKAAGVPIIVAINKIDKPGA----NPDRVKQELSEYGLV  419 (787)
T ss_pred             CCCCccchhHHHhhhhhCCEEEEEEECCCCCCHhHHHHHHHHHhcCCcEEEEEECcccccc----CHHHHHHHHHHhccc
Confidence            9999999999999999999999999999999999999999999999999999999999632    12223332222   1


Q ss_pred             hccc--cccccccccccCcceeEEeecCC
Q psy6316         178 ESSV--QTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       178 ~~~~--~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ...+  .++++++||++|.|++.++..+.
T Consensus       420 ~e~~g~~vp~vpvSAktG~GI~eLle~I~  448 (787)
T PRK05306        420 PEEWGGDTIFVPVSAKTGEGIDELLEAIL  448 (787)
T ss_pred             HHHhCCCceEEEEeCCCCCCchHHHHhhh
Confidence            1222  26788999999999998776664

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

Probab=99.90  E-value=1.3e-23  Score=180.95  Aligned_cols=159  Identities=49%  Similarity=0.733  Sum_probs=133.3

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      ..|+|.|.+||+.++|||||+.++.+.++..++.++++..+|....+.+...                    ...++|+|
T Consensus         2 ~~R~PvVtimGHVDHGKTtLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~--------------------~~~itFiD   61 (509)
T COG0532           2 ELRPPVVTIMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIK--------------------IPGITFID   61 (509)
T ss_pred             CCCCCEEEEeCcccCCccchhhhHhcCccccccCCceeeEeeeEEEEeccCC--------------------CceEEEEc
Confidence            3578999999999999999999999999999999999999998888764220                    01299999


Q ss_pred             CCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhh---
Q psy6316         101 TPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ---  177 (259)
Q Consensus       101 tpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~---  177 (259)
                      ||||+.|..++.+..+.+|++++|+++.++..+|+.+-+..++..++|+++++||+|++..    +.......+++.   
T Consensus        62 TPGHeAFt~mRaRGa~vtDIaILVVa~dDGv~pQTiEAI~hak~a~vP~iVAiNKiDk~~~----np~~v~~el~~~gl~  137 (509)
T COG0532          62 TPGHEAFTAMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAAGVPIVVAINKIDKPEA----NPDKVKQELQEYGLV  137 (509)
T ss_pred             CCcHHHHHHHHhcCCccccEEEEEEEccCCcchhHHHHHHHHHHCCCCEEEEEecccCCCC----CHHHHHHHHHHcCCC
Confidence            9999999999999999999999999999999999999999999999999999999999843    233344434333   


Q ss_pred             hccc--cccccccccccCcceeEEeecC
Q psy6316         178 ESSV--QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       178 ~~~~--~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ...|  ...++++||++|+|+++++..+
T Consensus       138 ~E~~gg~v~~VpvSA~tg~Gi~eLL~~i  165 (509)
T COG0532         138 PEEWGGDVIFVPVSAKTGEGIDELLELI  165 (509)
T ss_pred             HhhcCCceEEEEeeccCCCCHHHHHHHH
Confidence            1222  3567799999999999876544

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.90  E-value=1.2e-23  Score=162.16  Aligned_cols=153  Identities=16%  Similarity=0.148  Sum_probs=106.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++|+|||||++++.+..+...+.++.+.+..........     ..+                .+.+|||||+
T Consensus         4 ~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~l~l~D~~g~   62 (167)
T cd01867           4 FKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDG-----KKI----------------KLQIWDTAGQ   62 (167)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECC-----EEE----------------EEEEEeCCch
Confidence            4699999999999999999998887665544444332211111100     011                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      +.+...+..+++.+|++++|+|+++..+.... .++..+..   .+.|+++|+||+|+.... ....++    .......
T Consensus        63 ~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~-~~~~~~----~~~~~~~  137 (167)
T cd01867          63 ERFRTITTAYYRGAMGIILVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKR-VVSKEE----GEALADE  137 (167)
T ss_pred             HHHHHHHHHHhCCCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECccccccc-CCCHHH----HHHHHHH
Confidence            99999998999999999999999876555443 34444443   368999999999997421 112222    2333344


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ++++++++||++|.|+++++..+
T Consensus       138 ~~~~~~~~Sa~~~~~v~~~~~~i  160 (167)
T cd01867         138 YGIKFLETSAKANINVEEAFFTL  160 (167)
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHH
Confidence            56788999999999998866544

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

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=99.90  E-value=9.8e-24  Score=168.33  Aligned_cols=203  Identities=25%  Similarity=0.267  Sum_probs=135.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccc-cCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATN-VPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      ..||+.+|+.++|||||..++...-...+  ......+.... .+-++.+...  +..-    -..++..++++.++|||
T Consensus        12 hVNigtiGHvdHGKTTLtaAit~~la~~~--~~~~~~y~~id~aPeEk~rGIT--Inta----hveyet~~rhyahVDcP   83 (394)
T COG0050          12 HVNVGTIGHVDHGKTTLTAAITTVLAKKG--GAEAKAYDQIDNAPEEKARGIT--INTA----HVEYETANRHYAHVDCP   83 (394)
T ss_pred             eeEEEEeccccCchhhHHHHHHHHHHhhc--cccccchhhhccCchHhhcCce--eccc----eeEEecCCceEEeccCC
Confidence            46799999999999999999964322111  00111111111 1111111100  0000    00123445569999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      ||.+|.+.+.....+.|++|+|+.++++..++.++++...+..++| +++++||+|+..++.  -.+-....+.++...+
T Consensus        84 GHaDYvKNMItgAaqmDgAILVVsA~dGpmPqTrEHiLlarqvGvp~ivvflnK~Dmvdd~e--llelVemEvreLLs~y  161 (394)
T COG0050          84 GHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQVGVPYIVVFLNKVDMVDDEE--LLELVEMEVRELLSEY  161 (394)
T ss_pred             ChHHHHHHHhhhHHhcCccEEEEEcCCCCCCcchhhhhhhhhcCCcEEEEEEecccccCcHH--HHHHHHHHHHHHHHHc
Confidence            9999999999999999999999999999999999999999999997 667899999995321  1122223344444444


Q ss_pred             cc-----cccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHHHHHhh
Q psy6316         182 QT-----HKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVF  256 (259)
Q Consensus       182 ~~-----~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~~  256 (259)
                      ++     +++.-||+.-.         -             .+..+.+.+.|.++++++|++.|.++.++||+|+|+++|
T Consensus       162 ~f~gd~~Pii~gSal~al---------e-------------~~~~~~~~i~eLm~avd~yip~Per~~dkPflmpvEdvf  219 (394)
T COG0050         162 GFPGDDTPIIRGSALKAL---------E-------------GDAKWEAKIEELMDAVDSYIPTPERDIDKPFLMPVEDVF  219 (394)
T ss_pred             CCCCCCcceeechhhhhh---------c-------------CCcchHHHHHHHHHHHHhcCCCCCCcccccccccceeeE
Confidence            33     23333433210         0             111145667899999999999999999999999999999


Q ss_pred             cc
Q psy6316         257 QI  258 (259)
Q Consensus       257 ~~  258 (259)
                      +|
T Consensus       220 sI  221 (394)
T COG0050         220 SI  221 (394)
T ss_pred             EE
Confidence            98

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.90  E-value=1.5e-23  Score=161.28  Aligned_cols=153  Identities=14%  Similarity=0.151  Sum_probs=104.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++|+|||||++++.+..+...+..+.+.++.........     ..+                .+.+|||||+
T Consensus         3 ~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~i~D~~G~   61 (166)
T cd01869           3 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDG-----KTI----------------KLQIWDTAGQ   61 (166)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECC-----EEE----------------EEEEEECCCc
Confidence            3599999999999999999998877554444333222111111110     001                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      +.+...+..+++.+|++++|+|+++..+..... ++..+..   .+.|+++++||+|+.... ....    +....+...
T Consensus        62 ~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~----~~~~~~~~~  136 (166)
T cd01869          62 ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKR-VVDY----SEAQEFADE  136 (166)
T ss_pred             HhHHHHHHHHhCcCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhccccc-CCCH----HHHHHHHHH
Confidence            999999999999999999999998754444332 4444443   358999999999986421 1111    223333344


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+++++++||++|.|+++++..+
T Consensus       137 ~~~~~~~~Sa~~~~~v~~~~~~i  159 (166)
T cd01869         137 LGIPFLETSAKNATNVEQAFMTM  159 (166)
T ss_pred             cCCeEEEEECCCCcCHHHHHHHH
Confidence            56788999999999998865543

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

>cd01890 LepA LepA subfamily

Probab=99.90  E-value=4.2e-23  Score=160.69  Aligned_cols=166  Identities=25%  Similarity=0.311  Sum_probs=104.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCC-------CCCCccee--eccccccCccccccccccccCCCCCCCCCCCCCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQD-------GEAGGITQ--QIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPG   95 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~-------~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (259)
                      ++|+++|++|+|||||+++|++..-..       .+..+...  ..+.+. .............           .....
T Consensus         1 rni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~-~~~~~~~~~~~~~-----------~~~~~   68 (179)
T cd01890           1 RNFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITI-KAQTVRLNYKAKD-----------GQEYL   68 (179)
T ss_pred             CcEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeE-ecceEEEEEecCC-----------CCcEE
Confidence            379999999999999999998743110       00000000  001110 0000000000000           01112


Q ss_pred             eEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316          96 LLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus        96 ~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      +.||||||+.++...+..+++.+|++|+|+|++++.+.++...+..+...++|+++|+||+|+...    ......+.+.
T Consensus        69 ~~l~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~~~~~~iiiv~NK~Dl~~~----~~~~~~~~~~  144 (179)
T cd01890          69 LNLIDTPGHVDFSYEVSRSLAACEGALLLVDATQGVEAQTLANFYLALENNLEIIPVINKIDLPSA----DPERVKQQIE  144 (179)
T ss_pred             EEEEECCCChhhHHHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHHHcCCCEEEEEECCCCCcC----CHHHHHHHHH
Confidence            889999999999999999999999999999999887777777666666678999999999998632    1122222232


Q ss_pred             hhhccccccccccccccCcceeEEeecCCCC
Q psy6316         176 SQESSVQTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       176 ~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      +........++++||++|.|+++++..+...
T Consensus       145 ~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  175 (179)
T cd01890         145 DVLGLDPSEAILVSAKTGLGVEDLLEAIVER  175 (179)
T ss_pred             HHhCCCcccEEEeeccCCCCHHHHHHHHHhh
Confidence            2222112347899999999998876665443

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.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.90  E-value=1.3e-23  Score=160.84  Aligned_cols=154  Identities=18%  Similarity=0.196  Sum_probs=106.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++.+..+.....++++.++..........   ...+                .+.+|||||++
T Consensus         2 kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~---~~~~----------------~~~i~D~~G~~   62 (162)
T cd04106           2 KVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQS---DEDV----------------RLMLWDTAGQE   62 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCC---CCEE----------------EEEEeeCCchH
Confidence            4999999999999999999988776555555544332111111000   0001                29999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh--CCCCEEEEEecccccCcccccchhhHHHHHhhhhcccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS--KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ  182 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~  182 (259)
                      ++...+..+++.+|++++|+|+++..+..... ++..+..  .+.|+++|+||+|+.... ...    .+....+....+
T Consensus        63 ~~~~~~~~~~~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~-~v~----~~~~~~~~~~~~  137 (162)
T cd04106          63 EFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECGDIPMVLVQTKIDLLDQA-VIT----NEEAEALAKRLQ  137 (162)
T ss_pred             HHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhccccc-CCC----HHHHHHHHHHcC
Confidence            99999999999999999999998765554433 3444433  378999999999986421 111    122333444456


Q ss_pred             ccccccccccCcceeEEeecC
Q psy6316         183 THKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       183 ~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ++++++||++|.|+++++..+
T Consensus       138 ~~~~~~Sa~~~~~v~~l~~~l  158 (162)
T cd04106         138 LPLFRTSVKDDFNVTELFEYL  158 (162)
T ss_pred             CeEEEEECCCCCCHHHHHHHH
Confidence            788999999999998765443

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

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.89  E-value=8.9e-24  Score=185.55  Aligned_cols=144  Identities=26%  Similarity=0.369  Sum_probs=102.3

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCC--CCCHHHHHHHHHHHhCCC-CEEEEEecccccCcccccchhhHH
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMH--GLEPQTIESINILKSKKT-PFVVALNKIDRLYNWNTMNRRDVR  171 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~--~~~~~~~~~l~~~~~~~~-piivv~NK~D~~~~~~~~~~~~~~  171 (259)
                      .+.|||||||++|...+...+..+|++++|+|+++  +...++.+++..+...+. |+++++||+|+... .....+...
T Consensus        85 ~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~~~~~iivviNK~Dl~~~-~~~~~~~~~  163 (425)
T PRK12317         85 YFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTLGINQLIVAINKMDAVNY-DEKRYEEVK  163 (425)
T ss_pred             EEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHcCCCeEEEEEEccccccc-cHHHHHHHH
Confidence            49999999999998877788899999999999998  777777788777777776 58999999999741 111122333


Q ss_pred             HHHhhhhcccc-----ccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhh
Q psy6316         172 DIIKSQESSVQ-----THKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDW  246 (259)
Q Consensus       172 ~~~~~~~~~~~-----~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~  246 (259)
                      +.+..+....+     ++++++||++|.|+++...    ..+|+.+      +        ..+++|+. ++.+.+..+.
T Consensus       164 ~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~~----~~~wy~g------~--------~L~~~l~~-~~~~~~~~~~  224 (425)
T PRK12317        164 EEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKSE----NMPWYNG------P--------TLLEALDN-LKPPEKPTDK  224 (425)
T ss_pred             HHHHHHHHhhCCCcCcceEEEeecccCCCcccccc----CCCcccH------H--------HHHHHHhc-CCCCccccCC
Confidence            34444433322     5688999999999987543    3344421      1        23333433 4556667789


Q ss_pred             HHHHHHHHhhcc
Q psy6316         247 QLMVDLKKVFQI  258 (259)
Q Consensus       247 ~~~~~i~~~~~~  258 (259)
                      ||+|+|+++|++
T Consensus       225 p~r~~i~~~~~~  236 (425)
T PRK12317        225 PLRIPIQDVYSI  236 (425)
T ss_pred             CcEEEEEEEEee
Confidence            999999999975

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.89  E-value=1.5e-23  Score=189.26  Aligned_cols=149  Identities=31%  Similarity=0.389  Sum_probs=109.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc---cCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN---VQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +|+++|++|+|||||+++|.+..   +.+...++++.+.+........                       ..+.|||||
T Consensus         2 ~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~-----------------------~~v~~iDtP   58 (581)
T TIGR00475         2 IIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD-----------------------YRLGFIDVP   58 (581)
T ss_pred             EEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC-----------------------EEEEEEECC
Confidence            59999999999999999998743   2222233444444332222111                       129999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      ||+.|...+..++..+|++++|+|++++...++.+++..+...++| +++|+||+|+....   ..+...+.+..+....
T Consensus        59 Ghe~f~~~~~~g~~~aD~aILVVDa~~G~~~qT~ehl~il~~lgi~~iIVVlNK~Dlv~~~---~~~~~~~ei~~~l~~~  135 (581)
T TIGR00475        59 GHEKFISNAIAGGGGIDAALLVVDADEGVMTQTGEHLAVLDLLGIPHTIVVITKADRVNEE---EIKRTEMFMKQILNSY  135 (581)
T ss_pred             CHHHHHHHHHhhhccCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEECCCCCCHH---HHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999998888899988888888999 99999999997421   1122233333332222


Q ss_pred             ----cccccccccccCcceeEEe
Q psy6316         182 ----QTHKTVESARKGQEICIKI  200 (259)
Q Consensus       182 ----~~~~i~~Sa~~g~gv~~~l  200 (259)
                          +++++++||++|.|+++++
T Consensus       136 ~~~~~~~ii~vSA~tG~GI~eL~  158 (581)
T TIGR00475       136 IFLKNAKIFKTSAKTGQGIGELK  158 (581)
T ss_pred             CCCCCCcEEEEeCCCCCCchhHH
Confidence                4678899999999997733

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.

>cd04136 Rap_like Rap-like subfamily

Probab=99.89  E-value=1.6e-23  Score=160.44  Aligned_cols=153  Identities=17%  Similarity=0.132  Sum_probs=102.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|||||||++++....+...+.+++...+. .....     ....+                .+.||||||+
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~-----~~~~~----------------~l~i~Dt~G~   59 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQIEV-----DGQQC----------------MLEILDTAGT   59 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCchhhhEE-EEEEE-----CCEEE----------------EEEEEECCCc
Confidence            35999999999999999999987765444333321110 00000     00001                1789999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      +.|..++..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+.... ...    ......+..
T Consensus        60 ~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~-~~~----~~~~~~~~~  134 (163)
T cd04136          60 EQFTAMRDLYIKNGQGFVLVYSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDER-VVS----REEGQALAR  134 (163)
T ss_pred             cccchHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc-eec----HHHHHHHHH
Confidence            99999999999999999999999876554443 33444432    368999999999986421 111    112222333


Q ss_pred             cccccccccccccCcceeEEeecCC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      .++.+++++||++|.|+.+++..+.
T Consensus       135 ~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (163)
T cd04136         135 QWGCPFYETSAKSKINVDEVFADLV  159 (163)
T ss_pred             HcCCeEEEecCCCCCCHHHHHHHHH
Confidence            4457789999999999988665543

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.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.89  E-value=3.8e-23  Score=185.96  Aligned_cols=158  Identities=41%  Similarity=0.605  Sum_probs=121.1

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      ..|+++|+++|++|+|||||+++|.+..+...+.++++..++.........                      ..++|||
T Consensus        84 ~~r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~----------------------~~i~~iD  141 (587)
T TIGR00487        84 VERPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDG----------------------KMITFLD  141 (587)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCC----------------------cEEEEEE
Confidence            457899999999999999999999988887666555665555432221100                      0299999


Q ss_pred             CCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhh---
Q psy6316         101 TPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ---  177 (259)
Q Consensus       101 tpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~---  177 (259)
                      ||||+.|..++..+++.+|++++|+|++++...++.+.+..+...++|+++++||+|+...    ..+.+...+...   
T Consensus       142 TPGhe~F~~~r~rga~~aDiaILVVda~dgv~~qT~e~i~~~~~~~vPiIVviNKiDl~~~----~~e~v~~~L~~~g~~  217 (587)
T TIGR00487       142 TPGHEAFTSMRARGAKVTDIVVLVVAADDGVMPQTIEAISHAKAANVPIIVAINKIDKPEA----NPDRVKQELSEYGLV  217 (587)
T ss_pred             CCCCcchhhHHHhhhccCCEEEEEEECCCCCCHhHHHHHHHHHHcCCCEEEEEECcccccC----CHHHHHHHHHHhhhh
Confidence            9999999999999999999999999999998899999998888889999999999998632    123333333322   


Q ss_pred             hccc--cccccccccccCcceeEEeecCC
Q psy6316         178 ESSV--QTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       178 ~~~~--~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ...+  ..+++++||++|+|+++++..+.
T Consensus       218 ~~~~~~~~~~v~iSAktGeGI~eLl~~I~  246 (587)
T TIGR00487       218 PEDWGGDTIFVPVSALTGDGIDELLDMIL  246 (587)
T ss_pred             HHhcCCCceEEEEECCCCCChHHHHHhhh
Confidence            1112  24678999999999998776553

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.

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.89  E-value=3.5e-23  Score=166.16  Aligned_cols=155  Identities=16%  Similarity=0.174  Sum_probs=110.0

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      +...+|+++|.+|+|||||+++++...+...+.++++.++.........     ..+                .+.+|||
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~-----~~~----------------~l~i~Dt   69 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNC-----GKI----------------RFYCWDT   69 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECC-----eEE----------------EEEEEEC
Confidence            4456699999999999999999988887666555555443222111110     011                2999999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh--CCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS--KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      ||++.|..++..+++.+|++|+|+|.++..+..... |+..+..  .+.|+++|+||+|+....  ...+.    + .+.
T Consensus        70 ~G~~~~~~~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~~~~piilvgNK~Dl~~~~--v~~~~----~-~~~  142 (219)
T PLN03071         70 AGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVCENIPIVLCGNKVDVKNRQ--VKAKQ----V-TFH  142 (219)
T ss_pred             CCchhhhhhhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCcEEEEEEchhhhhcc--CCHHH----H-HHH
Confidence            999999999999999999999999999876655443 4455443  468999999999985321  11111    1 233


Q ss_pred             ccccccccccccccCcceeEEeecCC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ...+++++++||++|.|+.+.+..+.
T Consensus       143 ~~~~~~~~e~SAk~~~~i~~~f~~l~  168 (219)
T PLN03071        143 RKKNLQYYEISAKSNYNFEKPFLYLA  168 (219)
T ss_pred             HhcCCEEEEcCCCCCCCHHHHHHHHH
Confidence            34467889999999999998776654

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.89  E-value=2.4e-23  Score=160.88  Aligned_cols=154  Identities=14%  Similarity=0.099  Sum_probs=105.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++++..+...+.++++.++..........     ..                .+.+|||||++
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~-----~~----------------~l~i~Dt~G~~   60 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGV-----PF----------------SLQLWDTAGQE   60 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCE-----EE----------------EEEEEeCCChH
Confidence            6999999999999999999998887666555554432211111110     01                29999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHhC----CCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKSK----KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~~----~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      .|..++..+++.+|++++|+|+++..+... ..++..+.+.    ..|+++|+||+|+.....   ..........+...
T Consensus        61 ~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~---~~~~~~~~~~~~~~  137 (170)
T cd04108          61 RFKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQ---YALMEQDAIKLAAE  137 (170)
T ss_pred             HHHhhHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCcccc---ccccHHHHHHHHHH
Confidence            999999999999999999999987544433 3355554332    256899999999863211   11112222333334


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+.+++.+||++|.|+++++..+
T Consensus       138 ~~~~~~e~Sa~~g~~v~~lf~~l  160 (170)
T cd04108         138 MQAEYWSVSALSGENVREFFFRV  160 (170)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHH
Confidence            45677899999999998865444

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

>KOG0078|consensus

Probab=99.89  E-value=1.7e-23  Score=160.14  Aligned_cols=154  Identities=18%  Similarity=0.125  Sum_probs=125.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      -.+|+++|.+|+|||+++-++....+...+..+++.++...+...+....                     .+.+|||+|
T Consensus        12 ~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i---------------------~lQiWDtaG   70 (207)
T KOG0078|consen   12 LFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKI---------------------KLQIWDTAG   70 (207)
T ss_pred             EEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEE---------------------EEEEEEccc
Confidence            34599999999999999999999999888888888777666655544221                     199999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      |++|..+..+|++.|+++++|+|.++..+..+.. |+..+.+   .++|.++|+||+|+..     .+..-.+.-++++.
T Consensus        71 Qerf~ti~~sYyrgA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~-----~R~V~~e~ge~lA~  145 (207)
T KOG0078|consen   71 QERFRTITTAYYRGAMGILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEE-----KRQVSKERGEALAR  145 (207)
T ss_pred             chhHHHHHHHHHhhcCeeEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccc-----cccccHHHHHHHHH
Confidence            9999999999999999999999999987776644 6666655   3689999999999974     34445556677777


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+..++++||++|.|+++.+..+
T Consensus       146 e~G~~F~EtSAk~~~NI~eaF~~L  169 (207)
T KOG0078|consen  146 EYGIKFFETSAKTNFNIEEAFLSL  169 (207)
T ss_pred             HhCCeEEEccccCCCCHHHHHHHH
Confidence            788999999999999998855443

>cd04140 ARHI_like ARHI subfamily

Probab=99.89  E-value=2.4e-23  Score=160.12  Aligned_cols=152  Identities=15%  Similarity=0.173  Sum_probs=104.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++++..+...+.++....+... .     .......                .+.+|||||++
T Consensus         3 kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~-~-----~~~~~~~----------------~l~i~Dt~G~~   60 (165)
T cd04140           3 RVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTYRQV-I-----SCSKNIC----------------TLQITDTTGSH   60 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheEEEE-E-----EECCEEE----------------EEEEEECCCCC
Confidence            499999999999999999998887554444333222100 0     0000011                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh------CCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS------KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~------~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      .+..++..+++.+|++++|+|+++..+.... .++..+..      .+.|+++|+||+|+..... ..    ........
T Consensus        61 ~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~-v~----~~~~~~~~  135 (165)
T cd04140          61 QFPAMQRLSISKGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKRE-VS----SNEGAACA  135 (165)
T ss_pred             cchHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCe-ec----HHHHHHHH
Confidence            9998888889999999999999886665443 34444433      4689999999999864211 11    11122233


Q ss_pred             ccccccccccccccCcceeEEeecCC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ..+++.++++||++|.|+++++..+.
T Consensus       136 ~~~~~~~~e~SA~~g~~v~~~f~~l~  161 (165)
T cd04140         136 TEWNCAFMETSAKTNHNVQELFQELL  161 (165)
T ss_pred             HHhCCcEEEeecCCCCCHHHHHHHHH
Confidence            34457788999999999998776654

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to

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

Probab=99.89  E-value=1.9e-23  Score=160.20  Aligned_cols=152  Identities=16%  Similarity=0.154  Sum_probs=102.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++++..+.....++....+. ......     ...+                .+.+|||||++
T Consensus         4 ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~-----~~~~----------------~~~i~Dt~G~~   61 (164)
T cd04145           4 KLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYT-KQCEID-----GQWA----------------ILDILDTAGQE   61 (164)
T ss_pred             EEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceEE-EEEEEC-----CEEE----------------EEEEEECCCCc
Confidence            4999999999999999999987764443333321110 000000     0001                28899999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ++..++..+++.+|++++|+|+++..+..... ++..+.    ..+.|+++++||+|+..... ..    ......+...
T Consensus        62 ~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~-~~----~~~~~~~~~~  136 (164)
T cd04145          62 EFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRK-VS----REEGQELARK  136 (164)
T ss_pred             chhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccce-ec----HHHHHHHHHH
Confidence            99999999999999999999998765444432 333332    24689999999999864211 11    1122333334


Q ss_pred             ccccccccccccCcceeEEeecCC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      .+++++++||++|.|++++++.+.
T Consensus       137 ~~~~~~~~Sa~~~~~i~~l~~~l~  160 (164)
T cd04145         137 LKIPYIETSAKDRLNVDKAFHDLV  160 (164)
T ss_pred             cCCcEEEeeCCCCCCHHHHHHHHH
Confidence            467889999999999988765543

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.89  E-value=1.8e-23  Score=160.68  Aligned_cols=153  Identities=16%  Similarity=0.180  Sum_probs=103.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++|+|||||++++....+...+..+.+.+..........     ..+                .+.+|||||+
T Consensus         4 ~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~l~i~D~~G~   62 (165)
T cd01864           4 FKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEG-----KRV----------------KLQIWDTAGQ   62 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECC-----EEE----------------EEEEEECCCh
Confidence            4699999999999999999988776554444333222211111110     001                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      +.+...+..+++.+|++++|+|+++..+.... .++..+..   .+.|+++|+||+|+.... .    ........+...
T Consensus        63 ~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~-~----~~~~~~~~~~~~  137 (165)
T cd01864          63 ERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQR-E----VLFEEACTLAEK  137 (165)
T ss_pred             HHHHHHHHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECccccccc-c----cCHHHHHHHHHH
Confidence            99999899999999999999999886555443 35554443   468999999999986421 1    111122223233


Q ss_pred             cc-ccccccccccCcceeEEeecC
Q psy6316         181 VQ-THKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~-~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+ ..++++||++|.|+++++..+
T Consensus       138 ~~~~~~~e~Sa~~~~~v~~~~~~l  161 (165)
T cd01864         138 NGMLAVLETSAKESQNVEEAFLLM  161 (165)
T ss_pred             cCCcEEEEEECCCCCCHHHHHHHH
Confidence            33 467899999999998866544

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.

>PRK12736 elongation factor Tu; Reviewed

Probab=99.89  E-value=2.4e-23  Score=180.71  Aligned_cols=204  Identities=25%  Similarity=0.249  Sum_probs=129.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++++|||||+++|++.....+........ .....+.+..+........      .+......++.||||||
T Consensus        12 ~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~-~~d~~~~E~~rg~T~~~~~------~~~~~~~~~i~~iDtPG   84 (394)
T PRK12736         12 HVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYD-SIDAAPEEKERGITINTAH------VEYETEKRHYAHVDCPG   84 (394)
T ss_pred             eeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchh-hhcCCHHHHhcCccEEEEe------eEecCCCcEEEEEECCC
Confidence            3569999999999999999998532111100000000 0000000000000000000      00011222499999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHHHHHhhhhccc-
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV-  181 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~-  181 (259)
                      |.+|.......+..+|++++|+|++.+...++.+++..+...++| +|+++||+|+...+.  ..+.+.+.+..+.... 
T Consensus        85 h~~f~~~~~~~~~~~d~~llVvd~~~g~~~~t~~~~~~~~~~g~~~~IvviNK~D~~~~~~--~~~~i~~~i~~~l~~~~  162 (394)
T PRK12736         85 HADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQVGVPYLVVFLNKVDLVDDEE--LLELVEMEVRELLSEYD  162 (394)
T ss_pred             HHHHHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHcCCCEEEEEEEecCCcchHH--HHHHHHHHHHHHHHHhC
Confidence            999998888888999999999999999899999999999999999 678999999873211  1112223344433333 


Q ss_pred             ----cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHHHHHhhc
Q psy6316         182 ----QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQ  257 (259)
Q Consensus       182 ----~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~~~  257 (259)
                          ..+++++||++|.+-.         ..+             ..-+.+.++.++++++.+.+..+.||+|+|+++|+
T Consensus       163 ~~~~~~~ii~vSa~~g~~~~---------~~~-------------~~~i~~Ll~~l~~~lp~~~~~~~~p~r~~I~~~~~  220 (394)
T PRK12736        163 FPGDDIPVIRGSALKALEGD---------PKW-------------EDAIMELMDAVDEYIPTPERDTDKPFLMPVEDVFT  220 (394)
T ss_pred             CCcCCccEEEeeccccccCC---------Ccc-------------hhhHHHHHHHHHHhCCCCCCCCCCCeEEEEEEEEe
Confidence                2478899999984210         011             11224566777777777888889999999999997


Q ss_pred             c
Q psy6316         258 I  258 (259)
Q Consensus       258 ~  258 (259)
                      +
T Consensus       221 ~  221 (394)
T PRK12736        221 I  221 (394)
T ss_pred             c
Confidence            5

>cd04113 Rab4 Rab4 subfamily

Probab=99.89  E-value=2.3e-23  Score=159.41  Aligned_cols=152  Identities=18%  Similarity=0.162  Sum_probs=105.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||+++|.+..+.....++.+..+.........     ...                .+.+|||||++
T Consensus         2 ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~----------------~l~l~D~~G~~   60 (161)
T cd04113           2 KFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGG-----KRV----------------KLQIWDTAGQE   60 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECC-----EEE----------------EEEEEECcchH
Confidence            599999999999999999998877655444443322211111110     001                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH---hCCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK---SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~---~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+...+..+++.+|++++|+|+++..+..... ++..++   ..+.|+++++||+|+... ....    .+....+....
T Consensus        61 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~-~~~~----~~~~~~~~~~~  135 (161)
T cd04113          61 RFRSVTRSYYRGAAGALLVYDITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQ-REVT----FLEASRFAQEN  135 (161)
T ss_pred             HHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchh-ccCC----HHHHHHHHHHc
Confidence            99998999999999999999998866555433 444433   347899999999998642 1111    22223333344


Q ss_pred             cccccccccccCcceeEEeecC
Q psy6316         182 QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ++.++++||++|.|+.+++..+
T Consensus       136 ~~~~~~~Sa~~~~~i~~~~~~~  157 (161)
T cd04113         136 GLLFLETSALTGENVEEAFLKC  157 (161)
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            5788999999999998866544

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

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

Probab=99.89  E-value=7.4e-23  Score=183.80  Aligned_cols=134  Identities=58%  Similarity=0.881  Sum_probs=102.1

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      +|+|.|+++|++|+|||||+|+|.+..+.....++++.+++.+..+.+..........     ..-...+....+.||||
T Consensus         2 ~r~piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~-----~~~~v~~~~~~l~~iDT   76 (590)
T TIGR00491         2 LRSPIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLL-----KKFKIRLKIPGLLFIDT   76 (590)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccc-----cccccccccCcEEEEEC
Confidence            6889999999999999999999999888766666666666655544322111000000     00000122234999999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      |||+.|..++..+++.+|++++|+|++++...++.+.+..++..++|+++++||+|+..
T Consensus        77 pG~e~f~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~l~~~~vpiIVv~NK~Dl~~  135 (590)
T TIGR00491        77 PGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYKTPFVVAANKIDRIP  135 (590)
T ss_pred             CCcHhHHHHHHHHHhhCCEEEEEEECCcCCCHhHHHHHHHHHHcCCCEEEEEECCCccc
Confidence            99999999999999999999999999998888888888888888999999999999974

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.

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.89  E-value=3e-23  Score=160.58  Aligned_cols=152  Identities=16%  Similarity=0.142  Sum_probs=106.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||++++.+..+...+.++++..+.. ......     ..+                .+.||||||+
T Consensus         3 ~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~~~-~~~~~~-----~~~----------------~l~i~Dt~G~   60 (172)
T cd04141           3 YKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYKQ-QARIDN-----EPA----------------LLDILDTAGQ   60 (172)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceEEE-EEEECC-----EEE----------------EEEEEeCCCc
Confidence            459999999999999999999888765444444322210 011000     001                1899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      +.+..++..+++.+|++++|+|+++..+..... ++..+..    .+.|+++|+||+|+.... ....++    ...+..
T Consensus        61 ~~~~~l~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~-~v~~~~----~~~~a~  135 (172)
T cd04141          61 AEFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQR-QVTTEE----GRNLAR  135 (172)
T ss_pred             hhhHHHhHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcC-ccCHHH----HHHHHH
Confidence            999999999999999999999999877766644 3333332    368999999999986321 111122    233334


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+++++++||++|.|+++++..+
T Consensus       136 ~~~~~~~e~Sa~~~~~v~~~f~~l  159 (172)
T cd04141         136 EFNCPFFETSAALRHYIDDAFHGL  159 (172)
T ss_pred             HhCCEEEEEecCCCCCHHHHHHHH
Confidence            456888999999999998866544

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

>CHL00071 tufA elongation factor Tu

Probab=99.89  E-value=3.4e-23  Score=180.53  Aligned_cols=212  Identities=25%  Similarity=0.248  Sum_probs=132.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeecccc-ccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGAT-NVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      .+|+++|++++|||||+++|++..-........  .+... ....+..+........      ........++.|+||||
T Consensus        13 ~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~--~~~~~d~~~~e~~rg~T~~~~~------~~~~~~~~~~~~iDtPG   84 (409)
T CHL00071         13 VNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAK--KYDEIDSAPEEKARGITINTAH------VEYETENRHYAHVDCPG   84 (409)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhCcccccccc--ccccccCChhhhcCCEeEEccE------EEEccCCeEEEEEECCC
Confidence            459999999999999999998652210000000  00000 0000000000000000      00011223489999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHHHHHhhhhccc-
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV-  181 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~-  181 (259)
                      |.+|...+...+..+|++++|+|+..+...++.+++..+...++| +|+++||+|+.....  ..+.+.+.+..+.... 
T Consensus        85 h~~~~~~~~~~~~~~D~~ilVvda~~g~~~qt~~~~~~~~~~g~~~iIvvvNK~D~~~~~~--~~~~~~~~l~~~l~~~~  162 (409)
T CHL00071         85 HADYVKNMITGAAQMDGAILVVSAADGPMPQTKEHILLAKQVGVPNIVVFLNKEDQVDDEE--LLELVELEVRELLSKYD  162 (409)
T ss_pred             hHHHHHHHHHHHHhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEEccCCCCHHH--HHHHHHHHHHHHHHHhC
Confidence            999999999999999999999999999999999999999999999 778999999974211  1222333344443332 


Q ss_pred             ----cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHHHHHhhc
Q psy6316         182 ----QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQ  257 (259)
Q Consensus       182 ----~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~~~  257 (259)
                          ..+++++||.+|.++...-..+.      .+     ... +.+-+...+++++++.+.+.++.+.||+|+|+++|+
T Consensus       163 ~~~~~~~ii~~Sa~~g~n~~~~~~~~~------~~-----~~~-w~~~~~~ll~~l~~~~~~p~~~~~~p~r~~I~~v~~  230 (409)
T CHL00071        163 FPGDDIPIVSGSALLALEALTENPKIK------RG-----ENK-WVDKIYNLMDAVDSYIPTPERDTDKPFLMAIEDVFS  230 (409)
T ss_pred             CCCCcceEEEcchhhcccccccCcccc------cc-----CCc-hhhhHHHHHHHHHhhCCCCCCCCCCCEEEEEEEEEE
Confidence                25778999999987653211100      00     001 111224577777777777778888999999999997


Q ss_pred             c
Q psy6316         258 I  258 (259)
Q Consensus       258 ~  258 (259)
                      +
T Consensus       231 ~  231 (409)
T CHL00071        231 I  231 (409)
T ss_pred             e
Confidence            4

>cd01868 Rab11_like Rab11-like

Probab=99.89  E-value=3.2e-23  Score=159.24  Aligned_cols=153  Identities=18%  Similarity=0.209  Sum_probs=105.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||++++.+..+...+.++.+.++.........     ...                .+.+|||||+
T Consensus         4 ~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~l~D~~g~   62 (165)
T cd01868           4 FKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDG-----KTI----------------KAQIWDTAGQ   62 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECC-----EEE----------------EEEEEeCCCh
Confidence            4699999999999999999998877655444443322211111110     001                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ..+..++..+++.++++++|+|+++..+..+.. ++..+..   .+.|+++|+||+|+... .....++    ...+...
T Consensus        63 ~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~-~~~~~~~----~~~~~~~  137 (165)
T cd01868          63 ERYRAITSAYYRGAVGALLVYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLRHL-RAVPTEE----AKAFAEK  137 (165)
T ss_pred             HHHHHHHHHHHCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccc-ccCCHHH----HHHHHHH
Confidence            999999999999999999999998755554433 4444443   35899999999998642 1112222    2223333


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .++.++++||++|.|+++++..+
T Consensus       138 ~~~~~~~~Sa~~~~~v~~l~~~l  160 (165)
T cd01868         138 NGLSFIETSALDGTNVEEAFKQL  160 (165)
T ss_pred             cCCEEEEEECCCCCCHHHHHHHH
Confidence            45778999999999998866554

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

>cd04175 Rap1 Rap1 subgroup

Probab=99.89  E-value=3e-23  Score=159.29  Aligned_cols=152  Identities=15%  Similarity=0.109  Sum_probs=103.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+++++...+.....++++..+.. .     .......+                .+.+|||||+
T Consensus         2 ~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~-~-----~~~~~~~~----------------~l~i~Dt~G~   59 (164)
T cd04175           2 YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRK-Q-----VEVDGQQC----------------MLEILDTAGT   59 (164)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheEEE-E-----EEECCEEE----------------EEEEEECCCc
Confidence            359999999999999999998776654443333322110 0     00000001                1789999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      +.+..++..+++.+|++++|+|.++..+..... ++..+..    .+.|+++|+||+|+..... ....    ....+..
T Consensus        60 ~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~-~~~~----~~~~~~~  134 (164)
T cd04175          60 EQFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERV-VGKE----QGQNLAR  134 (164)
T ss_pred             ccchhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccE-EcHH----HHHHHHH
Confidence            999999999999999999999998765544432 4444432    4689999999999964211 1111    1233334


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+++++++||++|.|+++++..+
T Consensus       135 ~~~~~~~~~Sa~~~~~v~~~~~~l  158 (164)
T cd04175         135 QWGCAFLETSAKAKINVNEIFYDL  158 (164)
T ss_pred             HhCCEEEEeeCCCCCCHHHHHHHH
Confidence            445788999999999998866544

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

>cd01866 Rab2 Rab2 subfamily

Probab=99.89  E-value=4.8e-23  Score=158.90  Aligned_cols=152  Identities=18%  Similarity=0.148  Sum_probs=104.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||++++.+..+...+..+.+.+..........     ...                .+.+|||||+
T Consensus         5 ~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~i~Dt~G~   63 (168)
T cd01866           5 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDG-----KQI----------------KLQIWDTAGQ   63 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECC-----EEE----------------EEEEEECCCc
Confidence            3599999999999999999998876554443333322211111110     001                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      +.+......+++.+|++++|+|+++..+..... ++..++.   .+.|+++|+||+|+.... ....++    .......
T Consensus        64 ~~~~~~~~~~~~~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~-~~~~~~----~~~~~~~  138 (168)
T cd01866          64 ESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRR-EVSYEE----GEAFAKE  138 (168)
T ss_pred             HHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECccccccc-CCCHHH----HHHHHHH
Confidence            999998889999999999999998755544433 4555544   368999999999987321 112222    2223334


Q ss_pred             ccccccccccccCcceeEEeec
Q psy6316         181 VQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      .++.++++||++|.|+++++..
T Consensus       139 ~~~~~~e~Sa~~~~~i~~~~~~  160 (168)
T cd01866         139 HGLIFMETSAKTASNVEEAFIN  160 (168)
T ss_pred             cCCEEEEEeCCCCCCHHHHHHH
Confidence            4678899999999999875543

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.89  E-value=2.8e-23  Score=159.86  Aligned_cols=151  Identities=15%  Similarity=0.139  Sum_probs=104.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|||||||+++++...+...+.++++..+.........     ..+                .+.+|||||++
T Consensus         2 ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~l~i~Dt~G~~   60 (166)
T cd00877           2 KLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNR-----GKI----------------RFNVWDTAGQE   60 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECC-----EEE----------------EEEEEECCCCh
Confidence            599999999999999999987776554444444333211111100     011                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHhC--CCCEEEEEecccccCcccccchhhHHHHHhhhhcccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKSK--KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ  182 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~~--~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~  182 (259)
                      .+...+..++..+|++|+|+|+++..+.+... ++..+...  +.|+++|+||+|+....   ....    ..++.....
T Consensus        61 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~piiiv~nK~Dl~~~~---~~~~----~~~~~~~~~  133 (166)
T cd00877          61 KFGGLRDGYYIGGQCAIIMFDVTSRVTYKNVPNWHRDLVRVCGNIPIVLCGNKVDIKDRK---VKAK----QITFHRKKN  133 (166)
T ss_pred             hhccccHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCcEEEEEEchhccccc---CCHH----HHHHHHHcC
Confidence            98888888899999999999998866655443 44555432  69999999999986211   1111    122333446


Q ss_pred             ccccccccccCcceeEEeecCC
Q psy6316         183 THKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       183 ~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      +.++++||++|.|+++++..+.
T Consensus       134 ~~~~e~Sa~~~~~v~~~f~~l~  155 (166)
T cd00877         134 LQYYEISAKSNYNFEKPFLWLA  155 (166)
T ss_pred             CEEEEEeCCCCCChHHHHHHHH
Confidence            7889999999999988665553

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

>PTZ00369 Ras-like protein; Provisional

Probab=99.89  E-value=4e-23  Score=162.37  Aligned_cols=154  Identities=16%  Similarity=0.122  Sum_probs=104.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||++++++..+...+.++++..+... ...+     ...+                .+.+|||||
T Consensus         5 ~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~~~~-~~~~-----~~~~----------------~l~i~Dt~G   62 (189)
T PTZ00369          5 EYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSYRKQ-CVID-----EETC----------------LLDILDTAG   62 (189)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEEEEE-EEEC-----CEEE----------------EEEEEeCCC
Confidence            35699999999999999999998877554444333222100 0000     0001                288999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      ++++..++..+++.+|++++|+|+++..+..... ++..+..    .+.|+++|+||+|+.... .....+    .....
T Consensus        63 ~~~~~~l~~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~-~i~~~~----~~~~~  137 (189)
T PTZ00369         63 QEEYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSER-QVSTGE----GQELA  137 (189)
T ss_pred             CccchhhHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc-ccCHHH----HHHHH
Confidence            9999999999999999999999998865544433 3333432    368999999999986321 111111    22223


Q ss_pred             ccccccccccccccCcceeEEeecCC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ...+++++++||++|.|+.+++..+.
T Consensus       138 ~~~~~~~~e~Sak~~~gi~~~~~~l~  163 (189)
T PTZ00369        138 KSFGIPFLETSAKQRVNVDEAFYELV  163 (189)
T ss_pred             HHhCCEEEEeeCCCCCCHHHHHHHHH
Confidence            33457889999999999988665553

>KOG0098|consensus

Probab=99.89  E-value=3.5e-23  Score=154.45  Aligned_cols=153  Identities=19%  Similarity=0.131  Sum_probs=124.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .++.++|..|+|||+|+.+++...+...+..+++.+++.....++...-+                     +++|||+||
T Consensus         7 fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IK---------------------lqiwDtaGq   65 (216)
T KOG0098|consen    7 FKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIK---------------------LQIWDTAGQ   65 (216)
T ss_pred             EEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEE---------------------EEEEecCCc
Confidence            35999999999999999999999999999999999998887776543322                     999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      +.|.+...++++.|-++|+|+|.+...+...+. |+..++.   .+..+++++||+|+...     +..-.+.-+.+++.
T Consensus        66 e~frsv~~syYr~a~GalLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~~r-----R~Vs~EEGeaFA~e  140 (216)
T KOG0098|consen   66 ESFRSVTRSYYRGAAGALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLEAR-----REVSKEEGEAFARE  140 (216)
T ss_pred             HHHHHHHHHHhccCcceEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhhcc-----ccccHHHHHHHHHH
Confidence            999999999999999999999999887777765 4544544   35668899999999753     23334455666667


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+..+..+||+++.|+++.+...
T Consensus       141 hgLifmETSakt~~~VEEaF~nt  163 (216)
T KOG0098|consen  141 HGLIFMETSAKTAENVEEAFINT  163 (216)
T ss_pred             cCceeehhhhhhhhhHHHHHHHH
Confidence            77888899999999999865444

>PLN03126 Elongation factor Tu; Provisional

Probab=99.89  E-value=8.7e-23  Score=179.73  Aligned_cols=213  Identities=25%  Similarity=0.239  Sum_probs=131.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccc-cCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATN-VPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      ..+|+++|++++|||||+++|++..-.-..  .....+...+ ...+..+........      .........++|||||
T Consensus        81 ~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~--~~~~~~~~~D~~~~Er~rGiTi~~~~------~~~~~~~~~i~liDtP  152 (478)
T PLN03126         81 HVNIGTIGHVDHGKTTLTAALTMALASMGG--SAPKKYDEIDAAPEERARGITINTAT------VEYETENRHYAHVDCP  152 (478)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHhhhhhcc--ccccccccccCChhHHhCCeeEEEEE------EEEecCCcEEEEEECC
Confidence            456999999999999999999853211000  0000000000 000000000000000      0001122249999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      ||.+|...+...+..+|++++|+|+..+...++.+++..+...++| +|+++||+|+...+  ...+.+...+..+....
T Consensus       153 Gh~~f~~~~~~g~~~aD~ailVVda~~G~~~qt~e~~~~~~~~gi~~iIvvvNK~Dl~~~~--~~~~~i~~~i~~~l~~~  230 (478)
T PLN03126        153 GHADYVKNMITGAAQMDGAILVVSGADGPMPQTKEHILLAKQVGVPNMVVFLNKQDQVDDE--ELLELVELEVRELLSSY  230 (478)
T ss_pred             CHHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEecccccCHH--HHHHHHHHHHHHHHHhc
Confidence            9999999999999999999999999999999999999999999999 77899999997421  11233333444443332


Q ss_pred             -----cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHHHHHhh
Q psy6316         182 -----QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVF  256 (259)
Q Consensus       182 -----~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~~  256 (259)
                           ..+++++||.+|.++...-. .....          ...+. +-+...++++++..+.|.+..+.||+|+|+++|
T Consensus       231 g~~~~~~~~vp~Sa~~g~n~~~~~~-~~~~g----------~~~wy-~~i~~Ll~~l~~~~~~p~r~~~~p~r~~I~~vf  298 (478)
T PLN03126        231 EFPGDDIPIISGSALLALEALMENP-NIKRG----------DNKWV-DKIYELMDAVDSYIPIPQRQTDLPFLLAVEDVF  298 (478)
T ss_pred             CCCcCcceEEEEEcccccccccccc-ccccC----------CCchh-hhHHHHHHHHHHhCCCCCCccccceeeEEEEEE
Confidence                 45778999999876642100 00000          00111 112345666666555677788899999999999


Q ss_pred             cc
Q psy6316         257 QI  258 (259)
Q Consensus       257 ~~  258 (259)
                      ++
T Consensus       299 ~v  300 (478)
T PLN03126        299 SI  300 (478)
T ss_pred             Ee
Confidence            75

>cd04109 Rab28 Rab28 subfamily

Probab=99.89  E-value=4.9e-23  Score=165.08  Aligned_cols=155  Identities=16%  Similarity=0.153  Sum_probs=108.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+++|.+..+...+.++++.++..........    ..+                .+.||||||++
T Consensus         2 Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~----~~~----------------~~~i~Dt~G~~   61 (215)
T cd04109           2 KIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGN----LNV----------------TLQVWDIGGQS   61 (215)
T ss_pred             EEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCC----CEE----------------EEEEEECCCcH
Confidence            4999999999999999999988876666555554432221111100    001                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHhC------CCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKSK------KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~~------~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      .+..++..+++.+|++|+|+|+++..+..... ++..+...      +.|+++|+||+|+....     .........+.
T Consensus        62 ~~~~l~~~~~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~-----~v~~~~~~~~~  136 (215)
T cd04109          62 IGGKMLDKYIYGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNR-----TVKDDKHARFA  136 (215)
T ss_pred             HHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECccccccc-----ccCHHHHHHHH
Confidence            99999999999999999999998865555433 44444432      35789999999986321     11222233344


Q ss_pred             ccccccccccccccCcceeEEeecCCC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      ...+++.+++||++|+|++++++.+..
T Consensus       137 ~~~~~~~~~iSAktg~gv~~lf~~l~~  163 (215)
T cd04109         137 QANGMESCLVSAKTGDRVNLLFQQLAA  163 (215)
T ss_pred             HHcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            444577889999999999997766643

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

>cd01875 RhoG RhoG subfamily

Probab=99.88  E-value=6.5e-23  Score=161.37  Aligned_cols=160  Identities=15%  Similarity=0.115  Sum_probs=110.0

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+++|..|+|||||+.++....+...+.++++..+... ...+     ...+                .+.+||||
T Consensus         2 ~~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~-~~~~-----~~~~----------------~l~i~Dt~   59 (191)
T cd01875           2 QSIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQ-TAVD-----GRTV----------------SLNLWDTA   59 (191)
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeeeEEE-EEEC-----CEEE----------------EEEEEECC
Confidence            345699999999999999999998888666655554332110 0010     0111                28999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH--HHHHHHh--CCCCEEEEEecccccCcccccc-------hhhHH
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE--SINILKS--KKTPFVVALNKIDRLYNWNTMN-------RRDVR  171 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~--~l~~~~~--~~~piivv~NK~D~~~~~~~~~-------~~~~~  171 (259)
                      |++.|..++..+++.+|++|+|+|+++..+.....  |...+..  .+.|+++|+||.|+........       .....
T Consensus        60 G~e~~~~l~~~~~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~  139 (191)
T cd01875          60 GQEEYDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHCPNVPILLVGTKKDLRNDADTLKKLKEQGQAPITP  139 (191)
T ss_pred             CchhhhhhhhhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEeChhhhcChhhHHHHhhccCCCCCH
Confidence            99999999999999999999999999876666653  3343432  4689999999999863211000       00011


Q ss_pred             HHHhhhhcccc-ccccccccccCcceeEEeecCC
Q psy6316         172 DIIKSQESSVQ-THKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       172 ~~~~~~~~~~~-~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      +..+.+....+ +.++++||++|.|+++++..+.
T Consensus       140 ~~~~~~a~~~~~~~~~e~SAk~g~~v~e~f~~l~  173 (191)
T cd01875         140 QQGGALAKQIHAVKYLECSALNQDGVKEVFAEAV  173 (191)
T ss_pred             HHHHHHHHHcCCcEEEEeCCCCCCCHHHHHHHHH
Confidence            22333444444 5788999999999998766554

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

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.88  E-value=1.5e-22  Score=174.33  Aligned_cols=181  Identities=17%  Similarity=0.195  Sum_probs=116.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ..|+|+|.||||||||+|+|++.+..       ...+..+|..+..      ++...+.         ...++|+||||.
T Consensus       160 adValVG~PNaGKSTLln~Lt~~k~~-------vs~~p~TT~~p~~------Giv~~~~---------~~~i~~vDtPGi  217 (390)
T PRK12298        160 ADVGLLGLPNAGKSTFIRAVSAAKPK-------VADYPFTTLVPNL------GVVRVDD---------ERSFVVADIPGL  217 (390)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhCCccc-------ccCCCCCccCcEE------EEEEeCC---------CcEEEEEeCCCc
Confidence            36999999999999999999876541       2222222222211      1110000         012999999995


Q ss_pred             cc-------hHHHHHhhccCCCeEEEEEeCCC---CCCHH-HHHHHHHHHh-----CCCCEEEEEecccccCcccccchh
Q psy6316         105 ES-------FSNLRNRGSSLCDIAILVVDIMH---GLEPQ-TIESINILKS-----KKTPFVVALNKIDRLYNWNTMNRR  168 (259)
Q Consensus       105 ~~-------~~~~~~~~~~~ad~~i~v~d~~~---~~~~~-~~~~l~~~~~-----~~~piivv~NK~D~~~~~~~~~~~  168 (259)
                      ..       ....+..++..+|++++|+|++.   ..... ...++..+..     .++|+++|+||+|+..      ..
T Consensus       218 ~~~a~~~~~Lg~~~l~~i~radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~------~~  291 (390)
T PRK12298        218 IEGASEGAGLGIRFLKHLERCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLD------EE  291 (390)
T ss_pred             cccccchhhHHHHHHHHHHhCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCC------hH
Confidence            32       23344467889999999999872   21222 2344555554     3589999999999863      22


Q ss_pred             hHHHHHhhhhcccc--ccccccccccCcceeEEeecC---CCCCCcccccCC---cchhhHHHHhhhhhHHHH
Q psy6316         169 DVRDIIKSQESSVQ--THKTVESARKGQEICIKIEPI---PGEAPKMFGRHF---DENDFLVSKISRQSIDAC  233 (259)
Q Consensus       169 ~~~~~~~~~~~~~~--~~~i~~Sa~~g~gv~~~l~~i---~~~~~~~~~~~~---~~~~~~~~~~~~e~~~~l  233 (259)
                      ++.+.++.+....+  ..++++||+++.|+++++..+   +.+.+++|+...   .+.+++++|++||++...
T Consensus       292 el~~~l~~l~~~~~~~~~Vi~ISA~tg~GIdeLl~~I~~~L~~~~~~~~~~~~td~~~~~~~~EiiRE~~~~~  364 (390)
T PRK12298        292 EAEERAKAIVEALGWEGPVYLISAASGLGVKELCWDLMTFIEENPREEAEEAEAPEKVEFMWDDYHREQLEEV  364 (390)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEECCCCcCHHHHHHHHHHHhhhCcccCCcccccCccHHHHHHHHHHHHhhcc
Confidence            33333443333323  357899999999999876555   445566666554   377899999999998633

>cd01861 Rab6 Rab6 subfamily

Probab=99.88  E-value=5.9e-23  Score=157.04  Aligned_cols=152  Identities=19%  Similarity=0.207  Sum_probs=104.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||+++|.+..+...+.++.+.++..........     .+                .+.+|||||+.
T Consensus         2 ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~----------------~l~~~D~~G~~   60 (161)
T cd01861           2 KLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDK-----TV----------------RLQLWDTAGQE   60 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCE-----EE----------------EEEEEECCCcH
Confidence            5999999999999999999988876544444433222211111100     01                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh-C--CCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS-K--KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~-~--~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+..++..+++.+|++++|+|+++..+..... ++..+.. .  +.|+++++||+|+...     ...............
T Consensus        61 ~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~-----~~~~~~~~~~~~~~~  135 (161)
T cd01861          61 RFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDK-----RQVSTEEGEKKAKEL  135 (161)
T ss_pred             HHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhcccc-----CccCHHHHHHHHHHh
Confidence            99999999999999999999998765554433 4444432 2  4899999999999522     111222233333344


Q ss_pred             cccccccccccCcceeEEeecC
Q psy6316         182 QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ++.++++||++|.|+++++..+
T Consensus       136 ~~~~~~~Sa~~~~~v~~l~~~i  157 (161)
T cd01861         136 NAMFIETSAKAGHNVKELFRKI  157 (161)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHH
Confidence            5788899999999998866544

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

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.88  E-value=7.3e-23  Score=186.73  Aligned_cols=162  Identities=41%  Similarity=0.645  Sum_probs=120.1

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      .-|+++|+++|++|+|||||+++|.+..+...+.++++...+.........        +           ....++|||
T Consensus       241 ~~r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~--------~-----------~~~kItfiD  301 (742)
T CHL00189        241 INRPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYK--------D-----------ENQKIVFLD  301 (742)
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEec--------C-----------CceEEEEEE
Confidence            347889999999999999999999988776555445544443322111100        0           011399999


Q ss_pred             CCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhh---
Q psy6316         101 TPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ---  177 (259)
Q Consensus       101 tpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~---  177 (259)
                      ||||+.|..++..+++.+|++|+|+|++++...++.+.+..+...++|+|+++||+|+...    ..+.+...+...   
T Consensus       302 TPGhe~F~~mr~rg~~~aDiaILVVDA~dGv~~QT~E~I~~~k~~~iPiIVViNKiDl~~~----~~e~v~~eL~~~~ll  377 (742)
T CHL00189        302 TPGHEAFSSMRSRGANVTDIAILIIAADDGVKPQTIEAINYIQAANVPIIVAINKIDKANA----NTERIKQQLAKYNLI  377 (742)
T ss_pred             CCcHHHHHHHHHHHHHHCCEEEEEEECcCCCChhhHHHHHHHHhcCceEEEEEECCCcccc----CHHHHHHHHHHhccc
Confidence            9999999999999999999999999999998888899999988899999999999998642    123333333222   


Q ss_pred             hccc--cccccccccccCcceeEEeecCCC
Q psy6316         178 ESSV--QTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       178 ~~~~--~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      ...+  .++++++||++|.|+++++..+..
T Consensus       378 ~e~~g~~vpvv~VSAktG~GIdeLle~I~~  407 (742)
T CHL00189        378 PEKWGGDTPMIPISASQGTNIDKLLETILL  407 (742)
T ss_pred             hHhhCCCceEEEEECCCCCCHHHHHHhhhh
Confidence            1112  267889999999999987766543

>cd04149 Arf6 Arf6 subfamily

Probab=99.88  E-value=1.2e-22  Score=156.69  Aligned_cols=152  Identities=16%  Similarity=0.153  Sum_probs=100.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|....+.. ..++++...    .   ...  ...+                .+.+|||||
T Consensus         9 ~~kv~i~G~~~~GKTsli~~l~~~~~~~-~~~t~g~~~----~---~~~--~~~~----------------~~~l~Dt~G   62 (168)
T cd04149           9 EMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFNV----E---TVT--YKNV----------------KFNVWDVGG   62 (168)
T ss_pred             ccEEEEECcCCCCHHHHHHHHccCCCcc-ccCCcccce----E---EEE--ECCE----------------EEEEEECCC
Confidence            3569999999999999999998665431 111121111    0   000  0011                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHH-Hh---CCCCEEEEEecccccCcccccchhhHHHHHhhh-
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINIL-KS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ-  177 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~-~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~-  177 (259)
                      ++.+...+..+++.+|++|+|+|+++..+..+. .++..+ ..   .+.|+++|+||+|+...   ...+++.+.++.. 
T Consensus        63 ~~~~~~~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~---~~~~~i~~~~~~~~  139 (168)
T cd04149          63 QDKIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDA---MKPHEIQEKLGLTR  139 (168)
T ss_pred             CHHHHHHHHHHhccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCccC---CCHHHHHHHcCCCc
Confidence            999999999999999999999999875444332 333333 22   35899999999998632   1233333333211 


Q ss_pred             hccccccccccccccCcceeEEeecCC
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      .....++++++||++|.|+++.+..+.
T Consensus       140 ~~~~~~~~~~~SAk~g~gv~~~~~~l~  166 (168)
T cd04149         140 IRDRNWYVQPSCATSGDGLYEGLTWLS  166 (168)
T ss_pred             cCCCcEEEEEeeCCCCCChHHHHHHHh
Confidence            122345778999999999988766553

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

>cd04176 Rap2 Rap2 subgroup

Probab=99.88  E-value=4e-23  Score=158.36  Aligned_cols=152  Identities=18%  Similarity=0.155  Sum_probs=102.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+++++...+.....++... ..........     ...                .+.||||||+
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~-~~~~~~~~~~-----~~~----------------~l~i~Dt~G~   59 (163)
T cd04176           2 YKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIED-FYRKEIEVDS-----SPS----------------VLEILDTAGT   59 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchhh-eEEEEEEECC-----EEE----------------EEEEEECCCc
Confidence            35999999999999999999988775544333221 1000110000     000                1889999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      +.|..++..+++.+|++++|+|+++..+..+.. ++..+..    .++|+++|+||+|+.... .....    ....+..
T Consensus        60 ~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~-~~~~~----~~~~~~~  134 (163)
T cd04176          60 EQFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESER-EVSSA----EGRALAE  134 (163)
T ss_pred             ccccchHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcC-ccCHH----HHHHHHH
Confidence            999999999999999999999998865544433 4344433    468999999999986321 11111    1222333


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .++++++++||++|.|+++++..+
T Consensus       135 ~~~~~~~~~Sa~~~~~v~~l~~~l  158 (163)
T cd04176         135 EWGCPFMETSAKSKTMVNELFAEI  158 (163)
T ss_pred             HhCCEEEEecCCCCCCHHHHHHHH
Confidence            345678899999999998866544

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

>cd04110 Rab35 Rab35 subfamily

Probab=99.88  E-value=7.1e-23  Score=162.21  Aligned_cols=154  Identities=16%  Similarity=0.144  Sum_probs=107.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++|+|||||++++.+..+...+.++++.++.........     ..+                .+.||||||+
T Consensus         7 ~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~l~l~D~~G~   65 (199)
T cd04110           7 FKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEING-----ERV----------------KLQIWDTAGQ   65 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECC-----EEE----------------EEEEEeCCCc
Confidence            4599999999999999999998877554444443332221111100     000                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh--CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS--KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      +.+...+..+++.+|++++|+|+++..+..... ++..+..  ...|+++|+||+|+.... ...    ......+....
T Consensus        66 ~~~~~~~~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~piivVgNK~Dl~~~~-~~~----~~~~~~~~~~~  140 (199)
T cd04110          66 ERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCDDVCKVLVGNKNDDPERK-VVE----TEDAYKFAGQM  140 (199)
T ss_pred             hhHHHHHHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccccccc-ccC----HHHHHHHHHHc
Confidence            999999999999999999999998865554433 4455544  357999999999986421 111    12223333344


Q ss_pred             cccccccccccCcceeEEeecCC
Q psy6316         182 QTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ++.++++||++|.|+.+++..+.
T Consensus       141 ~~~~~e~Sa~~~~gi~~lf~~l~  163 (199)
T cd04110         141 GISLFETSAKENINVEEMFNCIT  163 (199)
T ss_pred             CCEEEEEECCCCcCHHHHHHHHH
Confidence            57889999999999998766553

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

>cd04144 Ras2 Ras2 subfamily

Probab=99.88  E-value=4.6e-23  Score=162.16  Aligned_cols=152  Identities=18%  Similarity=0.194  Sum_probs=104.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+++|+...+...+.++++..+... ...     ....+                .+.||||||++
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~~~~-~~~-----~~~~~----------------~l~i~Dt~G~~   58 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYRKQ-VVV-----DGQPC----------------MLEVLDTAGQE   58 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhEEEE-EEE-----CCEEE----------------EEEEEECCCch
Confidence            389999999999999999998877554443333211100 000     00001                18899999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh------CCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS------KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~------~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      .|...+..+++.+|++++|+|+++..+..... ++..+..      .+.|+++|+||+|+.... .....    ....+.
T Consensus        59 ~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~-~v~~~----~~~~~~  133 (190)
T cd04144          59 EYTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYER-EVSTE----EGAALA  133 (190)
T ss_pred             hhHHHHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccC-ccCHH----HHHHHH
Confidence            99999999999999999999998865555433 4444432      358999999999986321 11111    223333


Q ss_pred             ccccccccccccccCcceeEEeecCC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ...++.++++||++|.|+++++..+.
T Consensus       134 ~~~~~~~~e~SAk~~~~v~~l~~~l~  159 (190)
T cd04144         134 RRLGCEFIEASAKTNVNVERAFYTLV  159 (190)
T ss_pred             HHhCCEEEEecCCCCCCHHHHHHHHH
Confidence            44467889999999999998766554

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.

>cd04116 Rab9 Rab9 subfamily

Probab=99.88  E-value=6.7e-23  Score=158.27  Aligned_cols=153  Identities=20%  Similarity=0.179  Sum_probs=103.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||++++++..+.....++++...........     ...+                .+.||||||+
T Consensus         6 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~----------------~l~i~D~~G~   64 (170)
T cd04116           6 LKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVD-----GHFV----------------TLQIWDTAGQ   64 (170)
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEEC-----CeEE----------------EEEEEeCCCh
Confidence            359999999999999999999887765544444322211111110     0011                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh-------CCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS-------KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~-------~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      +.+..++..+++.+|++++|+|+++..+..... +...+..       .+.|+++|+||+|+..  .....++    +++
T Consensus        65 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~--~~~~~~~----~~~  138 (170)
T cd04116          65 ERFRSLRTPFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIPE--RQVSTEE----AQA  138 (170)
T ss_pred             HHHHHhHHHHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECccccc--cccCHHH----HHH
Confidence            999999999999999999999998765444433 3333321       3579999999999862  1112222    333


Q ss_pred             hhcccc-ccccccccccCcceeEEeecCC
Q psy6316         177 QESSVQ-THKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       177 ~~~~~~-~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      +....+ ++++++||++|.|+.+++..+.
T Consensus       139 ~~~~~~~~~~~e~Sa~~~~~v~~~~~~~~  167 (170)
T cd04116         139 WCRENGDYPYFETSAKDATNVAAAFEEAV  167 (170)
T ss_pred             HHHHCCCCeEEEEECCCCCCHHHHHHHHH
Confidence            333333 4678999999999988665543

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

>cd04112 Rab26 Rab26 subfamily

Probab=99.88  E-value=6.7e-23  Score=161.35  Aligned_cols=154  Identities=19%  Similarity=0.215  Sum_probs=104.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCC-CCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDG-EAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      +|+++|.+|+|||||++++.+..+..+ +..+++.++.........     ..+                .+.||||||+
T Consensus         2 Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~i~Dt~G~   60 (191)
T cd04112           2 KVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDG-----VKV----------------KLQIWDTAGQ   60 (191)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECC-----EEE----------------EEEEEeCCCc
Confidence            599999999999999999998876432 222222221111011100     001                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ..+...+..+++.+|++|+|+|+++..+..+.. ++..+..   .+.|+++|+||+|+... ....    ......+...
T Consensus        61 ~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~-~~~~----~~~~~~l~~~  135 (191)
T cd04112          61 ERFRSVTHAYYRDAHALLLLYDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGE-RVVK----REDGERLAKE  135 (191)
T ss_pred             HHHHHhhHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhc-cccC----HHHHHHHHHH
Confidence            999988889999999999999998765544332 4444443   36899999999998632 1111    1223333344


Q ss_pred             ccccccccccccCcceeEEeecCCC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      .+++++++||++|.|+++++..+..
T Consensus       136 ~~~~~~e~Sa~~~~~v~~l~~~l~~  160 (191)
T cd04112         136 YGVPFMETSAKTGLNVELAFTAVAK  160 (191)
T ss_pred             cCCeEEEEeCCCCCCHHHHHHHHHH
Confidence            5678899999999999997766643

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.

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.88  E-value=8.5e-23  Score=158.49  Aligned_cols=156  Identities=16%  Similarity=0.174  Sum_probs=107.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++....+...+.++++..+... .....     ..+                .+.||||||++
T Consensus         3 ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~~~-~~~~~-----~~~----------------~l~i~Dt~G~~   60 (175)
T cd01874           3 KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGG-----EPY----------------TLGLFDTAGQE   60 (175)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeEEE-EEECC-----EEE----------------EEEEEECCCcc
Confidence            599999999999999999998888666655554433211 11100     001                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH--HHHHHHh--CCCCEEEEEecccccCccccc-------chhhHHHHH
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE--SINILKS--KKTPFVVALNKIDRLYNWNTM-------NRRDVRDII  174 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~--~l~~~~~--~~~piivv~NK~D~~~~~~~~-------~~~~~~~~~  174 (259)
                      .|...+..+++.+|++|+|+|+++..+.....  |+..+..  .+.|+++|+||+|+.......       .+....+..
T Consensus        61 ~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~  140 (175)
T cd01874          61 DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETG  140 (175)
T ss_pred             chhhhhhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHH
Confidence            99988888999999999999998876666542  5555543  368999999999986421000       001111222


Q ss_pred             hhhhcccc-ccccccccccCcceeEEeecC
Q psy6316         175 KSQESSVQ-THKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       175 ~~~~~~~~-~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +.+....+ +.++++||++|.|+.+++..+
T Consensus       141 ~~~a~~~~~~~~~e~SA~tg~~v~~~f~~~  170 (175)
T cd01874         141 EKLARDLKAVKYVECSALTQKGLKNVFDEA  170 (175)
T ss_pred             HHHHHHhCCcEEEEecCCCCCCHHHHHHHH
Confidence            33333344 678899999999998866544

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

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.88  E-value=6.5e-23  Score=178.16  Aligned_cols=204  Identities=25%  Similarity=0.267  Sum_probs=127.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|+.++|||||+++|++.....+......... ......+..+........      .+.......++||||||
T Consensus        12 ~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~-~d~~~~E~~rG~Ti~~~~------~~~~~~~~~~~liDtpG   84 (394)
T TIGR00485        12 HVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQ-IDNAPEEKARGITINTAH------VEYETENRHYAHVDCPG   84 (394)
T ss_pred             eEEEEEEeecCCCHHHHHHHHHhhHHHhhccccccccc-ccCCHHHHhcCcceeeEE------EEEcCCCEEEEEEECCc
Confidence            35599999999999999999974311100000000000 000000000000000000      00011122499999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEE-EEEecccccCcccccchhhHHHHHhhhhcccc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFV-VALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ  182 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pii-vv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~  182 (259)
                      |++|...+...+..+|++++|+|++++...++.+++..+...++|.+ +++||+|+...+.  ..+.+.+.++.+....+
T Consensus        85 h~~f~~~~~~~~~~~D~~ilVvda~~g~~~qt~e~l~~~~~~gi~~iIvvvNK~Dl~~~~~--~~~~~~~~i~~~l~~~~  162 (394)
T TIGR00485        85 HADYVKNMITGAAQMDGAILVVSATDGPMPQTREHILLARQVGVPYIVVFLNKCDMVDDEE--LLELVEMEVRELLSEYD  162 (394)
T ss_pred             hHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEEecccCCHHH--HHHHHHHHHHHHHHhcC
Confidence            99999888888899999999999999888999999999998999865 6899999874211  11222233444433332


Q ss_pred             -----ccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHHHHHhhc
Q psy6316         183 -----THKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQ  257 (259)
Q Consensus       183 -----~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~~~  257 (259)
                           ++++++||++|.+-..         .             +.+-+...++++++..+.+.+..+.||+|+|+++|+
T Consensus       163 ~~~~~~~ii~vSa~~g~~g~~---------~-------------~~~~~~~ll~~l~~~~~~~~~~~~~p~r~~V~~vf~  220 (394)
T TIGR00485       163 FPGDDTPIIRGSALKALEGDA---------E-------------WEAKILELMDAVDEYIPTPERETDKPFLMPIEDVFS  220 (394)
T ss_pred             CCccCccEEECccccccccCC---------c-------------hhHhHHHHHHHHHhcCCCCCCCCCCCeEEEEEEEEe
Confidence                 6788999998853110         1             111223566777776667778888999999999997


Q ss_pred             c
Q psy6316         258 I  258 (259)
Q Consensus       258 ~  258 (259)
                      +
T Consensus       221 ~  221 (394)
T TIGR00485       221 I  221 (394)
T ss_pred             e
Confidence            5

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.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.88  E-value=7.3e-23  Score=157.06  Aligned_cols=152  Identities=18%  Similarity=0.148  Sum_probs=102.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||++++++..+...+.++...... .....     ....+                .+.+|||||++
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~-~~~~~-----~~~~~----------------~l~i~Dt~g~~   59 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIEDSYR-KQIEI-----DGEVC----------------LLDILDTAGQE   59 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCcCCcccCCchhhhEE-EEEEE-----CCEEE----------------EEEEEECCCcc
Confidence            5999999999999999999988775544333321110 00000     00001                28899999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ++..++..+++.+|++++|+|+++..+..... +...+.    ..+.|+++|+||+|+.... ....    .........
T Consensus        60 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~-~~~~----~~~~~~~~~  134 (164)
T smart00173       60 EFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESER-VVST----EEGKELARQ  134 (164)
T ss_pred             cchHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc-eEcH----HHHHHHHHH
Confidence            99999999999999999999998765544432 223322    2368999999999986421 1111    122233333


Q ss_pred             ccccccccccccCcceeEEeecCC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      .+.+++++||++|.|+++++..+.
T Consensus       135 ~~~~~~~~Sa~~~~~i~~l~~~l~  158 (164)
T smart00173      135 WGCPFLETSAKERVNVDEAFYDLV  158 (164)
T ss_pred             cCCEEEEeecCCCCCHHHHHHHHH
Confidence            457889999999999988665543

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

>cd04117 Rab15 Rab15 subfamily

Probab=99.88  E-value=9.4e-23  Score=156.17  Aligned_cols=152  Identities=16%  Similarity=0.152  Sum_probs=106.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||++++.+..+...+.++++.+..........     ..+                .+.+|||||++
T Consensus         2 ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~l~i~D~~g~~   60 (161)
T cd04117           2 RLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDG-----IKV----------------RIQIWDTAGQE   60 (161)
T ss_pred             EEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECC-----EEE----------------EEEEEeCCCcH
Confidence            599999999999999999998887665555544333221111111     001                18999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+...+..+++.+|++++|+|.++..+..... ++..+..   .+.|+++|+||+|+..... ..    .+....+...+
T Consensus        61 ~~~~~~~~~~~~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~-v~----~~~~~~~~~~~  135 (161)
T cd04117          61 RYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQ-VG----DEQGNKLAKEY  135 (161)
T ss_pred             hHHhhHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccC-CC----HHHHHHHHHHc
Confidence            99999999999999999999998865554433 4444433   3589999999999863211 11    12233333444


Q ss_pred             cccccccccccCcceeEEeecC
Q psy6316         182 QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +++++++||++|.|+++++..+
T Consensus       136 ~~~~~e~Sa~~~~~v~~~f~~l  157 (161)
T cd04117         136 GMDFFETSACTNSNIKESFTRL  157 (161)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHH
Confidence            5778999999999998876654

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

>cd04133 Rop_like Rop subfamily

Probab=99.88  E-value=7.5e-23  Score=158.57  Aligned_cols=157  Identities=16%  Similarity=0.159  Sum_probs=112.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+.++....+...+.++++..+... ...+     ...+                .+.||||+|++
T Consensus         3 kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~-~~~~-----~~~v----------------~l~i~Dt~G~~   60 (176)
T cd04133           3 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSAN-VSVD-----GNTV----------------NLGLWDTAGQE   60 (176)
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeeeEEE-EEEC-----CEEE----------------EEEEEECCCCc
Confidence            599999999999999999999988766666664333111 1110     0111                29999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHh--CCCCEEEEEecccccCccc-----ccchhhHHHHHhh
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKS--KKTPFVVALNKIDRLYNWN-----TMNRRDVRDIIKS  176 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~--~~~piivv~NK~D~~~~~~-----~~~~~~~~~~~~~  176 (259)
                      +|..++..+++.+|++|+|+|.++..+....  .|+..++.  .+.|+++|+||+|+.....     ........+..+.
T Consensus        61 ~~~~~~~~~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~  140 (176)
T cd04133          61 DYNRLRPLSYRGADVFVLAFSLISRASYENVLKKWVPELRHYAPNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEE  140 (176)
T ss_pred             cccccchhhcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHH
Confidence            9999999999999999999999988787764  46666653  3689999999999963210     0000112333444


Q ss_pred             hhccccc-cccccccccCcceeEEeecCC
Q psy6316         177 QESSVQT-HKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       177 ~~~~~~~-~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      +....+. .++++||++|.|+++++..+.
T Consensus       141 ~a~~~~~~~~~E~SAk~~~nV~~~F~~~~  169 (176)
T cd04133         141 LRKQIGAAAYIECSSKTQQNVKAVFDAAI  169 (176)
T ss_pred             HHHHcCCCEEEECCCCcccCHHHHHHHHH
Confidence            4455555 478999999999988765554

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,

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.88  E-value=1.1e-22  Score=184.27  Aligned_cols=177  Identities=28%  Similarity=0.379  Sum_probs=123.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhcccc---CCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNV---QDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      .|+++|++++|||||+++|.+.+.   .+...++++.+.+........                      ...+.|||||
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~----------------------g~~i~~IDtP   59 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPD----------------------GRVLGFIDVP   59 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCC----------------------CcEEEEEECC
Confidence            489999999999999999986432   222223444444332211100                      0128999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      ||++|...+...+..+|++++|+|++++...++.+++..+...++| +++|+||+|+...+   ..+.....+.......
T Consensus        60 Ghe~fi~~m~~g~~~~D~~lLVVda~eg~~~qT~ehl~il~~lgi~~iIVVlNKiDlv~~~---~~~~v~~ei~~~l~~~  136 (614)
T PRK10512         60 GHEKFLSNMLAGVGGIDHALLVVACDDGVMAQTREHLAILQLTGNPMLTVALTKADRVDEA---RIAEVRRQVKAVLREY  136 (614)
T ss_pred             CHHHHHHHHHHHhhcCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEECCccCCHH---HHHHHHHHHHHHHHhc
Confidence            9999999999999999999999999999999999999988888888 57999999997321   1223333444443322


Q ss_pred             ---cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHHHHHhhcc
Q psy6316         182 ---QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQI  258 (259)
Q Consensus       182 ---~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~~~~  258 (259)
                         ..+++++||++|.|++.++.                              .+.+ +..+....+.+|+|+|+++|+|
T Consensus       137 ~~~~~~ii~VSA~tG~gI~~L~~------------------------------~L~~-~~~~~~~~~~~~rl~Id~vf~v  185 (614)
T PRK10512        137 GFAEAKLFVTAATEGRGIDALRE------------------------------HLLQ-LPEREHAAQHRFRLAIDRAFTV  185 (614)
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHH------------------------------HHHH-hhccccCcCCCceEEEEEEecc
Confidence               35788999999999865322                              1212 1222233567888999998875

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.88  E-value=1.4e-22  Score=158.95  Aligned_cols=156  Identities=17%  Similarity=0.161  Sum_probs=105.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++.+..+...+.+++...+... ....    ....+                .+.+|||||++
T Consensus         2 ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~-i~~~----~~~~~----------------~l~i~Dt~G~~   60 (187)
T cd04132           2 KIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYVTN-IQGP----NGKII----------------ELALWDTAGQE   60 (187)
T ss_pred             eEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeEEE-EEec----CCcEE----------------EEEEEECCCch
Confidence            599999999999999999998887655544443332111 0000    00011                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH--HHHHHHh--CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE--SINILKS--KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~--~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+...+..+++.+|++++|+|+++..+.....  ++..+..  .+.|+++|+||+|+...... .........+++....
T Consensus        61 ~~~~~~~~~~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~-~~~v~~~~~~~~~~~~  139 (187)
T cd04132          61 EYDRLRPLSYPDVDVLLICYAVDNPTSLDNVEDKWFPEVNHFCPGTPIMLVGLKTDLRKDKNL-DRKVTPAQAESVAKKQ  139 (187)
T ss_pred             hHHHHHHHhCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhhhCccc-cCCcCHHHHHHHHHHc
Confidence            99999888999999999999998866665543  4444432  46899999999998642211 0011122333344444


Q ss_pred             cc-cccccccccCcceeEEeecC
Q psy6316         182 QT-HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       182 ~~-~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +. +++++||++|.|+++++..+
T Consensus       140 ~~~~~~e~Sa~~~~~v~~~f~~l  162 (187)
T cd04132         140 GAFAYLECSAKTMENVEEVFDTA  162 (187)
T ss_pred             CCcEEEEccCCCCCCHHHHHHHH
Confidence            55 78899999999998866544

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.

>PRK12735 elongation factor Tu; Reviewed

Probab=99.88  E-value=7.2e-23  Score=177.78  Aligned_cols=206  Identities=24%  Similarity=0.241  Sum_probs=128.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++++|||||+++|++.....+........ .....+.+..+........      .+......+++|+||||
T Consensus        12 ~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~-~~d~~~~E~~rGiT~~~~~------~~~~~~~~~i~~iDtPG   84 (396)
T PRK12735         12 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYD-QIDNAPEEKARGITINTSH------VEYETANRHYAHVDCPG   84 (396)
T ss_pred             eEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhh-hccCChhHHhcCceEEEee------eEEcCCCcEEEEEECCC
Confidence            3459999999999999999998632111100000000 0000000000000000000      00011222499999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEE-EEEecccccCcccccchhhHHHHHhhhhccc-
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFV-VALNKIDRLYNWNTMNRRDVRDIIKSQESSV-  181 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pii-vv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~-  181 (259)
                      |.+|.......+..+|++++|+|+..+...++.+++..+...++|.+ +++||+|+...+  ...+.+...+..+.... 
T Consensus        85 h~~f~~~~~~~~~~aD~~llVvda~~g~~~qt~e~l~~~~~~gi~~iivvvNK~Dl~~~~--~~~~~~~~ei~~~l~~~~  162 (396)
T PRK12735         85 HADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNKCDMVDDE--ELLELVEMEVRELLSKYD  162 (396)
T ss_pred             HHHHHHHHHhhhccCCEEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEEEecCCcchH--HHHHHHHHHHHHHHHHcC
Confidence            99999888889999999999999999888888899999988999966 579999997321  11222233333333332 


Q ss_pred             ----cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHHHHHhhc
Q psy6316         182 ----QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQ  257 (259)
Q Consensus       182 ----~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~~~  257 (259)
                          ..+++++||++|.+...       ...|+     .        -+...++++++.++.+.+..+.||+|+|+++|+
T Consensus       163 ~~~~~~~ii~~Sa~~g~n~~~-------~~~w~-----~--------~~~~Ll~~l~~~~~~p~~~~~~p~r~~I~~~f~  222 (396)
T PRK12735        163 FPGDDTPIIRGSALKALEGDD-------DEEWE-----A--------KILELMDAVDSYIPEPERAIDKPFLMPIEDVFS  222 (396)
T ss_pred             CCcCceeEEecchhccccCCC-------CCccc-----c--------cHHHHHHHHHhcCCCCCccCCCCeEEEEEEEEe
Confidence                35778999999988421       11111     1        123566666666667778888999999999997


Q ss_pred             c
Q psy6316         258 I  258 (259)
Q Consensus       258 ~  258 (259)
                      +
T Consensus       223 v  223 (396)
T PRK12735        223 I  223 (396)
T ss_pred             c
Confidence            5

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.88  E-value=1.6e-22  Score=162.66  Aligned_cols=159  Identities=17%  Similarity=0.120  Sum_probs=113.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||++++....+...+.++++..+.. ....     ....+                .+.||||+|
T Consensus        13 ~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~~-~i~~-----~~~~v----------------~l~iwDTaG   70 (232)
T cd04174          13 RCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTA-GLET-----EEQRV----------------ELSLWDTSG   70 (232)
T ss_pred             eEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeEE-EEEE-----CCEEE----------------EEEEEeCCC
Confidence            3569999999999999999999988876666665443321 1111     00111                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHH--HHHHHHHHh--CCCCEEEEEecccccCcccc-------cchhhHHH
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQT--IESINILKS--KKTPFVVALNKIDRLYNWNT-------MNRRDVRD  172 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~--~~~l~~~~~--~~~piivv~NK~D~~~~~~~-------~~~~~~~~  172 (259)
                      ++.|..++..+++.+|++++|+|+++..+...  ..|+..+..  .+.|+++|+||+|+......       .......+
T Consensus        71 ~e~~~~~~~~~~~~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~  150 (232)
T cd04174          71 SPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWKAEIMDYCPSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYE  150 (232)
T ss_pred             chhhHHHHHHHcCCCcEEEEEEECCChHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccccchhhhhccccCCcCCHH
Confidence            99999999999999999999999998777765  246666654  36899999999998531100       00112233


Q ss_pred             HHhhhhccccc-cccccccccCc-ceeEEeecCC
Q psy6316         173 IIKSQESSVQT-HKTVESARKGQ-EICIKIEPIP  204 (259)
Q Consensus       173 ~~~~~~~~~~~-~~i~~Sa~~g~-gv~~~l~~i~  204 (259)
                      ..+++....+. .++++||++|. |+++++..+.
T Consensus       151 e~~~~a~~~~~~~~~EtSAktg~~~V~e~F~~~~  184 (232)
T cd04174         151 QGCALAKQLGAEVYLECSAFTSEKSIHSIFRSAS  184 (232)
T ss_pred             HHHHHHHHcCCCEEEEccCCcCCcCHHHHHHHHH
Confidence            45566666677 57899999997 7988766553

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.88  E-value=2e-22  Score=154.00  Aligned_cols=150  Identities=17%  Similarity=0.143  Sum_probs=97.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++....+.. +.++++...    ..          +.           +....+.+|||||++
T Consensus         2 kv~~~G~~~~GKTsli~~l~~~~~~~-~~pt~g~~~----~~----------~~-----------~~~~~~~l~D~~G~~   55 (159)
T cd04150           2 RILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGFNV----ET----------VE-----------YKNISFTVWDVGGQD   55 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCcc-cCCCCCcce----EE----------EE-----------ECCEEEEEEECCCCH
Confidence            39999999999999999997665532 222221111    00          00           001129999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHH-Hh---CCCCEEEEEecccccCcccccchhhHHHHHhh-hhc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINIL-KS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS-QES  179 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~-~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~-~~~  179 (259)
                      .+...+..+++.+|++++|+|+++..+... .+++..+ ..   .+.|+++++||+|+....   ..+++...+.. ...
T Consensus        56 ~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~---~~~~i~~~~~~~~~~  132 (159)
T cd04150          56 KIRPLWRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNAM---SAAEVTDKLGLHSLR  132 (159)
T ss_pred             hHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCCC---CHHHHHHHhCccccC
Confidence            999999999999999999999987543332 2233333 22   358999999999986321   12233332211 111


Q ss_pred             cccccccccccccCcceeEEeecCC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ..++.++++||++|.|+++++..+.
T Consensus       133 ~~~~~~~~~Sak~g~gv~~~~~~l~  157 (159)
T cd04150         133 NRNWYIQATCATSGDGLYEGLDWLS  157 (159)
T ss_pred             CCCEEEEEeeCCCCCCHHHHHHHHh
Confidence            2245567899999999998766553

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

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.88  E-value=1.1e-22  Score=158.45  Aligned_cols=156  Identities=15%  Similarity=0.151  Sum_probs=110.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||++++....+...+.+++...+.. ......     ..+                .+.+|||+|+
T Consensus         6 ~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~~~-~~~~~~-----~~~----------------~l~iwDtaG~   63 (182)
T cd04172           6 CKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEIDT-----QRI----------------ELSLWDTSGS   63 (182)
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeeeEE-EEEECC-----EEE----------------EEEEEECCCc
Confidence            359999999999999999999988876665555433311 111110     111                2999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHh--CCCCEEEEEecccccCccc-------ccchhhHHHH
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKS--KKTPFVVALNKIDRLYNWN-------TMNRRDVRDI  173 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~--~~~piivv~NK~D~~~~~~-------~~~~~~~~~~  173 (259)
                      +.|..++..+++.+|++++|+|.++..+....  .|+..++.  .+.|+++|+||+|+.....       ........+.
T Consensus        64 e~~~~~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~  143 (182)
T cd04172          64 PYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQ  143 (182)
T ss_pred             hhhHhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHH
Confidence            99999999999999999999999988777664  45555554  3689999999999853100       0011122334


Q ss_pred             Hhhhhccccc-cccccccccCcc-eeEEeec
Q psy6316         174 IKSQESSVQT-HKTVESARKGQE-ICIKIEP  202 (259)
Q Consensus       174 ~~~~~~~~~~-~~i~~Sa~~g~g-v~~~l~~  202 (259)
                      .+++....++ .++++||++|.| +++++..
T Consensus       144 ~~~~a~~~~~~~~~E~SAk~~~n~v~~~F~~  174 (182)
T cd04172         144 GANMAKQIGAATYIECSALQSENSVRDIFHV  174 (182)
T ss_pred             HHHHHHHcCCCEEEECCcCCCCCCHHHHHHH
Confidence            5555666664 788999999998 9876543

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.88  E-value=6.9e-23  Score=156.98  Aligned_cols=153  Identities=18%  Similarity=0.183  Sum_probs=103.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||++++++..+......+.+..+.........     ..+                .+.+|||||++
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~-----~~~----------------~~~i~D~~G~~   61 (163)
T cd01860           3 KLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDD-----TTV----------------KFEIWDTAGQE   61 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECC-----EEE----------------EEEEEeCCchH
Confidence            599999999999999999999887654433333222221121111     011                18999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+...+..+++.+|++++|+|+++..+... ..++..+..   .+.|+++++||+|+... ......+    ........
T Consensus        62 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~-~~~~~~~----~~~~~~~~  136 (163)
T cd01860          62 RYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESK-RQVSTEE----AQEYADEN  136 (163)
T ss_pred             HHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccc-CcCCHHH----HHHHHHHc
Confidence            998888889999999999999987544333 334454444   35789999999998632 1112222    22233333


Q ss_pred             cccccccccccCcceeEEeecCC
Q psy6316         182 QTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ++.++++||++|.|+..++..+.
T Consensus       137 ~~~~~~~Sa~~~~~v~~l~~~l~  159 (163)
T cd01860         137 GLLFFETSAKTGENVNELFTEIA  159 (163)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            47789999999999988665543

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

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.88  E-value=9.4e-23  Score=156.90  Aligned_cols=154  Identities=20%  Similarity=0.252  Sum_probs=97.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCC-CCCC-cceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQD-GEAG-GITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      +|+++|++|+|||||+++|.+..... +... ....+.+...          ..+.           +....+.+|||||
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~----------~~~~-----------~~~~~~~l~Dt~G   59 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNI----------GTIE-----------VGNARLKFWDLGG   59 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccce----------EEEE-----------ECCEEEEEEECCC
Confidence            48999999999999999997643210 0000 0000000000          0000           1111399999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      +..+...+..+++.+|++++|+|+++..+... ..++..+.    ..+.|+++++||+|+....   ...+....+....
T Consensus        60 ~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~~---~~~~~~~~~~~~~  136 (167)
T cd04160          60 QESLRSLWDKYYAECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDAL---SVEEIKEVFQDKA  136 (167)
T ss_pred             ChhhHHHHHHHhCCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccCC---CHHHHHHHhcccc
Confidence            99999999999999999999999976433222 22333332    2478999999999986421   2233444333332


Q ss_pred             ---ccccccccccccccCcceeEEeecC
Q psy6316         179 ---SSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       179 ---~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                         ....++++++||++|+|+++++..+
T Consensus       137 ~~~~~~~~~~~~~Sa~~g~gv~e~~~~l  164 (167)
T cd04160         137 EEIGRRDCLVLPVSALEGTGVREGIEWL  164 (167)
T ss_pred             ccccCCceEEEEeeCCCCcCHHHHHHHH
Confidence               1224678899999999998866544

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.

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.88  E-value=1.1e-22  Score=155.79  Aligned_cols=152  Identities=18%  Similarity=0.207  Sum_probs=105.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||++++.+..+.....++.+.++..........     ..                .+.+|||||+.
T Consensus         2 kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~----------------~~~l~D~~G~~   60 (164)
T smart00175        2 KIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGK-----RV----------------KLQIWDTAGQE   60 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCE-----EE----------------EEEEEECCChH
Confidence            5999999999999999999988775555444443332222211100     00                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+...+..++..+|++++|+|+++..+..... ++..+..   .+.|+++++||+|+.... ....+...    .+....
T Consensus        61 ~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~-~~~~~~~~----~~~~~~  135 (164)
T smart00175       61 RFRSITSSYYRGAVGALLVYDITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLEDQR-QVSREEAE----AFAEEH  135 (164)
T ss_pred             HHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhccccc-CCCHHHHH----HHHHHc
Confidence            99999999999999999999998765544433 4444433   468999999999986421 11222222    233344


Q ss_pred             cccccccccccCcceeEEeecC
Q psy6316         182 QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +++++++||++|.|+++++..+
T Consensus       136 ~~~~~e~Sa~~~~~i~~l~~~i  157 (164)
T smart00175      136 GLPFFETSAKTNTNVEEAFEEL  157 (164)
T ss_pred             CCeEEEEeCCCCCCHHHHHHHH
Confidence            5788999999999998755443

Rab GTPases are implicated in vesicle trafficking.

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

Probab=99.88  E-value=7.6e-23  Score=179.66  Aligned_cols=144  Identities=26%  Similarity=0.367  Sum_probs=99.5

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCC---CCHHHHHHHHHHHhCC-CCEEEEEecccccCcccccchhhH
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG---LEPQTIESINILKSKK-TPFVVALNKIDRLYNWNTMNRRDV  170 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~---~~~~~~~~l~~~~~~~-~piivv~NK~D~~~~~~~~~~~~~  170 (259)
                      .+.|||||||++|...+...+..+|++++|+|++++   ...+..+++......+ .|+++++||+|+... .....+..
T Consensus        86 ~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~~~~~iIVviNK~Dl~~~-~~~~~~~~  164 (426)
T TIGR00483        86 EVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLARTLGINQLIVAINKMDSVNY-DEEEFEAI  164 (426)
T ss_pred             EEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHHHcCCCeEEEEEEChhccCc-cHHHHHHH
Confidence            499999999999988888888999999999999987   4445555555555555 468899999999631 11122333


Q ss_pred             HHHHhhhhccc-----cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchh
Q psy6316         171 RDIIKSQESSV-----QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTD  245 (259)
Q Consensus       171 ~~~~~~~~~~~-----~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~  245 (259)
                      ...++.+....     .++++++||++|.|+.+....    .+|+.+      .        ..++++.+ +..+.+..+
T Consensus       165 ~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~~~----~~w~~g------~--------~l~~~l~~-~~~~~~~~~  225 (426)
T TIGR00483       165 KKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKSEN----TPWYKG------K--------TLLEALDA-LEPPEKPTD  225 (426)
T ss_pred             HHHHHHHHHHcCCCcccceEEEeeccccccccccccC----Cccccc------h--------HHHHHHhc-CCCCCCccC
Confidence            44444444333     357889999999999885432    344321      1        23344433 445556678


Q ss_pred             hHHHHHHHHhhcc
Q psy6316         246 WQLMVDLKKVFQI  258 (259)
Q Consensus       246 ~~~~~~i~~~~~~  258 (259)
                      .||+|+|+++|++
T Consensus       226 ~p~r~~i~~v~~~  238 (426)
T TIGR00483       226 KPLRIPIQDVYSI  238 (426)
T ss_pred             CCcEEEEEEEEec
Confidence            8999999999975

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.

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.88  E-value=1.2e-22  Score=156.86  Aligned_cols=152  Identities=15%  Similarity=0.168  Sum_probs=101.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+++++...+...+..+++.+..........     ...                .+.+|||||
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~i~Dt~G   60 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDG-----ERI----------------KVQLWDTAG   60 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECC-----eEE----------------EEEEEeCCC
Confidence            35699999999999999999998776554444443322211111100     001                289999999


Q ss_pred             CcchH-HHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         104 HESFS-NLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       104 ~~~~~-~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      ++++. ..+..+++.+|++++|+|+++..+.+... ++..+..    .++|+++|+||+|+....     .......+++
T Consensus        61 ~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~-----~~~~~~~~~~  135 (170)
T cd04115          61 QERFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQI-----QVPTDLAQRF  135 (170)
T ss_pred             hHHHHHhhHHHhhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhc-----CCCHHHHHHH
Confidence            98886 46777889999999999999876665544 4444443    358999999999986421     1112223333


Q ss_pred             hcccccccccccccc---CcceeEEee
Q psy6316         178 ESSVQTHKTVESARK---GQEICIKIE  201 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~---g~gv~~~l~  201 (259)
                      ....+++++++||++   +.++.+++.
T Consensus       136 ~~~~~~~~~e~Sa~~~~~~~~i~~~f~  162 (170)
T cd04115         136 ADAHSMPLFETSAKDPSENDHVEAIFM  162 (170)
T ss_pred             HHHcCCcEEEEeccCCcCCCCHHHHHH
Confidence            444457889999999   666655443

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

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.88  E-value=1.3e-22  Score=172.07  Aligned_cols=153  Identities=21%  Similarity=0.273  Sum_probs=113.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      +.|+++|+||+|||||+|+|++...      ++..++..+|.+.      ..+..          .+....|.++||+|.
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~------AIV~D~pGvTRDr------~y~~~----------~~~~~~f~lIDTgGl   61 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRI------AIVSDTPGVTRDR------IYGDA----------EWLGREFILIDTGGL   61 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCee------eEeecCCCCccCC------cccee----------EEcCceEEEEECCCC
Confidence            6799999999999999999998876      3555554443332      11111          222334999999995


Q ss_pred             cchH---------HHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316         105 ESFS---------NLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus       105 ~~~~---------~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      +...         .....++..||++|||+|+..+.++.+..+.+.++..++|+++|+||+|....         .....
T Consensus        62 ~~~~~~~l~~~i~~Qa~~Ai~eADvilfvVD~~~Git~~D~~ia~~Lr~~~kpviLvvNK~D~~~~---------e~~~~  132 (444)
T COG1160          62 DDGDEDELQELIREQALIAIEEADVILFVVDGREGITPADEEIAKILRRSKKPVILVVNKIDNLKA---------EELAY  132 (444)
T ss_pred             CcCCchHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEEEEEEcccCchh---------hhhHH
Confidence            5322         22345678999999999999999999999999999888999999999997521         22233


Q ss_pred             hhhccccccccccccccCcceeEEeecCCCCCC
Q psy6316         176 SQESSVQTHKTVESARKGQEICIKIEPIPGEAP  208 (259)
Q Consensus       176 ~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~~~  208 (259)
                      ++....--.++++||..|.|+..++++++...+
T Consensus       133 efyslG~g~~~~ISA~Hg~Gi~dLld~v~~~l~  165 (444)
T COG1160         133 EFYSLGFGEPVPISAEHGRGIGDLLDAVLELLP  165 (444)
T ss_pred             HHHhcCCCCceEeehhhccCHHHHHHHHHhhcC
Confidence            444444457889999999999998887766653

>cd04157 Arl6 Arl6 subfamily

Probab=99.88  E-value=2.2e-22  Score=154.00  Aligned_cols=150  Identities=15%  Similarity=0.199  Sum_probs=97.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhcccc-CCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNV-QDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      +|+++|.+|+|||||+++|.+... .....++++    .......     ...                ..+.+|||||+
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g----~~~~~~~-----~~~----------------~~~~l~Dt~G~   55 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVG----FNVESFE-----KGN----------------LSFTAFDMSGQ   55 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccc----cceEEEE-----ECC----------------EEEEEEECCCC
Confidence            389999999999999999987643 222222221    1110000     001                12899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHH------hCCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILK------SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~------~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      ..+...+..+++.+|++++|+|+++..+... ..++..+.      ..++|+++|+||+|+....   ...++...+...
T Consensus        56 ~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~---~~~~~~~~l~~~  132 (162)
T cd04157          56 GKYRGLWEHYYKNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDAL---TAVKITQLLGLE  132 (162)
T ss_pred             HhhHHHHHHHHccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCC---CHHHHHHHhCCc
Confidence            9999999999999999999999987644322 22333322      2468999999999986321   112222222111


Q ss_pred             h-ccccccccccccccCcceeEEeecC
Q psy6316         178 E-SSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       178 ~-~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      . ....+.++++||++|.|+++++..+
T Consensus       133 ~~~~~~~~~~~~Sa~~g~gv~~~~~~l  159 (162)
T cd04157         133 NIKDKPWHIFASNALTGEGLDEGVQWL  159 (162)
T ss_pred             cccCceEEEEEeeCCCCCchHHHHHHH
Confidence            1 1223567899999999999877654

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

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.88  E-value=3.4e-22  Score=180.23  Aligned_cols=134  Identities=64%  Similarity=0.945  Sum_probs=102.6

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccc-cccCCCCCCCCCCCCCCCCeEEE
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTK-HVRGPGGEVGGPGPLEIPGLLII   99 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~li   99 (259)
                      ..|+|.|+++|++|+|||||+++|.+..+...+.+.++..++.+..+......... .....      +..+....++||
T Consensus         3 ~~R~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~------~~~~~~~~i~~i   76 (586)
T PRK04004          3 KLRQPIVVVLGHVDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPL------PIKLKIPGLLFI   76 (586)
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhCcccccCCCCceEEeeceeeccccccccccceecccc------ccccccCCEEEE
Confidence            57899999999999999999999998877766666677677655544322110000 00000      011222348999


Q ss_pred             eCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316         100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus       100 DtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      |||||+.|..++...++.+|++++|+|++++...++.+.+..+...++|+++++||+|+..
T Consensus        77 DTPG~e~f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~~~~~~vpiIvviNK~D~~~  137 (586)
T PRK04004         77 DTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTIEAINILKRRKTPFVVAANKIDRIP  137 (586)
T ss_pred             ECCChHHHHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHHHHHcCCCEEEEEECcCCch
Confidence            9999999999999889999999999999998888888888888888999999999999863

>cd04118 Rab24 Rab24 subfamily

Probab=99.88  E-value=2.1e-22  Score=158.81  Aligned_cols=157  Identities=16%  Similarity=0.130  Sum_probs=105.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCC-CCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQD-GEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      +|+++|.+|+|||||++++++..+.. .+.++++..+..........     .+                .+.+|||||+
T Consensus         2 ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~-----~~----------------~l~i~D~~G~   60 (193)
T cd04118           2 KVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGER-----VV----------------TLGIWDTAGS   60 (193)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCE-----EE----------------EEEEEECCCc
Confidence            59999999999999999999887753 23333333221111111100     01                1789999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHhC--CCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKSK--KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~~--~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      +++..++..+++.+|++++|+|+++..+.... .++..+...  +.|+++|+||+|+...... ........+..+....
T Consensus        61 ~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~-~~~v~~~~~~~~~~~~  139 (193)
T cd04118          61 ERYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLEEHCKIYLCGTKSDLIEQDRS-LRQVDFHDVQDFADEI  139 (193)
T ss_pred             hhhhhhhHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHhcCCCCCEEEEEEcccccccccc-cCccCHHHHHHHHHHc
Confidence            99988888889999999999999876554432 355555543  6899999999998642110 0111112233344445


Q ss_pred             cccccccccccCcceeEEeecCC
Q psy6316         182 QTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      +.+++++||++|.|+++++..+.
T Consensus       140 ~~~~~~~Sa~~~~gv~~l~~~i~  162 (193)
T cd04118         140 KAQHFETSSKTGQNVDELFQKVA  162 (193)
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHH
Confidence            67788999999999988665553

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

>PLN03127 Elongation factor Tu; Provisional

Probab=99.88  E-value=2e-22  Score=176.53  Aligned_cols=203  Identities=24%  Similarity=0.283  Sum_probs=125.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|+.++|||||+++|.+.....+......... ....+.+..+.......      ..+......+++|+||||
T Consensus        61 ~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~-~D~~~~E~~rGiTi~~~------~~~~~~~~~~i~~iDtPG  133 (447)
T PLN03127         61 HVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDE-IDKAPEEKARGITIATA------HVEYETAKRHYAHVDCPG  133 (447)
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeecc-ccCChhHhhcCceeeee------EEEEcCCCeEEEEEECCC
Confidence            45699999999999999999964321111100000000 00000000000000000      000111223499999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHHHHHhhhhccc-
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV-  181 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~-  181 (259)
                      |.+|...+...+..+|++++|+|+..+...++.+++..+...++| +|+++||+|+.....  ..+.+...+..+.... 
T Consensus       134 h~~f~~~~~~g~~~aD~allVVda~~g~~~qt~e~l~~~~~~gip~iIvviNKiDlv~~~~--~~~~i~~~i~~~l~~~~  211 (447)
T PLN03127        134 HADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVPSLVVFLNKVDVVDDEE--LLELVEMELRELLSFYK  211 (447)
T ss_pred             ccchHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEEEeeccCCHHH--HHHHHHHHHHHHHHHhC
Confidence            999988888888899999999999999999999999999999999 578899999974211  1122222333333221 


Q ss_pred             ----ccccccccccc---CcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHHHHH
Q psy6316         182 ----QTHKTVESARK---GQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKK  254 (259)
Q Consensus       182 ----~~~~i~~Sa~~---g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~  254 (259)
                          ..+++++||.+   |.|..             ..          .+-+.+.++++++.++.+.+..+.+|+|+|++
T Consensus       212 ~~~~~vpiip~Sa~sa~~g~n~~-------------~~----------~~~i~~Ll~~l~~~lp~p~r~~~~pfr~~I~~  268 (447)
T PLN03127        212 FPGDEIPIIRGSALSALQGTNDE-------------IG----------KNAILKLMDAVDEYIPEPVRVLDKPFLMPIED  268 (447)
T ss_pred             CCCCcceEEEeccceeecCCCcc-------------cc----------cchHHHHHHHHHHhCCCCCcccccceEeeEEE
Confidence                35667777764   33311             00          01124566777777777888889999999999


Q ss_pred             hhcc
Q psy6316         255 VFQI  258 (259)
Q Consensus       255 ~~~~  258 (259)
                      +|++
T Consensus       269 vf~v  272 (447)
T PLN03127        269 VFSI  272 (447)
T ss_pred             EEEc
Confidence            9975

>cd01889 SelB_euk SelB subfamily

Probab=99.88  E-value=1.3e-22  Score=159.93  Aligned_cols=172  Identities=24%  Similarity=0.291  Sum_probs=102.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc----cCC---CCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEE
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN----VQD---GEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLI   98 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~----~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   98 (259)
                      +|+++|++|+|||||+++|++..    +..   ...++.+.................. ..        ........+++
T Consensus         2 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~-~~--------~~~~~~~~~~i   72 (192)
T cd01889           2 NVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRE-LI--------NPGEENLQITL   72 (192)
T ss_pred             eEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccc-cc--------cccccCceEEE
Confidence            59999999999999999998631    100   0001111111111111100000000 00        00111224999


Q ss_pred             EeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCccc-ccchhhHHHHHhhh
Q psy6316          99 IDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWN-TMNRRDVRDIIKSQ  177 (259)
Q Consensus        99 iDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~-~~~~~~~~~~~~~~  177 (259)
                      |||||+..+........+.+|++++|+|++++...++.+.+......+.|+++++||+|+..... ....+++.+.+...
T Consensus        73 ~DtpG~~~~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~~~~~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~  152 (192)
T cd01889          73 VDCPGHASLIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLVIGEILCKKLIVVLNKIDLIPEEERERKIEKMKKKLQKT  152 (192)
T ss_pred             EECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHHHHHHcCCCEEEEEECcccCCHHHHHHHHHHHHHHHHHH
Confidence            99999987766666677889999999999987777766665555556889999999999873211 11112222222222


Q ss_pred             h---ccccccccccccccCcceeEEeecCCCC
Q psy6316         178 E---SSVQTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       178 ~---~~~~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      .   ...+++++++||++|.|+++++..+...
T Consensus       153 ~~~~~~~~~~vi~iSa~~g~gi~~L~~~l~~~  184 (192)
T cd01889         153 LEKTRFKNSPIIPVSAKPGGGEAELGKDLNNL  184 (192)
T ss_pred             HHhcCcCCCCEEEEeccCCCCHHHHHHHHHhc
Confidence            1   1235688999999999998866555433

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

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.88  E-value=9.8e-22  Score=156.63  Aligned_cols=115  Identities=27%  Similarity=0.277  Sum_probs=82.8

Q ss_pred             CCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHH
Q psy6316          93 IPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVR  171 (259)
Q Consensus        93 ~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~  171 (259)
                      ..++.||||||+.+|...+...+..+|++++|+|++.+...++...+..+...+.| +|+|+||+|+.... ......+.
T Consensus        76 ~~~~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~~~~~~~~~~~~~~~iIvviNK~D~~~~~-~~~~~~i~  154 (208)
T cd04166          76 KRKFIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQTRRHSYILSLLGIRHVVVAVNKMDLVDYS-EEVFEEIV  154 (208)
T ss_pred             CceEEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhHHHHHHHHHHcCCCcEEEEEEchhcccCC-HHHHHHHH
Confidence            34599999999999888788888999999999999988777777777777766654 77799999986321 11122334


Q ss_pred             HHHhhhhcccc---ccccccccccCcceeEEeecCCCCCCcccc
Q psy6316         172 DIIKSQESSVQ---THKTVESARKGQEICIKIEPIPGEAPKMFG  212 (259)
Q Consensus       172 ~~~~~~~~~~~---~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~  212 (259)
                      ..++.+...++   .+++++||++|.|+.+..    ...+|+++
T Consensus       155 ~~~~~~~~~~~~~~~~ii~iSA~~g~ni~~~~----~~~~w~~g  194 (208)
T cd04166         155 ADYLAFAAKLGIEDITFIPISALDGDNVVSRS----ENMPWYSG  194 (208)
T ss_pred             HHHHHHHHHcCCCCceEEEEeCCCCCCCccCC----CCCCCCCC
Confidence            44444443333   457899999999998743    45666654

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.

>cd04154 Arl2 Arl2 subfamily

Probab=99.88  E-value=2e-22  Score=156.21  Aligned_cols=152  Identities=21%  Similarity=0.207  Sum_probs=100.3

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+++|++|+|||||+++|.+..+.. .    ..+.+.......     ..                ...+.+||||
T Consensus        13 ~~~kv~ivG~~~~GKTsL~~~l~~~~~~~-~----~~t~g~~~~~~~-----~~----------------~~~l~l~D~~   66 (173)
T cd04154          13 REMRILILGLDNAGKTTILKKLLGEDIDT-I----SPTLGFQIKTLE-----YE----------------GYKLNIWDVG   66 (173)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCCC-c----CCccccceEEEE-----EC----------------CEEEEEEECC
Confidence            34669999999999999999998764421 1    111111110000     00                1128999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHH----HhCCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINIL----KSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~----~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      |++.+...+..+++.+|++++|+|+++..+.... .++..+    ...+.|+++|+||+|+....   ..+++...++..
T Consensus        67 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~---~~~~~~~~~~~~  143 (173)
T cd04154          67 GQKTLRPYWRNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGAL---SEEEIREALELD  143 (173)
T ss_pred             CCHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCC---CHHHHHHHhCcc
Confidence            9999888899999999999999999875433322 233332    22578999999999986421   223333333221


Q ss_pred             -hccccccccccccccCcceeEEeecC
Q psy6316         178 -ESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       178 -~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                       .....++++++||++|.|+++++..+
T Consensus       144 ~~~~~~~~~~~~Sa~~g~gi~~l~~~l  170 (173)
T cd04154         144 KISSHHWRIQPCSAVTGEGLLQGIDWL  170 (173)
T ss_pred             ccCCCceEEEeccCCCCcCHHHHHHHH
Confidence             12235688999999999998866554

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.

>cd01863 Rab18 Rab18 subfamily

Probab=99.87  E-value=9.7e-23  Score=155.89  Aligned_cols=151  Identities=21%  Similarity=0.218  Sum_probs=102.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||+++|.+..+.....++.+.++.........     ..+                .+.+|||||++
T Consensus         2 ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~----------------~~~l~D~~g~~   60 (161)
T cd01863           2 KILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDG-----KKV----------------KLAIWDTAGQE   60 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECC-----EEE----------------EEEEEECCCch
Confidence            599999999999999999998776544333333222111111100     001                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      .+...+...++.+|++++|+|+++..+..... ++..+..    .+.|+++|+||+|+....  ...++    ...+...
T Consensus        61 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~~~--~~~~~----~~~~~~~  134 (161)
T cd01863          61 RFRTLTSSYYRGAQGVILVYDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKENRE--VTREE----GLKFARK  134 (161)
T ss_pred             hhhhhhHHHhCCCCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCcccccc--cCHHH----HHHHHHH
Confidence            99888888999999999999998765544433 3333332    468899999999997321  11222    2223333


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+++++++||++|.|+++++..+
T Consensus       135 ~~~~~~~~Sa~~~~gi~~~~~~~  157 (161)
T cd01863         135 HNMLFIETSAKTRDGVQQAFEEL  157 (161)
T ss_pred             cCCEEEEEecCCCCCHHHHHHHH
Confidence            46788999999999998866544

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

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.87  E-value=1.2e-22  Score=178.01  Aligned_cols=146  Identities=21%  Similarity=0.247  Sum_probs=107.4

Q ss_pred             CCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCC-------CHHHHHHHHHHHhCCCC-EEEEEecccccC-cccc
Q psy6316          94 PGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGL-------EPQTIESINILKSKKTP-FVVALNKIDRLY-NWNT  164 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~-------~~~~~~~l~~~~~~~~p-iivv~NK~D~~~-~~~~  164 (259)
                      ..++|+|||||++|...+..++..+|++|+|+|++.+.       ..+..+++..+...++| +|+++||+|+.. .+..
T Consensus        85 ~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G~~e~g~~~~~qT~eh~~~~~~~gi~~iIV~vNKmD~~~~~~~~  164 (447)
T PLN00043         85 YYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTGGFEAGISKDGQTREHALLAFTLGVKQMICCCNKMDATTPKYSK  164 (447)
T ss_pred             EEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccCceecccCCCchHHHHHHHHHHcCCCcEEEEEEcccCCchhhhH
Confidence            34999999999999999999999999999999998762       25778888888889996 688999999762 2223


Q ss_pred             cchhhHHHHHhhhhcccc-----ccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHh
Q psy6316         165 MNRRDVRDIIKSQESSVQ-----THKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRD  239 (259)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~-----~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~  239 (259)
                      ...+++.+.++.+....+     ++++++||++|+|+.+...    ..+|+.+      +        ..+++|++ +..
T Consensus       165 ~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~~~~----~~~Wy~g------~--------tLl~~l~~-i~~  225 (447)
T PLN00043        165 ARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIERST----NLDWYKG------P--------TLLEALDQ-INE  225 (447)
T ss_pred             HHHHHHHHHHHHHHHHcCCCcccceEEEEecccccccccccc----CCcccch------H--------HHHHHHhh-cCC
Confidence            334555566666555443     5688999999999975322    2333311      1        23444444 456


Q ss_pred             hcCchhhHHHHHHHHhhcc
Q psy6316         240 DLQKTDWQLMVDLKKVFQI  258 (259)
Q Consensus       240 ~~~~~~~~~~~~i~~~~~~  258 (259)
                      +.+..+.||+|+|+++|++
T Consensus       226 p~~~~~~plr~~I~~v~~~  244 (447)
T PLN00043        226 PKRPSDKPLRLPLQDVYKI  244 (447)
T ss_pred             CccccCCCcEEEEEEEEEe
Confidence            7778899999999999975

>cd01862 Rab7 Rab7 subfamily

Probab=99.87  E-value=1.9e-22  Score=155.81  Aligned_cols=152  Identities=24%  Similarity=0.253  Sum_probs=101.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||++++.+..+......+++.++.........     ..+                .+.+|||||+.
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~~~D~~g~~   60 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDD-----KLV----------------TLQIWDTAGQE   60 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECC-----EEE----------------EEEEEeCCChH
Confidence            599999999999999999998877555444443332211111100     001                18899999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH-------hCCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK-------SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~-------~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      .+...+..+++.+|++|+|+|+++..+..... +...+.       ..++|+++|+||+|+..+ .....+.    ...+
T Consensus        61 ~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~-~~~~~~~----~~~~  135 (172)
T cd01862          61 RFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEK-RQVSTKK----AQQW  135 (172)
T ss_pred             HHHhHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccc-cccCHHH----HHHH
Confidence            99999999999999999999998765433332 222221       126899999999999732 1111222    2223


Q ss_pred             hcccc-ccccccccccCcceeEEeecC
Q psy6316         178 ESSVQ-THKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       178 ~~~~~-~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ....+ .+++++||++|.|++.++..+
T Consensus       136 ~~~~~~~~~~~~Sa~~~~gv~~l~~~i  162 (172)
T cd01862         136 CQSNGNIPYFETSAKEAINVEQAFETI  162 (172)
T ss_pred             HHHcCCceEEEEECCCCCCHHHHHHHH
Confidence            23333 688899999999998755433

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-

>PLN03110 Rab GTPase; Provisional

Probab=99.87  E-value=2.1e-22  Score=161.40  Aligned_cols=154  Identities=18%  Similarity=0.163  Sum_probs=108.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++|+|||||+++|.+..+...+.++++.++.........     ..+                .+.||||||+
T Consensus        13 ~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~-----~~~----------------~l~l~Dt~G~   71 (216)
T PLN03110         13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEG-----KTV----------------KAQIWDTAGQ   71 (216)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECC-----EEE----------------EEEEEECCCc
Confidence            4599999999999999999998877555444444333222221111     011                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      +.+..++..+++.+|++|+|+|+++..+..... ++..+..   .+.|+++|+||+|+.... ....    +..+.+...
T Consensus        72 ~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~-~~~~----~~~~~l~~~  146 (216)
T PLN03110         72 ERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLR-SVAE----EDGQALAEK  146 (216)
T ss_pred             HHHHHHHHHHhCCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhccccc-CCCH----HHHHHHHHH
Confidence            999999999999999999999998866655543 5555544   468999999999986321 1111    122333334


Q ss_pred             ccccccccccccCcceeEEeecCC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      .+++++++||++|.|+++++..+.
T Consensus       147 ~~~~~~e~SA~~g~~v~~lf~~l~  170 (216)
T PLN03110        147 EGLSFLETSALEATNVEKAFQTIL  170 (216)
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHHH
Confidence            467899999999999998766554

>cd04126 Rab20 Rab20 subfamily

Probab=99.87  E-value=2.7e-22  Score=160.43  Aligned_cols=153  Identities=20%  Similarity=0.178  Sum_probs=103.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+++++...+.. ..++++..+.....         ..+                .+.||||||++
T Consensus         2 KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~~---------~~~----------------~l~iwDt~G~e   55 (220)
T cd04126           2 KVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQW---------GPY----------------NISIWDTAGRE   55 (220)
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEEe---------eEE----------------EEEEEeCCCcc
Confidence            59999999999999999999887743 22333322111100         001                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccc--------------cch
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNT--------------MNR  167 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~--------------~~~  167 (259)
                      .|..++..+++.+|++|+|+|+++..+..... ++..+..   .+.|+|+|+||+|+...+..              ..+
T Consensus        56 ~~~~l~~~~~~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r  135 (220)
T cd04126          56 QFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQR  135 (220)
T ss_pred             cchhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccc
Confidence            99999999999999999999999876666553 3443433   35799999999998641100              011


Q ss_pred             hhHHHHHhhhhcccc--------------ccccccccccCcceeEEeecCC
Q psy6316         168 RDVRDIIKSQESSVQ--------------THKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       168 ~~~~~~~~~~~~~~~--------------~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ....+..+.+....+              .+++++||++|.|+++++..+.
T Consensus       136 ~v~~~e~~~~a~~~~~~~~~~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~  186 (220)
T cd04126         136 QVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTGYNVDELFEYLF  186 (220)
T ss_pred             cCCHHHHHHHHHHhCccccccccccccccceEEEeeCCCCCCHHHHHHHHH
Confidence            111222223333222              5678999999999998765554

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.87  E-value=3.6e-22  Score=152.54  Aligned_cols=149  Identities=19%  Similarity=0.169  Sum_probs=98.6

Q ss_pred             EEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHES  106 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~  106 (259)
                      |+++|.+|+|||||++++.+..+... .++.+...    .....    ..                ...+.+|||||+..
T Consensus         2 i~i~G~~~~GKTsl~~~~~~~~~~~~-~~t~~~~~----~~~~~----~~----------------~~~l~i~D~~G~~~   56 (160)
T cd04156           2 VLLLGLDSAGKSTLLYKLKHAELVTT-IPTVGFNV----EMLQL----EK----------------HLSLTVWDVGGQEK   56 (160)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCCcccc-cCccCcce----EEEEe----CC----------------ceEEEEEECCCCHh
Confidence            89999999999999999998776321 11111110    00000    00                01299999999999


Q ss_pred             hHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHH-Hh---CCCCEEEEEecccccCcccccchhhHHHHH--hhhhc
Q psy6316         107 FSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINIL-KS---KKTPFVVALNKIDRLYNWNTMNRRDVRDII--KSQES  179 (259)
Q Consensus       107 ~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~-~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~--~~~~~  179 (259)
                      +...+..++..+|++++|+|+++..+... ..++..+ +.   .+.|+++|+||+|+....   ..+++...+  ..+..
T Consensus        57 ~~~~~~~~~~~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~i~~~~~~~~~~~  133 (160)
T cd04156          57 MRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGAL---TAEEITRRFKLKKYCS  133 (160)
T ss_pred             HHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccCc---CHHHHHHHcCCcccCC
Confidence            99889999999999999999987543332 2233332 22   478999999999986321   123333322  22222


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+++++++||++|+|+++++..+
T Consensus       134 ~~~~~~~~~Sa~~~~gv~~~~~~i  157 (160)
T cd04156         134 DRDWYVQPCSAVTGEGLAEAFRKL  157 (160)
T ss_pred             CCcEEEEecccccCCChHHHHHHH
Confidence            234578899999999999876655

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

>cd04134 Rho3 Rho3 subfamily

Probab=99.87  E-value=1.3e-22  Score=159.53  Aligned_cols=158  Identities=17%  Similarity=0.154  Sum_probs=106.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++.+..+...+.+++...+.. ....+     ....                .+.||||||++
T Consensus         2 kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~-~i~~~-----~~~~----------------~l~i~Dt~G~~   59 (189)
T cd04134           2 KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYVH-DIFVD-----GLHI----------------ELSLWDTAGQE   59 (189)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeeeEE-EEEEC-----CEEE----------------EEEEEECCCCh
Confidence            59999999999999999999888765544444322210 00000     0001                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHh--CCCCEEEEEecccccCcccccch-------hhHHHHH
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKS--KKTPFVVALNKIDRLYNWNTMNR-------RDVRDII  174 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~--~~~piivv~NK~D~~~~~~~~~~-------~~~~~~~  174 (259)
                      .+..++..+++.+|++++|+|.++..+....  .++..+..  .+.|+++|+||+|+.........       .......
T Consensus        60 ~~~~l~~~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~~~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~  139 (189)
T cd04134          60 EFDRLRSLSYADTDVIMLCFSVDSPDSLENVESKWLGEIREHCPGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEG  139 (189)
T ss_pred             hccccccccccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHH
Confidence            9988888889999999999999887666554  35555554  36899999999998643210000       0001111


Q ss_pred             hhhhcccc-ccccccccccCcceeEEeecCCC
Q psy6316         175 KSQESSVQ-THKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       175 ~~~~~~~~-~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      ..+....+ +.++++||++|.|+++++..+..
T Consensus       140 ~~~~~~~~~~~~~e~SAk~~~~v~e~f~~l~~  171 (189)
T cd04134         140 LAVAKRINALRYLECSAKLNRGVNEAFTEAAR  171 (189)
T ss_pred             HHHHHHcCCCEEEEccCCcCCCHHHHHHHHHH
Confidence            22222333 57889999999999997766543

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.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.87  E-value=4e-22  Score=156.22  Aligned_cols=173  Identities=29%  Similarity=0.356  Sum_probs=109.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+|+|++............... ......+..+..  .....    .....+....+.||||||+.
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~--~~~~~----~~~~~~~~~~~~liDtpG~~   73 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETF-LDVLKEERERGI--TIKSG----VATFEWPDRRVNFIDTPGHE   73 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceeccc-ccCCHHHHHcCC--Ceecc----eEEEeeCCEEEEEEeCCCcH
Confidence            489999999999999999988765433221111000 000000000000  00000    00001112249999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCccc-ccchhhHHHHHhhhh------
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWN-TMNRRDVRDIIKSQE------  178 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~-~~~~~~~~~~~~~~~------  178 (259)
                      ++...+..+++.+|++++|+|++++......+++..+...+.|+++++||+|+..... ......+.+.++...      
T Consensus        74 ~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (189)
T cd00881          74 DFSSEVIRGLSVSDGAILVVDANEGVQPQTREHLRIAREGGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKE  153 (189)
T ss_pred             HHHHHHHHHHHhcCEEEEEEECCCCCcHHHHHHHHHHHHCCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhh
Confidence            9988888999999999999999988877778888888888999999999999974211 111122222222221      


Q ss_pred             ----ccccccccccccccCcceeEEeecCCC
Q psy6316         179 ----SSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       179 ----~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                          .....+++++||++|.|+++++..+..
T Consensus       154 ~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~  184 (189)
T cd00881         154 EGTRNGLLVPIVPGSALTGIGVEELLEAIVE  184 (189)
T ss_pred             hhcccCCcceEEEEecccCcCHHHHHHHHHh
Confidence                123567889999999999886655443

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.

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.87  E-value=1.3e-22  Score=177.89  Aligned_cols=146  Identities=25%  Similarity=0.310  Sum_probs=106.6

Q ss_pred             CCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCC-------CHHHHHHHHHHHhCCCC-EEEEEecccccC-cccc
Q psy6316          94 PGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGL-------EPQTIESINILKSKKTP-FVVALNKIDRLY-NWNT  164 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~-------~~~~~~~l~~~~~~~~p-iivv~NK~D~~~-~~~~  164 (259)
                      ..++|+|||||.+|...+...+..+|++++|+|++.+.       ..++.+++..+...++| +|+++||+|... .++.
T Consensus        85 ~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~gi~~iiv~vNKmD~~~~~~~~  164 (446)
T PTZ00141         85 YYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTLGVKQMIVCINKMDDKTVNYSQ  164 (446)
T ss_pred             eEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHcCCCeEEEEEEccccccchhhH
Confidence            34999999999999999999999999999999999875       36889999999999987 578999999532 2333


Q ss_pred             cchhhHHHHHhhhhccc-----cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHh
Q psy6316         165 MNRRDVRDIIKSQESSV-----QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRD  239 (259)
Q Consensus       165 ~~~~~~~~~~~~~~~~~-----~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~  239 (259)
                      ...+++.+.+.......     .++++++||.+|.|+.+.-    ...+|+.+      .        ..++++++ +..
T Consensus       165 ~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~~~----~~~~Wy~G------~--------tL~~~l~~-~~~  225 (446)
T PTZ00141        165 ERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIEKS----DNMPWYKG------P--------TLLEALDT-LEP  225 (446)
T ss_pred             HHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCcccCC----CCCcccch------H--------HHHHHHhC-CCC
Confidence            34555555565554433     3568899999999997532    22344321      1        12333333 344


Q ss_pred             hcCchhhHHHHHHHHhhcc
Q psy6316         240 DLQKTDWQLMVDLKKVFQI  258 (259)
Q Consensus       240 ~~~~~~~~~~~~i~~~~~~  258 (259)
                      +.+..+.||+|+|+++|++
T Consensus       226 ~~~~~~~p~r~~I~~v~~v  244 (446)
T PTZ00141        226 PKRPVDKPLRLPLQDVYKI  244 (446)
T ss_pred             CCcCCCCCeEEEEEEEEec
Confidence            5667788999999999975

>KOG0460|consensus

Probab=99.87  E-value=1.5e-22  Score=164.50  Aligned_cols=205  Identities=22%  Similarity=0.227  Sum_probs=136.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeecccccc-CccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV-PADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      ..||+-+|+.++|||||..++..-....+.  +....+..... +-++.+...-.....      .++-..++|-.+|||
T Consensus        54 HvNVGTIGHVDHGKTTLTaAITkila~~g~--A~~~kydeID~APEEkaRGITIn~aHv------eYeTa~RhYaH~DCP  125 (449)
T KOG0460|consen   54 HVNVGTIGHVDHGKTTLTAAITKILAEKGG--AKFKKYDEIDKAPEEKARGITINAAHV------EYETAKRHYAHTDCP  125 (449)
T ss_pred             cccccccccccCCchhHHHHHHHHHHhccc--cccccHhhhhcChhhhhccceEeeeee------eeeccccccccCCCC
Confidence            467999999999999999998643221111  01111111111 111111111000000      123334569999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      ||.+|.+.+.....+.|++|+|+.++++..+|.++++-..+..+++ +++.+||.|+..+..  ..+-..-.++++...+
T Consensus       126 GHADYIKNMItGaaqMDGaILVVaatDG~MPQTrEHlLLArQVGV~~ivvfiNKvD~V~d~e--~leLVEmE~RElLse~  203 (449)
T KOG0460|consen  126 GHADYIKNMITGAAQMDGAILVVAATDGPMPQTREHLLLARQVGVKHIVVFINKVDLVDDPE--MLELVEMEIRELLSEF  203 (449)
T ss_pred             chHHHHHHhhcCccccCceEEEEEcCCCCCcchHHHHHHHHHcCCceEEEEEecccccCCHH--HHHHHHHHHHHHHHHc
Confidence            9999999999999999999999999999999999999999999887 567799999984321  1111222344444444


Q ss_pred             c-----ccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHHHHHhh
Q psy6316         182 Q-----THKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVF  256 (259)
Q Consensus       182 ~-----~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~~  256 (259)
                      +     .++|.-||+                 +..+.   ..+++..+.+.+.+|++|++++.|.++++.||+|+|+++|
T Consensus       204 gf~Gd~~PvI~GSAL-----------------~ALeg---~~peig~~aI~kLldavDsyip~P~R~~~~pFl~pie~vf  263 (449)
T KOG0460|consen  204 GFDGDNTPVIRGSAL-----------------CALEG---RQPEIGLEAIEKLLDAVDSYIPTPERDLDKPFLLPIEDVF  263 (449)
T ss_pred             CCCCCCCCeeecchh-----------------hhhcC---CCccccHHHHHHHHHHHhccCCCcccccCCCceeehhhee
Confidence            3     344433332                 11111   1333455677899999999999999999999999999999


Q ss_pred             cc
Q psy6316         257 QI  258 (259)
Q Consensus       257 ~~  258 (259)
                      +|
T Consensus       264 sI  265 (449)
T KOG0460|consen  264 SI  265 (449)
T ss_pred             ee
Confidence            98

>cd04131 Rnd Rnd subfamily

Probab=99.87  E-value=2.4e-22  Score=156.22  Aligned_cols=155  Identities=15%  Similarity=0.124  Sum_probs=108.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++.+..+...+.++++..+.. .....     ...+                .+.+|||||++
T Consensus         3 Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~-~~~~~-----~~~~----------------~l~iwDt~G~~   60 (178)
T cd04131           3 KIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENYTA-SFEID-----EQRI----------------ELSLWDTSGSP   60 (178)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEEEE-EEEEC-----CEEE----------------EEEEEECCCch
Confidence            59999999999999999999888766655555433211 11110     0111                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHh--CCCCEEEEEecccccCccc-------ccchhhHHHHH
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKS--KKTPFVVALNKIDRLYNWN-------TMNRRDVRDII  174 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~--~~~piivv~NK~D~~~~~~-------~~~~~~~~~~~  174 (259)
                      .|..+...+++.+|++|+|+|.++..+....  .|+..++.  .+.|+++|+||+|+.....       ........+..
T Consensus        61 ~~~~~~~~~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~  140 (178)
T cd04131          61 YYDNVRPLCYPDSDAVLICFDISRPETLDSVLKKWRGEIQEFCPNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQG  140 (178)
T ss_pred             hhhhcchhhcCCCCEEEEEEECCChhhHHHHHHHHHHHHHHHCCCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHH
Confidence            9998888899999999999999988777663  45555554  3689999999999853100       00011122344


Q ss_pred             hhhhccccc-cccccccccCcc-eeEEeec
Q psy6316         175 KSQESSVQT-HKTVESARKGQE-ICIKIEP  202 (259)
Q Consensus       175 ~~~~~~~~~-~~i~~Sa~~g~g-v~~~l~~  202 (259)
                      +++....+. .++++||++|+| +++++..
T Consensus       141 ~~~a~~~~~~~~~E~SA~~~~~~v~~~F~~  170 (178)
T cd04131         141 CAIAKQLGAEIYLECSAFTSEKSVRDIFHV  170 (178)
T ss_pred             HHHHHHhCCCEEEECccCcCCcCHHHHHHH
Confidence            555566665 678999999995 8775543

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.

>PRK00049 elongation factor Tu; Reviewed

Probab=99.87  E-value=2.1e-22  Score=174.84  Aligned_cols=206  Identities=25%  Similarity=0.256  Sum_probs=128.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++++|||||+++|++.....+......... ....+.+..+........      ........+++|+||||
T Consensus        12 ~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~-~d~~~~E~~rg~Ti~~~~------~~~~~~~~~i~~iDtPG   84 (396)
T PRK00049         12 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQ-IDKAPEEKARGITINTAH------VEYETEKRHYAHVDCPG   84 (396)
T ss_pred             EEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhh-ccCChHHHhcCeEEeeeE------EEEcCCCeEEEEEECCC
Confidence            45699999999999999999986421111100000000 000000000000000000      00011222499999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEE-EEEecccccCcccccchhhHHHHHhhhhccc-
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFV-VALNKIDRLYNWNTMNRRDVRDIIKSQESSV-  181 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pii-vv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~-  181 (259)
                      |.+|.......+..+|++++|+|+..+...++.+++..+...++|.+ +++||+|+...+.  ..+.+...+..+.... 
T Consensus        85 ~~~f~~~~~~~~~~aD~~llVVDa~~g~~~qt~~~~~~~~~~g~p~iiVvvNK~D~~~~~~--~~~~~~~~i~~~l~~~~  162 (396)
T PRK00049         85 HADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNKCDMVDDEE--LLELVEMEVRELLSKYD  162 (396)
T ss_pred             HHHHHHHHHhhhccCCEEEEEEECCCCCchHHHHHHHHHHHcCCCEEEEEEeecCCcchHH--HHHHHHHHHHHHHHhcC
Confidence            99998888888999999999999999989999999999999999976 5899999973211  1122233333333322 


Q ss_pred             ----cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHHHHHhhc
Q psy6316         182 ----QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQ  257 (259)
Q Consensus       182 ----~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~~~  257 (259)
                          ..+++++||++|.+..       ...+|+             +-+...++++++.++.+.+..+.||+|+|+++|+
T Consensus       163 ~~~~~~~iv~iSa~~g~~~~-------~~~~w~-------------~~~~~ll~~l~~~~~~p~~~~~~p~r~~I~~~f~  222 (396)
T PRK00049        163 FPGDDTPIIRGSALKALEGD-------DDEEWE-------------KKILELMDAVDSYIPTPERAIDKPFLMPIEDVFS  222 (396)
T ss_pred             CCccCCcEEEeecccccCCC-------Cccccc-------------ccHHHHHHHHHhcCCCCCCCCCCCeEEEEEEEEe
Confidence                3577899999986521       111111             1123566677776777778889999999999997


Q ss_pred             c
Q psy6316         258 I  258 (259)
Q Consensus       258 ~  258 (259)
                      +
T Consensus       223 v  223 (396)
T PRK00049        223 I  223 (396)
T ss_pred             e
Confidence            5

>KOG1145|consensus

Probab=99.87  E-value=2.2e-22  Score=172.48  Aligned_cols=154  Identities=41%  Similarity=0.593  Sum_probs=128.5

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      .-|+|.|-+||+.++|||||+.+|.+..+...+.++++..+|.-+...... .                     .++|.|
T Consensus       150 ~~RpPVVTiMGHVDHGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p~G-~---------------------~iTFLD  207 (683)
T KOG1145|consen  150 EPRPPVVTIMGHVDHGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLPSG-K---------------------SITFLD  207 (683)
T ss_pred             CCCCCeEEEeecccCChhhHHHHHhhCceehhhcCCccceeceEEEecCCC-C---------------------EEEEec
Confidence            358999999999999999999999999999999999999998777765421 1                     299999


Q ss_pred             CCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhh---
Q psy6316         101 TPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ---  177 (259)
Q Consensus       101 tpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~---  177 (259)
                      ||||..|..|+.+....+|.+++|+.+.++..+|+.+.++..+..++|+|+++||+|.+...    .+...+.+-..   
T Consensus       208 TPGHaAF~aMRaRGA~vtDIvVLVVAadDGVmpQT~EaIkhAk~A~VpiVvAinKiDkp~a~----pekv~~eL~~~gi~  283 (683)
T KOG1145|consen  208 TPGHAAFSAMRARGANVTDIVVLVVAADDGVMPQTLEAIKHAKSANVPIVVAINKIDKPGAN----PEKVKRELLSQGIV  283 (683)
T ss_pred             CCcHHHHHHHHhccCccccEEEEEEEccCCccHhHHHHHHHHHhcCCCEEEEEeccCCCCCC----HHHHHHHHHHcCcc
Confidence            99999999999999999999999999999999999999999999999999999999987542    22222222211   


Q ss_pred             hcc--ccccccccccccCcceeEEe
Q psy6316         178 ESS--VQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       178 ~~~--~~~~~i~~Sa~~g~gv~~~l  200 (259)
                      ...  ...+++++||++|+|++.+.
T Consensus       284 ~E~~GGdVQvipiSAl~g~nl~~L~  308 (683)
T KOG1145|consen  284 VEDLGGDVQVIPISALTGENLDLLE  308 (683)
T ss_pred             HHHcCCceeEEEeecccCCChHHHH
Confidence            111  14688999999999998643

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.87  E-value=2.8e-22  Score=153.75  Aligned_cols=153  Identities=20%  Similarity=0.199  Sum_probs=102.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc--ccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT--NVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      +|+++|.+|+|||||+++|...  .+...+.++.+.++......... .   ..+                .+.+|||||
T Consensus         2 ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~-~---~~~----------------~l~i~Dt~G   61 (164)
T cd04101           2 RCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDT-D---NTV----------------ELFIFDSAG   61 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCC-C---CEE----------------EEEEEECCC
Confidence            5999999999999999999854  44444444444333222221110 0   001                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHhC--CCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKSK--KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~~--~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ++.+..++..++..+|++++|+|+++..+.... .++..+...  +.|+++|+||+|+..... ...    ...+.+...
T Consensus        62 ~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~-~~~----~~~~~~~~~  136 (164)
T cd04101          62 QELYSDMVSNYWESPSVFILVYDVSNKASFENCSRWVNKVRTASKHMPGVLVGNKMDLADKAE-VTD----AQAQAFAQA  136 (164)
T ss_pred             HHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccccC-CCH----HHHHHHHHH
Confidence            999999899999999999999999875444433 344555443  589999999999863211 111    111222333


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+++++++||++|.|+.+++..+
T Consensus       137 ~~~~~~~~Sa~~~~gi~~l~~~l  159 (164)
T cd04101         137 NQLKFFKTSALRGVGYEEPFESL  159 (164)
T ss_pred             cCCeEEEEeCCCCCChHHHHHHH
Confidence            45678899999999998765443

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.

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.87  E-value=3.3e-22  Score=155.03  Aligned_cols=156  Identities=17%  Similarity=0.150  Sum_probs=105.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+.+++...+...+.+++...+... .....     ..+                .+.||||||++
T Consensus         3 ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~~~~~~-~~~~~-----~~~----------------~l~i~Dt~G~~   60 (174)
T cd01871           3 KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSAN-VMVDG-----KPV----------------NLGLWDTAGQE   60 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCcCCCcceeeeEEE-EEECC-----EEE----------------EEEEEECCCch
Confidence            599999999999999999998877655544443222111 11100     001                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH--HHHHHHh--CCCCEEEEEecccccCccccc-------chhhHHHHH
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE--SINILKS--KKTPFVVALNKIDRLYNWNTM-------NRRDVRDII  174 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~--~l~~~~~--~~~piivv~NK~D~~~~~~~~-------~~~~~~~~~  174 (259)
                      .+...+..+++.+|++|+|+|+++..+.....  ++..+..  .+.|+++|+||+|+.......       .........
T Consensus        61 ~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~  140 (174)
T cd01871          61 DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQG  140 (174)
T ss_pred             hhhhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHH
Confidence            99999989999999999999999876666542  4444443  368999999999986321100       000112222


Q ss_pred             hhhhcccc-ccccccccccCcceeEEeecC
Q psy6316         175 KSQESSVQ-THKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       175 ~~~~~~~~-~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +.+....+ ..++++||++|.|+++++..+
T Consensus       141 ~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l  170 (174)
T cd01871         141 LAMAKEIGAVKYLECSALTQKGLKTVFDEA  170 (174)
T ss_pred             HHHHHHcCCcEEEEecccccCCHHHHHHHH
Confidence            33343444 377899999999998876544

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

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.87  E-value=4.1e-22  Score=152.46  Aligned_cols=166  Identities=19%  Similarity=0.231  Sum_probs=114.6

Q ss_pred             hhhhhhhhhhhhcCCCCcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCC
Q psy6316           2 QAVFNKRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP   81 (259)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (259)
                      .+.|.+++...++.|+..    .+.|+++|++|+|||||||+|++.+.......+.+.+...+...+             
T Consensus         6 ~~~f~~sa~~~~~~P~~~----~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~-------------   68 (200)
T COG0218           6 KAKFITSAPDIKQYPEDD----LPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEV-------------   68 (200)
T ss_pred             ccEEEEecCCHhhCCCCC----CcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEe-------------
Confidence            567899999999998875    566999999999999999999987632111111111111111111             


Q ss_pred             CCCCCCCCCCCCCCeEEEeCCC----------CcchHHHHHhhcc---CCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC
Q psy6316          82 GGEVGGPGPLEIPGLLIIDTPG----------HESFSNLRNRGSS---LCDIAILVVDIMHGLEPQTIESINILKSKKTP  148 (259)
Q Consensus        82 ~~~~~~~~~~~~~~~~liDtpG----------~~~~~~~~~~~~~---~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p  148 (259)
                      +.           .+.|+|.||          .+.+..+...|++   ...++++++|+..+....+.+.+..+...++|
T Consensus        69 ~~-----------~~~lVDlPGYGyAkv~k~~~e~w~~~i~~YL~~R~~L~~vvlliD~r~~~~~~D~em~~~l~~~~i~  137 (200)
T COG0218          69 DD-----------ELRLVDLPGYGYAKVPKEVKEKWKKLIEEYLEKRANLKGVVLLIDARHPPKDLDREMIEFLLELGIP  137 (200)
T ss_pred             cC-----------cEEEEeCCCcccccCCHHHHHHHHHHHHHHHhhchhheEEEEEEECCCCCcHHHHHHHHHHHHcCCC
Confidence            01           189999999          2334455555653   47889999999999999999999999999999


Q ss_pred             EEEEEecccccCcccccchhhHHHHHh-hhhcccccc--ccccccccCcceeE
Q psy6316         149 FVVALNKIDRLYNWNTMNRRDVRDIIK-SQESSVQTH--KTVESARKGQEICI  198 (259)
Q Consensus       149 iivv~NK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~~--~i~~Sa~~g~gv~~  198 (259)
                      +++++||+|++...   ........+. .+.....+.  ++.+|+.++.|+++
T Consensus       138 ~~vv~tK~DKi~~~---~~~k~l~~v~~~l~~~~~~~~~~~~~ss~~k~Gi~~  187 (200)
T COG0218         138 VIVVLTKADKLKKS---ERNKQLNKVAEELKKPPPDDQWVVLFSSLKKKGIDE  187 (200)
T ss_pred             eEEEEEccccCChh---HHHHHHHHHHHHhcCCCCccceEEEEecccccCHHH
Confidence            99999999999531   1222223333 232223333  66789999999866

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.87  E-value=2.9e-22  Score=174.45  Aligned_cols=144  Identities=22%  Similarity=0.264  Sum_probs=101.2

Q ss_pred             CCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHHH
Q psy6316          94 PGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      .++.|||||||++|...+...+..+|++++|+|+..+...++.+++..+...++| +++++||+|+... +....+++..
T Consensus        80 ~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~~~~~~~~~~~iivviNK~D~~~~-~~~~~~~i~~  158 (406)
T TIGR02034        80 RKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHSYIASLLGIRHVVLAVNKMDLVDY-DEEVFENIKK  158 (406)
T ss_pred             eEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHHHHHHHHcCCCcEEEEEEecccccc-hHHHHHHHHH
Confidence            3599999999999998888899999999999999999988888888888887765 7889999998742 1112223334


Q ss_pred             HHhhhhccc---cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHH
Q psy6316         173 IIKSQESSV---QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLM  249 (259)
Q Consensus       173 ~~~~~~~~~---~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~  249 (259)
                      .+..+....   ..+++++||++|+|+++.-    ...+|+.+      .        ..+++|+. +..+.+..+.+|+
T Consensus       159 ~~~~~~~~~~~~~~~iipiSA~~g~ni~~~~----~~~~wy~g------~--------tL~~~L~~-~~~~~~~~~~p~r  219 (406)
T TIGR02034       159 DYLAFAEQLGFRDVTFIPLSALKGDNVVSRS----ESMPWYSG------P--------TLLEILET-VEVERDAQDLPLR  219 (406)
T ss_pred             HHHHHHHHcCCCCccEEEeecccCCCCcccc----cCCCccch------h--------HHHHHHHh-cCCCCCcCCCCcc
Confidence            443333222   3468899999999998632    22333211      1        12233333 3455567788999


Q ss_pred             HHHHHhhc
Q psy6316         250 VDLKKVFQ  257 (259)
Q Consensus       250 ~~i~~~~~  257 (259)
                      |+|+++|+
T Consensus       220 ~~i~~v~~  227 (406)
T TIGR02034       220 FPVQYVNR  227 (406)
T ss_pred             cceEEEee
Confidence            99998864

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).

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.87  E-value=1.1e-21  Score=154.12  Aligned_cols=165  Identities=26%  Similarity=0.208  Sum_probs=106.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++++|||||+++|++.....+..+..... .....+.+..+.......      .........+++|+||||+
T Consensus         3 ~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~-~~d~~~~E~~rg~Ti~~~------~~~~~~~~~~i~~iDtPG~   75 (195)
T cd01884           3 VNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYD-EIDKAPEEKARGITINTA------HVEYETANRHYAHVDCPGH   75 (195)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhcccccccccc-cccCChhhhhcCccEEee------eeEecCCCeEEEEEECcCH
Confidence            469999999999999999998652111100000000 000000000110000000      0001122335999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHHHHHhhhhccc--
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV--  181 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~--  181 (259)
                      .+|.......+..+|++++|+|+..+...++.+++..+...++| +|+++||+|+....  ...+.+.+.+.......  
T Consensus        76 ~~~~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~~~iIvviNK~D~~~~~--~~~~~~~~~i~~~l~~~g~  153 (195)
T cd01884          76 ADYIKNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQVGVPYIVVFLNKADMVDDE--ELLELVEMEVRELLSKYGF  153 (195)
T ss_pred             HHHHHHHHHHhhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCcEEEEEeCCCCCCcH--HHHHHHHHHHHHHHHHhcc
Confidence            99998889999999999999999999899999999999999997 77899999986321  11222333444443332  


Q ss_pred             ---cccccccccccCcceeE
Q psy6316         182 ---QTHKTVESARKGQEICI  198 (259)
Q Consensus       182 ---~~~~i~~Sa~~g~gv~~  198 (259)
                         ..+++++||++|.++.+
T Consensus       154 ~~~~v~iipiSa~~g~n~~~  173 (195)
T cd01884         154 DGDNTPIVRGSALKALEGDD  173 (195)
T ss_pred             cccCCeEEEeeCccccCCCC
Confidence               36788999999998643

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.

>cd04114 Rab30 Rab30 subfamily

Probab=99.87  E-value=3.3e-22  Score=154.18  Aligned_cols=153  Identities=17%  Similarity=0.203  Sum_probs=101.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++|+|||||++++.+..+......+++.+..........     ..+                .+.+|||||+
T Consensus         8 ~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~~~D~~g~   66 (169)
T cd04114           8 FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKG-----EKI----------------KLQIWDTAGQ   66 (169)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECC-----EEE----------------EEEEEECCCc
Confidence            5699999999999999999997776555444443222111111110     001                1889999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHH---hCCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILK---SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~---~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ..+...+..++..+|++++|+|+++..+.... .++..++   ..+.|+++++||+|+.... ... ....   +.+...
T Consensus        67 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~-~i~-~~~~---~~~~~~  141 (169)
T cd04114          67 ERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERR-EVS-QQRA---EEFSDA  141 (169)
T ss_pred             HHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccc-ccC-HHHH---HHHHHH
Confidence            99999889999999999999999875443332 2333333   3468999999999986321 111 1112   222233


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+.++++||++|.|+++++..+
T Consensus       142 ~~~~~~~~Sa~~~~gv~~l~~~i  164 (169)
T cd04114         142 QDMYYLETSAKESDNVEKLFLDL  164 (169)
T ss_pred             cCCeEEEeeCCCCCCHHHHHHHH
Confidence            34678899999999998865543

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.

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

Probab=99.87  E-value=8.2e-22  Score=151.78  Aligned_cols=149  Identities=18%  Similarity=0.167  Sum_probs=91.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      |+|+++|++|+|||||+|+|++..+....       ...++........                .+....++||||||+
T Consensus         1 ~~i~~~G~~~~GKssli~~l~~~~~~~~~-------~~~~t~~~~~~~~----------------~~~~~~~~i~Dt~G~   57 (168)
T cd01897           1 PTLVIAGYPNVGKSSLVNKLTRAKPEVAP-------YPFTTKSLFVGHF----------------DYKYLRWQVIDTPGL   57 (168)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCCCccCC-------CCCcccceeEEEE----------------ccCceEEEEEECCCc
Confidence            47999999999999999999987653211       1111111110000                011113999999997


Q ss_pred             cchH---------HHHHhhccCCCeEEEEEeCCCCCC---HHHHHHHHHHHhC--CCCEEEEEecccccCcccccchhhH
Q psy6316         105 ESFS---------NLRNRGSSLCDIAILVVDIMHGLE---PQTIESINILKSK--KTPFVVALNKIDRLYNWNTMNRRDV  170 (259)
Q Consensus       105 ~~~~---------~~~~~~~~~ad~~i~v~d~~~~~~---~~~~~~l~~~~~~--~~piivv~NK~D~~~~~~~~~~~~~  170 (259)
                      .+..         .........+|++++|+|+++..+   .....++..+...  +.|+++|+||+|+...      ...
T Consensus        58 ~~~~~~~~~~~~~~~~~~~~~~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~~~~pvilv~NK~Dl~~~------~~~  131 (168)
T cd01897          58 LDRPLEERNTIEMQAITALAHLRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLFKNKPVIVVLNKIDLLTF------EDL  131 (168)
T ss_pred             CCccccCCchHHHHHHHHHHhccCcEEEEEeCCcccccchHHHHHHHHHHHhhcCcCCeEEEEEccccCch------hhH
Confidence            3210         111112234799999999987533   2234456666554  7999999999999742      111


Q ss_pred             HHHHhhhhccccccccccccccCcceeEEeecC
Q psy6316         171 RDIIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       171 ~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .. .+.......++++++||++|.|+++++..+
T Consensus       132 ~~-~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  163 (168)
T cd01897         132 SE-IEEEEELEGEEVLKISTLTEEGVDEVKNKA  163 (168)
T ss_pred             HH-HHHhhhhccCceEEEEecccCCHHHHHHHH
Confidence            11 233334346788899999999998866543

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.

>cd00154 Rab Rab family

Probab=99.87  E-value=4.7e-22  Score=150.99  Aligned_cols=152  Identities=21%  Similarity=0.237  Sum_probs=105.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||++++.+..+...+.++.+............     ...                .+.+||+||+.
T Consensus         2 ~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~l~D~~g~~   60 (159)
T cd00154           2 KIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDG-----KTV----------------KLQIWDTAGQE   60 (159)
T ss_pred             eEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECC-----EEE----------------EEEEEecCChH
Confidence            599999999999999999998887665444444333222221110     001                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHhC---CCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKSK---KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~~---~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+...+..+++.+|++++|+|+++..+... ..++..+...   +.|+++++||+|+... .....++    +..+....
T Consensus        61 ~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~-~~~~~~~----~~~~~~~~  135 (159)
T cd00154          61 RFRSITPSYYRGAHGAILVYDITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLEDQ-RQVSTEE----AQQFAKEN  135 (159)
T ss_pred             HHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEccccccc-ccccHHH----HHHHHHHc
Confidence            999999999999999999999987433333 2345555543   4899999999999622 1112222    33333345


Q ss_pred             cccccccccccCcceeEEeecC
Q psy6316         182 QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +.+++.+||++|.|+.+++..+
T Consensus       136 ~~~~~~~sa~~~~~i~~~~~~i  157 (159)
T cd00154         136 GLLFFETSAKTGENVEELFQSL  157 (159)
T ss_pred             CCeEEEEecCCCCCHHHHHHHH
Confidence            6789999999999998765543

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

>cd04125 RabA_like RabA-like subfamily

Probab=99.87  E-value=4.5e-22  Score=156.25  Aligned_cols=153  Identities=22%  Similarity=0.228  Sum_probs=104.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++.+..+...+..+.+.++.........     ..+                .+.+|||||++
T Consensus         2 ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~i~Dt~g~~   60 (188)
T cd04125           2 KVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIEN-----KII----------------KLQIWDTNGQE   60 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECC-----EEE----------------EEEEEECCCcH
Confidence            599999999999999999998887654444444333221111110     011                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+...+..+++.+|++++|+|+++..+..... ++..+..   ...|+++++||+|+.... .....    ....+....
T Consensus        61 ~~~~~~~~~~~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~-~v~~~----~~~~~~~~~  135 (188)
T cd04125          61 RFRSLNNSYYRGAHGYLLVYDVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNK-VVDSN----IAKSFCDSL  135 (188)
T ss_pred             HHHhhHHHHccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCcccc-cCCHH----HHHHHHHHc
Confidence            99999999999999999999998765544433 4444443   357899999999986321 11111    122233334


Q ss_pred             cccccccccccCcceeEEeecCC
Q psy6316         182 QTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      +++++++||++|.|+++++..+.
T Consensus       136 ~~~~~evSa~~~~~i~~~f~~l~  158 (188)
T cd04125         136 NIPFFETSAKQSINVEEAFILLV  158 (188)
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHH
Confidence            56889999999999988665543

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.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.87  E-value=4.4e-22  Score=173.44  Aligned_cols=201  Identities=21%  Similarity=0.236  Sum_probs=122.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccC---CCCCCcceeeccccccCccccccccccccCCCCCC----CCCCCCCCCCe
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQ---DGEAGGITQQIGATNVPADAIRENTKHVRGPGGEV----GGPGPLEIPGL   96 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~   96 (259)
                      ..+|+++|++++|||||+++|.+....   +...+.++...+.......... ............    .++.......+
T Consensus         4 ~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i   82 (406)
T TIGR03680         4 EVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCP-ECDGPECYTTEPVCPNCGSETELLRRV   82 (406)
T ss_pred             eEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEeccccccccccc-ccCccccccccccccccccccccccEE
Confidence            456999999999999999999754221   1111223333332221110000 000000000000    00000112349


Q ss_pred             EEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCC-CHHHHHHHHHHHhCCC-CEEEEEecccccCcccccchhhHHHHH
Q psy6316          97 LIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGL-EPQTIESINILKSKKT-PFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus        97 ~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~-~~~~~~~l~~~~~~~~-piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      ++||||||++|...+...+..+|++++|+|++++. ..+..+++..+...+. |+++++||+|+...+   ...+..+.+
T Consensus        83 ~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~gi~~iIVvvNK~Dl~~~~---~~~~~~~~i  159 (406)
T TIGR03680        83 SFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEIIGIKNIVIVQNKIDLVSKE---KALENYEEI  159 (406)
T ss_pred             EEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHcCCCeEEEEEEccccCCHH---HHHHHHHHH
Confidence            99999999999999999999999999999999876 6677778877777765 589999999997421   111112222


Q ss_pred             hhhhcc---ccccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHH
Q psy6316         175 KSQESS---VQTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVD  251 (259)
Q Consensus       175 ~~~~~~---~~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~  251 (259)
                      ..+...   ..++++++||++|.|++.                              .++.+.+.++.+.+..+.+|+|+
T Consensus       160 ~~~l~~~~~~~~~ii~vSA~~g~gi~~------------------------------L~e~L~~~l~~~~~~~~~~~~~~  209 (406)
T TIGR03680       160 KEFVKGTVAENAPIIPVSALHNANIDA------------------------------LLEAIEKFIPTPERDLDKPPLMY  209 (406)
T ss_pred             HhhhhhcccCCCeEEEEECCCCCChHH------------------------------HHHHHHHhCCCCCCCCCCCcEEE
Confidence            222221   246788999999998843                              22333333455556667788899


Q ss_pred             HHHhhcc
Q psy6316         252 LKKVFQI  258 (259)
Q Consensus       252 i~~~~~~  258 (259)
                      |+++|+|
T Consensus       210 I~~~f~v  216 (406)
T TIGR03680       210 VARSFDV  216 (406)
T ss_pred             EEEEEee
Confidence            9888854

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

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

Probab=99.87  E-value=2.4e-22  Score=158.71  Aligned_cols=147  Identities=16%  Similarity=0.168  Sum_probs=105.5

Q ss_pred             EeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCcchHH
Q psy6316          30 LGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSN  109 (259)
Q Consensus        30 ~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~  109 (259)
                      +|.+|+|||||+++++...+...+..+++.++.........     ..+                .+.||||||++.|..
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~-----~~~----------------~l~iwDt~G~e~~~~   59 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNR-----GPI----------------RFNVWDTAGQEKFGG   59 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECC-----EEE----------------EEEEEECCCchhhhh
Confidence            69999999999999998777665555555444322211111     111                299999999999999


Q ss_pred             HHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh--CCCCEEEEEecccccCcccccchhhHHHHHhhhhcccccccc
Q psy6316         110 LRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS--KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKT  186 (259)
Q Consensus       110 ~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  186 (259)
                      ++..+++.+|++|+|+|+++..+.... .|+..+..  .+.|+++|+||+|+....  ...+.    + .+....++.++
T Consensus        60 l~~~~~~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~~~~~piilvgNK~Dl~~~~--v~~~~----~-~~~~~~~~~~~  132 (200)
T smart00176       60 LRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVCENIPIVLCGNKVDVKDRK--VKAKS----I-TFHRKKNLQYY  132 (200)
T ss_pred             hhHHHhcCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCEEEEEECccccccc--CCHHH----H-HHHHHcCCEEE
Confidence            999999999999999999987666554 35555654  468999999999985311  11111    1 23334568889


Q ss_pred             ccccccCcceeEEeecCC
Q psy6316         187 VESARKGQEICIKIEPIP  204 (259)
Q Consensus       187 ~~Sa~~g~gv~~~l~~i~  204 (259)
                      ++||++|.|+.+.+..+.
T Consensus       133 e~SAk~~~~v~~~F~~l~  150 (200)
T smart00176      133 DISAKSNYNFEKPFLWLA  150 (200)
T ss_pred             EEeCCCCCCHHHHHHHHH
Confidence            999999999998776664

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

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

Probab=99.87  E-value=8.9e-22  Score=152.79  Aligned_cols=151  Identities=16%  Similarity=0.113  Sum_probs=99.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||++++....+. ...++++..+    ....     ...                ..+.+|||||
T Consensus        13 ~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~----~~~~-----~~~----------------~~l~l~D~~G   66 (175)
T smart00177       13 EMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNV----ETVT-----YKN----------------ISFTVWDVGG   66 (175)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccce----EEEE-----ECC----------------EEEEEEECCC
Confidence            355999999999999999999755542 1222222111    0000     001                1299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhh-
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ-  177 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~-  177 (259)
                      +..+...+..+++.+|++|+|+|+++..+... .+++..+..    .+.|+++|+||+|+....   ..+++...+... 
T Consensus        67 ~~~~~~~~~~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~---~~~~i~~~~~~~~  143 (175)
T smart00177       67 QDKIRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDAM---KAAEITEKLGLHS  143 (175)
T ss_pred             ChhhHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccCC---CHHHHHHHhCccc
Confidence            99999999999999999999999987543332 334444322    358999999999986321   223333333211 


Q ss_pred             hccccccccccccccCcceeEEeecC
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .....+.++++||++|.|+.+.++.+
T Consensus       144 ~~~~~~~~~~~Sa~~g~gv~e~~~~l  169 (175)
T smart00177      144 IRDRNWYIQPTCATSGDGLYEGLTWL  169 (175)
T ss_pred             cCCCcEEEEEeeCCCCCCHHHHHHHH
Confidence            11224556689999999998866544

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).

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.87  E-value=6.8e-22  Score=151.85  Aligned_cols=149  Identities=16%  Similarity=0.126  Sum_probs=100.9

Q ss_pred             EEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHES  106 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~  106 (259)
                      |+++|.+|+|||||++++.+..+...+.++++.    ....          +...           ...+.+|||||+..
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~----~~~~----------i~~~-----------~~~l~i~Dt~G~~~   56 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGF----NSVA----------IPTQ-----------DAIMELLEIGGSQN   56 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCcccccccCCc----ceEE----------EeeC-----------CeEEEEEECCCCcc
Confidence            899999999999999999987665443333321    1100          0000           11299999999999


Q ss_pred             hHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh--CCCCEEEEEecccccCcccccchhhHHHH--Hhhhhccc
Q psy6316         107 FSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS--KKTPFVVALNKIDRLYNWNTMNRRDVRDI--IKSQESSV  181 (259)
Q Consensus       107 ~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~~~~~~--~~~~~~~~  181 (259)
                      +...+..+++.+|++++|+|+++..+... ..++..+..  .++|+++|+||+|+....   ...++...  +..+....
T Consensus        57 ~~~~~~~~~~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~~~~~piilv~NK~Dl~~~~---~~~~i~~~~~~~~~~~~~  133 (164)
T cd04162          57 LRKYWKRYLSGSQGLIFVVDSADSERLPLARQELHQLLQHPPDLPLVVLANKQDLPAAR---SVQEIHKELELEPIARGR  133 (164)
T ss_pred             hhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHhCCCCCcEEEEEeCcCCcCCC---CHHHHHHHhCChhhcCCC
Confidence            99999999999999999999987544332 334444432  478999999999986432   22222222  23444445


Q ss_pred             ccccccccccc------CcceeEEeecC
Q psy6316         182 QTHKTVESARK------GQEICIKIEPI  203 (259)
Q Consensus       182 ~~~~i~~Sa~~------g~gv~~~l~~i  203 (259)
                      ++.++++||++      ++|+.+++..+
T Consensus       134 ~~~~~~~Sa~~~~s~~~~~~v~~~~~~~  161 (164)
T cd04162         134 RWILQGTSLDDDGSPSRMEAVKDLLSQL  161 (164)
T ss_pred             ceEEEEeeecCCCChhHHHHHHHHHHHH
Confidence            67777777777      88888765544

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.

>cd04151 Arl1 Arl1 subfamily

Probab=99.87  E-value=6.7e-22  Score=150.89  Aligned_cols=150  Identities=21%  Similarity=0.154  Sum_probs=97.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||+++|....+.. ..++++...    ..          +.           +....+.+|||||+.
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~----~~----------~~-----------~~~~~~~i~Dt~G~~   54 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVVT-TIPTIGFNV----ET----------VT-----------YKNLKFQVWDLGGQT   54 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCcC-cCCccCcCe----EE----------EE-----------ECCEEEEEEECCCCH
Confidence            38999999999999999997665432 111111110    00          00           001129999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHH-HHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhh-hc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESIN-ILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ-ES  179 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~-~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~-~~  179 (259)
                      .+...+..+++.+|++++|+|+++..+... .+.+. .++.   .++|+++++||+|+....   ...++...+... ..
T Consensus        55 ~~~~~~~~~~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~---~~~~i~~~~~~~~~~  131 (158)
T cd04151          55 SIRPYWRCYYSNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGAL---SEAEISEKLGLSELK  131 (158)
T ss_pred             HHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCC---CHHHHHHHhCccccC
Confidence            999999999999999999999987433221 22222 2222   368999999999986421   122232222211 11


Q ss_pred             cccccccccccccCcceeEEeecCC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ..+++++++||++|.|+++++..+.
T Consensus       132 ~~~~~~~~~Sa~~~~gi~~l~~~l~  156 (158)
T cd04151         132 DRTWSIFKTSAIKGEGLDEGMDWLV  156 (158)
T ss_pred             CCcEEEEEeeccCCCCHHHHHHHHh
Confidence            2235788999999999998766553

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.87  E-value=1e-21  Score=152.36  Aligned_cols=150  Identities=20%  Similarity=0.155  Sum_probs=100.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+++|....+.. ..++++..+.    ...                     +....+.+|||||+
T Consensus        16 ~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~----~~~---------------------~~~~~~~l~D~~G~   69 (174)
T cd04153          16 YKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNVE----EIV---------------------YKNIRFLMWDIGGQ   69 (174)
T ss_pred             cEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccceE----EEE---------------------ECCeEEEEEECCCC
Confidence            459999999999999999998776542 2222221111    000                     00112999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHH-Hh---CCCCEEEEEecccccCcccccchhhHHHHHhh-hh
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINIL-KS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS-QE  178 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~-~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~-~~  178 (259)
                      ..+...+..+++.+|++++|+|+++..+... ...+..+ ..   .+.|+++++||+|+....   ..+++.+.+.. ..
T Consensus        70 ~~~~~~~~~~~~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~~---~~~~i~~~l~~~~~  146 (174)
T cd04153          70 ESLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGAM---TPAEISESLGLTSI  146 (174)
T ss_pred             HHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCCCC---CHHHHHHHhCcccc
Confidence            9999999999999999999999987543322 2223332 22   358999999999986321   22333333321 11


Q ss_pred             ccccccccccccccCcceeEEeecC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ...+++++++||++|.|+++++..+
T Consensus       147 ~~~~~~~~~~SA~~g~gi~e~~~~l  171 (174)
T cd04153         147 RDHTWHIQGCCALTGEGLPEGLDWI  171 (174)
T ss_pred             cCCceEEEecccCCCCCHHHHHHHH
Confidence            2345678899999999998876654

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.

>cd01892 Miro2 Miro2 subfamily

Probab=99.87  E-value=2.3e-22  Score=155.22  Aligned_cols=154  Identities=15%  Similarity=0.080  Sum_probs=102.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccC-CCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQ-DGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      ..+|+++|.+|+|||||++++++..+. ..+.++++..+..........     ..                .+.+||++
T Consensus         4 ~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~-----~~----------------~l~~~d~~   62 (169)
T cd01892           4 VFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQ-----EK----------------YLILREVG   62 (169)
T ss_pred             EEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCe-----EE----------------EEEEEecC
Confidence            456999999999999999999988876 555444443322111111100     00                28899999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh-CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS-KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~-~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      |++.+..++..+++.+|++++|+|+++..+.... .++..+.. .+.|+++|+||+|+......     .....+++...
T Consensus        63 g~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~~-----~~~~~~~~~~~  137 (169)
T cd01892          63 EDEVAILLNDAELAACDVACLVYDSSDPKSFSYCAEVYKKYFMLGEIPCLFVAAKADLDEQQQR-----YEVQPDEFCRK  137 (169)
T ss_pred             CcccccccchhhhhcCCEEEEEEeCCCHHHHHHHHHHHHHhccCCCCeEEEEEEcccccccccc-----cccCHHHHHHH
Confidence            9998888888889999999999999875443332 34444422 36899999999998632111     01111222333


Q ss_pred             ccc-cccccccccCcceeEEeecC
Q psy6316         181 VQT-HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~-~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ++. .++++||++|.|+++++..+
T Consensus       138 ~~~~~~~~~Sa~~~~~v~~lf~~l  161 (169)
T cd01892         138 LGLPPPLHFSSKLGDSSNELFTKL  161 (169)
T ss_pred             cCCCCCEEEEeccCccHHHHHHHH
Confidence            344 35889999999998765444

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.

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.87  E-value=4.1e-22  Score=155.83  Aligned_cols=156  Identities=17%  Similarity=0.167  Sum_probs=98.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||++++....+... .++.+..........    .                ......+.+|||||
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~~~~----~----------------~~~~~~l~l~Dt~G   61 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSL----G----------------NSKGITFHFWDVGG   61 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcCCc-CCccccceeEEEeec----c----------------CCCceEEEEEECCC
Confidence            34599999999999999999987765422 111111110000000    0                00011299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHH----HHhCCCCEEEEEecccccCcccccchhhHHHHHh--h
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINI----LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK--S  176 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~----~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~--~  176 (259)
                      ++.+...+..+++.+|++++|+|+++..+..... ++..    ....++|+++|+||+|+....   ..+++...+.  .
T Consensus        62 ~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~~---~~~~~~~~~~~~~  138 (183)
T cd04152          62 QEKLRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNAL---SVSEVEKLLALHE  138 (183)
T ss_pred             cHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCccccC---CHHHHHHHhCccc
Confidence            9999999999999999999999998753333222 2222    233578999999999986321   1222222221  1


Q ss_pred             hhccccccccccccccCcceeEEeecC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ......++++++||++|.|+++++..+
T Consensus       139 ~~~~~~~~~~~~SA~~~~gi~~l~~~l  165 (183)
T cd04152         139 LSASTPWHVQPACAIIGEGLQEGLEKL  165 (183)
T ss_pred             cCCCCceEEEEeecccCCCHHHHHHHH
Confidence            111123457789999999998865544

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.

>KOG1423|consensus

Probab=99.86  E-value=9.1e-22  Score=158.01  Aligned_cols=205  Identities=20%  Similarity=0.281  Sum_probs=136.0

Q ss_pred             CCCCcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCC
Q psy6316          15 NPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIP   94 (259)
Q Consensus        15 ~~~~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (259)
                      ++..+...|...|+++|.||+|||||.|.+++.++            ..++..+.+++....++...+..          
T Consensus        63 srde~e~~k~L~vavIG~PNvGKStLtN~mig~kv------------~~vS~K~~TTr~~ilgi~ts~eT----------  120 (379)
T KOG1423|consen   63 SRDEEEAQKSLYVAVIGAPNVGKSTLTNQMIGQKV------------SAVSRKVHTTRHRILGIITSGET----------  120 (379)
T ss_pred             CCCchhcceEEEEEEEcCCCcchhhhhhHhhCCcc------------ccccccccceeeeeeEEEecCce----------
Confidence            34445567788899999999999999999976654            34556667777766655544332          


Q ss_pred             CeEEEeCCC------CcchHH------HHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhC-CCCEEEEEecccccCc
Q psy6316          95 GLLIIDTPG------HESFSN------LRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSK-KTPFVVALNKIDRLYN  161 (259)
Q Consensus        95 ~~~liDtpG------~~~~~~------~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~-~~piivv~NK~D~~~~  161 (259)
                      ++.|+||||      +..+..      ....++..||++++|+|+++.-..-.-..+..+.+. ++|-++|.||.|....
T Consensus       121 Qlvf~DTPGlvs~~~~r~~~l~~s~lq~~~~a~q~AD~vvVv~Das~tr~~l~p~vl~~l~~ys~ips~lvmnkid~~k~  200 (379)
T KOG1423|consen  121 QLVFYDTPGLVSKKMHRRHHLMMSVLQNPRDAAQNADCVVVVVDASATRTPLHPRVLHMLEEYSKIPSILVMNKIDKLKQ  200 (379)
T ss_pred             EEEEecCCcccccchhhhHHHHHHhhhCHHHHHhhCCEEEEEEeccCCcCccChHHHHHHHHHhcCCceeeccchhcchh
Confidence            499999999      111111      223467889999999999864444445566666664 6899999999998752


Q ss_pred             cccc----------chhhHHHHHhhhhccc----------cc----cccccccccCcceeEEeecCCC---CCCcccccC
Q psy6316         162 WNTM----------NRRDVRDIIKSQESSV----------QT----HKTVESARKGQEICIKIEPIPG---EAPKMFGRH  214 (259)
Q Consensus       162 ~~~~----------~~~~~~~~~~~~~~~~----------~~----~~i~~Sa~~g~gv~~~l~~i~~---~~~~~~~~~  214 (259)
                      ....          ........+++-....          +|    ++|++||++|+|++++-++++.   ..+|.|+..
T Consensus       201 k~~Ll~l~~~Lt~g~l~~~kl~v~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~~gpW~y~a~  280 (379)
T KOG1423|consen  201 KRLLLNLKDLLTNGELAKLKLEVQEKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAPPGPWKYPAD  280 (379)
T ss_pred             hhHHhhhHHhccccccchhhhhHHHHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHHhcCCCCCCCCCcc
Confidence            1000          0011011111111111          13    4778999999999987666654   566777765


Q ss_pred             C---cchhhHHHHhhhhhHHHHHHHHHhhcCchhhH
Q psy6316         215 F---DENDFLVSKISRQSIDACKDYFRDDLQKTDWQ  247 (259)
Q Consensus       215 ~---~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~  247 (259)
                      .   .+.+++..+++|+++      ++....+.++-
T Consensus       281 i~T~~s~e~l~~e~VRekl------Ld~~pqEVPY~  310 (379)
T KOG1423|consen  281 IVTEESPEFLCSESVREKL------LDHLPQEVPYN  310 (379)
T ss_pred             cccccCHHHHHHHHHHHHH------HhhCccccCcc
Confidence            5   478899999999988      66666655543

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.86  E-value=1.3e-21  Score=152.68  Aligned_cols=151  Identities=17%  Similarity=0.153  Sum_probs=98.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||++++....+.. ..++++...    ...+     ...                ..+.+|||||
T Consensus        17 ~~ki~ivG~~~~GKTsl~~~l~~~~~~~-~~pt~g~~~----~~~~-----~~~----------------~~~~i~D~~G   70 (181)
T PLN00223         17 EMRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGFNV----ETVE-----YKN----------------ISFTVWDVGG   70 (181)
T ss_pred             ccEEEEECCCCCCHHHHHHHHccCCCcc-ccCCcceeE----EEEE-----ECC----------------EEEEEEECCC
Confidence            3459999999999999999998655532 222222111    1000     001                1299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      ++.+..++..+++.+|++|+|+|+++..+..+ ...+..+..    .+.|+++++||+|+....   ..+++...+....
T Consensus        71 q~~~~~~~~~~~~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~~---~~~~~~~~l~l~~  147 (181)
T PLN00223         71 QDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM---NAAEITDKLGLHS  147 (181)
T ss_pred             CHHHHHHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCCC---CHHHHHHHhCccc
Confidence            99999999999999999999999987544332 223333321    368999999999986421   2233333332111


Q ss_pred             -ccccccccccccccCcceeEEeecC
Q psy6316         179 -SSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       179 -~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                       ....+.++++||++|+|+.+.+..+
T Consensus       148 ~~~~~~~~~~~Sa~~g~gv~e~~~~l  173 (181)
T PLN00223        148 LRQRHWYIQSTCATSGEGLYEGLDWL  173 (181)
T ss_pred             cCCCceEEEeccCCCCCCHHHHHHHH
Confidence             1113445679999999998866544

>cd04111 Rab39 Rab39 subfamily

Probab=99.86  E-value=5.6e-22  Score=158.35  Aligned_cols=155  Identities=16%  Similarity=0.193  Sum_probs=105.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+++|++..+...+.++++.++........    ....+                .+.+|||||+
T Consensus         3 ~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~----~~~~~----------------~l~i~Dt~G~   62 (211)
T cd04111           3 FRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIE----PGVRI----------------KLQLWDTAGQ   62 (211)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEEC----CCCEE----------------EEEEEeCCcc
Confidence            359999999999999999999887755444433322211111100    00001                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      +.+...+..+++.+|++++|+|+++..+..... ++..+..    ...|+++|+||+|+....     ....+....+..
T Consensus        63 ~~~~~~~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~-----~v~~~~~~~~~~  137 (211)
T cd04111          63 ERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQR-----QVTREEAEKLAK  137 (211)
T ss_pred             hhHHHHHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEcccccccc-----ccCHHHHHHHHH
Confidence            999999999999999999999998865554433 4444432    246788999999986421     111222333444


Q ss_pred             cccccccccccccCcceeEEeecCC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      .+++.++++||++|.|+++++..+.
T Consensus       138 ~~~~~~~e~Sak~g~~v~e~f~~l~  162 (211)
T cd04111         138 DLGMKYIETSARTGDNVEEAFELLT  162 (211)
T ss_pred             HhCCEEEEEeCCCCCCHHHHHHHHH
Confidence            4567889999999999998665553

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.

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.86  E-value=8.2e-22  Score=174.20  Aligned_cols=144  Identities=23%  Similarity=0.263  Sum_probs=99.6

Q ss_pred             CCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCC-CEEEEEecccccCcccccchhhHHH
Q psy6316          94 PGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKT-PFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~-piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      .+++|||||||.+|...+...+..+|++++|+|+..+...++.+.+..+...++ |+|+++||+|+... +.....++..
T Consensus       107 ~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~~l~~~lg~~~iIvvvNKiD~~~~-~~~~~~~i~~  185 (474)
T PRK05124        107 RKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHSFIATLLGIKHLVVAVNKMDLVDY-SEEVFERIRE  185 (474)
T ss_pred             cEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHHHHHHHhCCCceEEEEEeeccccc-hhHHHHHHHH
Confidence            359999999999998888888899999999999999888877777777776664 68889999999732 2222333444


Q ss_pred             HHhhhhccc----cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHH
Q psy6316         173 IIKSQESSV----QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQL  248 (259)
Q Consensus       173 ~~~~~~~~~----~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~  248 (259)
                      .+..+....    ..+++++||++|.|++..-.    ..+|+.+      ..        .+++|+. ++.+.+..+.+|
T Consensus       186 ~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~~~----~~~wy~G------~t--------Ll~~L~~-i~~~~~~~~~p~  246 (474)
T PRK05124        186 DYLTFAEQLPGNLDIRFVPLSALEGDNVVSQSE----SMPWYSG------PT--------LLEVLET-VDIQRVVDAQPF  246 (474)
T ss_pred             HHHHHHHhcCCCCCceEEEEEeecCCCcccccc----cccccch------hh--------HHHHHhh-cCCCCCCCCCCc
Confidence            444333222    36788999999999987432    2344311      11        2222322 344556677899


Q ss_pred             HHHHHHhhc
Q psy6316         249 MVDLKKVFQ  257 (259)
Q Consensus       249 ~~~i~~~~~  257 (259)
                      +|+|+++|+
T Consensus       247 r~~I~~v~~  255 (474)
T PRK05124        247 RFPVQYVNR  255 (474)
T ss_pred             eeeEEEEEe
Confidence            999988754

>cd04123 Rab21 Rab21 subfamily

Probab=99.86  E-value=6.4e-22  Score=151.18  Aligned_cols=152  Identities=24%  Similarity=0.237  Sum_probs=101.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++++..+......+.............     ....                .+.+|||||++
T Consensus         2 ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~----------------~~~~~D~~g~~   60 (162)
T cd04123           2 KVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIG-----GKRI----------------DLAIWDTAGQE   60 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEEC-----CEEE----------------EEEEEECCchH
Confidence            59999999999999999999887654333222222111111100     0001                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+...+..+++.+|++++|+|+++..+..... ++..+..   .++|+++++||+|+.... ....    +.+.......
T Consensus        61 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~-~~~~----~~~~~~~~~~  135 (162)
T cd04123          61 RYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQR-VVSK----SEAEEYAKSV  135 (162)
T ss_pred             HHHHhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccc-CCCH----HHHHHHHHHc
Confidence            99988888899999999999998765544433 3333332   368999999999987321 1111    2223333344


Q ss_pred             cccccccccccCcceeEEeecC
Q psy6316         182 QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ++.++++||++|.|+++++..+
T Consensus       136 ~~~~~~~s~~~~~gi~~~~~~l  157 (162)
T cd04123         136 GAKHFETSAKTGKGIEELFLSL  157 (162)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHH
Confidence            6778899999999998865543

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.86  E-value=1e-21  Score=155.23  Aligned_cols=154  Identities=21%  Similarity=0.191  Sum_probs=98.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++.+..+...+.++..............     ..+                .+.||||||..
T Consensus         2 kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~-----~~~----------------~l~i~Dt~G~~   60 (198)
T cd04142           2 RVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSG-----RVY----------------DLHILDVPNMQ   60 (198)
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECC-----EEE----------------EEEEEeCCCcc
Confidence            599999999999999999998877544433332221110000000     001                28899999965


Q ss_pred             chH--------HHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH------hCCCCEEEEEecccccCcccccchhhH
Q psy6316         106 SFS--------NLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK------SKKTPFVVALNKIDRLYNWNTMNRRDV  170 (259)
Q Consensus       106 ~~~--------~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~------~~~~piivv~NK~D~~~~~~~~~~~~~  170 (259)
                      .+.        ......++.+|++|+|+|+++..+..... ++..+.      ..++|+++|+||+|+.... ....+  
T Consensus        61 ~~~~~~~~e~~~~~~~~~~~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~-~~~~~--  137 (198)
T cd04142          61 RYPGTAGQEWMDPRFRGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHR-FAPRH--  137 (198)
T ss_pred             cCCccchhHHHHHHHhhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccc-cccHH--
Confidence            431        11334578999999999998866555433 333332      2468999999999996421 11111  


Q ss_pred             HHHHhhhh-ccccccccccccccCcceeEEeecCCC
Q psy6316         171 RDIIKSQE-SSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       171 ~~~~~~~~-~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                        ..+.+. ..++++++++||++|.|+++++..+..
T Consensus       138 --~~~~~~~~~~~~~~~e~Sak~g~~v~~lf~~i~~  171 (198)
T cd04142         138 --VLSVLVRKSWKCGYLECSAKYNWHILLLFKELLI  171 (198)
T ss_pred             --HHHHHHHHhcCCcEEEecCCCCCCHHHHHHHHHH
Confidence              222222 234678899999999999997766654

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.

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

Probab=99.86  E-value=7.1e-22  Score=153.06  Aligned_cols=155  Identities=17%  Similarity=0.178  Sum_probs=103.7

Q ss_pred             EEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHES  106 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~  106 (259)
                      |+++|.+|+|||||++++.+..+...+.++....+.. ....     ....+                .+.+|||||++.
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~-~~~~-----~~~~~----------------~~~i~Dt~G~~~   58 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENYSA-DVEV-----DGKPV----------------ELGLWDTAGQED   58 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeeeeE-EEEE-----CCEEE----------------EEEEEECCCCcc
Confidence            6899999999999999999888755444333222211 0000     00011                289999999999


Q ss_pred             hHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHh--CCCCEEEEEecccccCccccc-------chhhHHHHHh
Q psy6316         107 FSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKS--KKTPFVVALNKIDRLYNWNTM-------NRRDVRDIIK  175 (259)
Q Consensus       107 ~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~--~~~piivv~NK~D~~~~~~~~-------~~~~~~~~~~  175 (259)
                      +..++..+++.+|++|+|+|+++..+....  .++..+..  .+.|+++|+||+|+.......       ......+...
T Consensus        59 ~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~  138 (174)
T smart00174       59 YDRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFCPNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGE  138 (174)
T ss_pred             cchhchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHH
Confidence            988888899999999999999886555544  25555554  379999999999986421100       0001112223


Q ss_pred             hhhccccc-cccccccccCcceeEEeecC
Q psy6316         176 SQESSVQT-HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       176 ~~~~~~~~-~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+....+. .++++||++|.|+++++..+
T Consensus       139 ~~~~~~~~~~~~e~Sa~~~~~v~~lf~~l  167 (174)
T smart00174      139 ALAKRIGAVKYLECSALTQEGVREVFEEA  167 (174)
T ss_pred             HHHHHcCCcEEEEecCCCCCCHHHHHHHH
Confidence            34444444 77899999999998866554

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

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

Probab=99.86  E-value=9.9e-22  Score=149.86  Aligned_cols=150  Identities=19%  Similarity=0.142  Sum_probs=100.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++++..... ...+.+    .......                     +....+.+|||||+.
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~~~-~~~t~~----~~~~~~~---------------------~~~~~~~i~D~~G~~   54 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEVVT-TIPTIG----FNVETVE---------------------YKNVSFTVWDVGGQD   54 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCCCC-CCCCcC----cceEEEE---------------------ECCEEEEEEECCCCh
Confidence            48999999999999999999886422 111111    1100000                     001129999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhhh-hc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ-ES  179 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~-~~  179 (259)
                      .+...+..++..+|++++|+|+++..+... ..++..+.    ..+.|+++++||+|+....   ..+++.+.+... ..
T Consensus        55 ~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~---~~~~~~~~~~~~~~~  131 (158)
T cd00878          55 KIRPLWKHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGAL---SVSELIEKLGLEKIL  131 (158)
T ss_pred             hhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCcccc---CHHHHHHhhChhhcc
Confidence            999999999999999999999987533332 22333222    3478999999999987422   233344433332 12


Q ss_pred             cccccccccccccCcceeEEeecCC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ...++++++||++|.|+++++..+.
T Consensus       132 ~~~~~~~~~Sa~~~~gv~~~~~~l~  156 (158)
T cd00878         132 GRRWHIQPCSAVTGDGLDEGLDWLL  156 (158)
T ss_pred             CCcEEEEEeeCCCCCCHHHHHHHHh
Confidence            2356788999999999988765543

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

>KOG0080|consensus

Probab=99.86  E-value=2.3e-22  Score=146.45  Aligned_cols=153  Identities=19%  Similarity=0.124  Sum_probs=117.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+-++....+......+++.++......+...+.+                     +.||||+|+
T Consensus        12 ~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~K---------------------laiWDTAGq   70 (209)
T KOG0080|consen   12 FKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLK---------------------LAIWDTAGQ   70 (209)
T ss_pred             EEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEE---------------------EEEEeccch
Confidence            45999999999999999999999998887777887776655555443322                     999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHhC----CCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKSK----KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~~----~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++|+.+..++++.|.++|+|+|+++..+...++ |++.+.-.    ++-.++|+||+|... +..    .-.+.-.+++.
T Consensus        71 ErFRtLTpSyyRgaqGiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes-~R~----V~reEG~kfAr  145 (209)
T KOG0080|consen   71 ERFRTLTPSYYRGAQGIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKES-ERV----VDREEGLKFAR  145 (209)
T ss_pred             HhhhccCHhHhccCceeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchh-ccc----ccHHHHHHHHH
Confidence            999999999999999999999999887777766 44454432    233468999999752 222    22333344556


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+++-++++||++.+|+...++++
T Consensus       146 ~h~~LFiE~SAkt~~~V~~~Feel  169 (209)
T KOG0080|consen  146 KHRCLFIECSAKTRENVQCCFEEL  169 (209)
T ss_pred             hhCcEEEEcchhhhccHHHHHHHH
Confidence            667888999999999998765554

>KOG1144|consensus

Probab=99.86  E-value=7.6e-22  Score=173.84  Aligned_cols=181  Identities=60%  Similarity=0.930  Sum_probs=145.0

Q ss_pred             CCcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCe
Q psy6316          17 EDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGL   96 (259)
Q Consensus        17 ~~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (259)
                      +....+|+|.++|+|+.++|||-|+..+.+.++..++.++++..+|.+..+....+.....+......     .+....+
T Consensus       468 ~~~~~lRSPIcCilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~-----~~kvPg~  542 (1064)
T KOG1144|consen  468 ESTENLRSPICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKK-----RLKVPGL  542 (1064)
T ss_pred             ccchhcCCceEEEeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhh-----hcCCCee
Confidence            34568999999999999999999999999999999999999999999999988666555433322221     3444569


Q ss_pred             EEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316          97 LIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus        97 ~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      .+||||||+.|..++.+..+.||++|+|+|..+++.++..+.+..++..+.|+||++||+|.+..|.......+...+..
T Consensus       543 lvIdtpghEsFtnlRsrgsslC~~aIlvvdImhGlepqtiESi~lLR~rktpFivALNKiDRLYgwk~~p~~~i~~~lkk  622 (1064)
T KOG1144|consen  543 LVIDTPGHESFTNLRSRGSSLCDLAILVVDIMHGLEPQTIESINLLRMRKTPFIVALNKIDRLYGWKSCPNAPIVEALKK  622 (1064)
T ss_pred             EEecCCCchhhhhhhhccccccceEEEEeehhccCCcchhHHHHHHHhcCCCeEEeehhhhhhcccccCCCchHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999987654433323222221


Q ss_pred             hh-------------------ccc--------------cccccccccccCcceeEEeec
Q psy6316         177 QE-------------------SSV--------------QTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       177 ~~-------------------~~~--------------~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ..                   ...              -+.++|+||.+|+|+..++..
T Consensus       623 Q~k~v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~l  681 (1064)
T KOG1144|consen  623 QKKDVQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLL  681 (1064)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHH
Confidence            11                   000              245679999999999875433

>KOG0394|consensus

Probab=99.86  E-value=2.8e-22  Score=149.36  Aligned_cols=156  Identities=22%  Similarity=0.195  Sum_probs=116.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|.+.|.+|+|||||+|++...++.+.+..+++.++-.....++....                     .+++|||+|
T Consensus         9 lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~v---------------------tlQiWDTAG   67 (210)
T KOG0394|consen    9 LLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSV---------------------TLQIWDTAG   67 (210)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEE---------------------EEEEEeccc
Confidence            35699999999999999999999999988888888766544333332111                     189999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHH-----HHHHh---CCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESI-----NILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l-----~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      +++|.++...+++++|++++|+|++...+...++.|     .+...   ..-|+|+++||+|.....   .+..-....+
T Consensus        68 QERFqsLg~aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~---~r~VS~~~Aq  144 (210)
T KOG0394|consen   68 QERFQSLGVAFYRGADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGK---SRQVSEKKAQ  144 (210)
T ss_pred             HHHhhhcccceecCCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCc---cceeeHHHHH
Confidence            999999999999999999999999887666555433     33322   246899999999986432   1233333444


Q ss_pred             hhh-ccccccccccccccCcceeEEeecC
Q psy6316         176 SQE-SSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       176 ~~~-~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+. ...+++++++||+.+.++...+..+
T Consensus       145 ~WC~s~gnipyfEtSAK~~~NV~~AFe~i  173 (210)
T KOG0394|consen  145 TWCKSKGNIPYFETSAKEATNVDEAFEEI  173 (210)
T ss_pred             HHHHhcCCceeEEecccccccHHHHHHHH
Confidence            443 4457889999999999998866554

>PLN03118 Rab family protein; Provisional

Probab=99.86  E-value=1.4e-21  Score=156.25  Aligned_cols=154  Identities=19%  Similarity=0.165  Sum_probs=102.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+++|.+..+.. ..++.+.+.........     ...+                .+.||||||+
T Consensus        15 ~kv~ivG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~~~~~~~~~-----~~~~----------------~l~l~Dt~G~   72 (211)
T PLN03118         15 FKILLIGDSGVGKSSLLVSFISSSVED-LAPTIGVDFKIKQLTVG-----GKRL----------------KLTIWDTAGQ   72 (211)
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCCCCC-cCCCceeEEEEEEEEEC-----CEEE----------------EEEEEECCCc
Confidence            459999999999999999998876532 22222221111111000     0001                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH--HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE--SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~--~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      +.+..++..+++.+|++|+|+|+++..+.....  +...+..    .+.|+++|+||+|+..... ...++    ...+.
T Consensus        73 ~~~~~~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~-i~~~~----~~~~~  147 (211)
T PLN03118         73 ERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERD-VSREE----GMALA  147 (211)
T ss_pred             hhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCc-cCHHH----HHHHH
Confidence            999999999999999999999998865555543  2223322    3578999999999864211 11122    22233


Q ss_pred             ccccccccccccccCcceeEEeecCCC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      ...++.++++||++|.|+++++..+..
T Consensus       148 ~~~~~~~~e~SAk~~~~v~~l~~~l~~  174 (211)
T PLN03118        148 KEHGCLFLECSAKTRENVEQCFEELAL  174 (211)
T ss_pred             HHcCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            334567889999999999987766543

>cd01893 Miro1 Miro1 subfamily

Probab=99.86  E-value=2.4e-21  Score=149.05  Aligned_cols=152  Identities=15%  Similarity=0.147  Sum_probs=98.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|||||||+++|.+..+......... ..   +....        ..+           ....+.+|||||+.
T Consensus         2 kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~~~-~~---~~~~~--------~~~-----------~~~~~~i~Dt~G~~   58 (166)
T cd01893           2 RIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLP-EI---TIPAD--------VTP-----------ERVPTTIVDTSSRP   58 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCcCCccCCCccc-ce---Eeeee--------ecC-----------CeEEEEEEeCCCch
Confidence            599999999999999999998876433211110 00   00000        000           01128999999998


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHh--CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKS--KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+...+..++..+|++++|+|++++.+....  .++..++.  .+.|+++|+||+|+.......   .....+......+
T Consensus        59 ~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~pviiv~nK~Dl~~~~~~~---~~~~~~~~~~~~~  135 (166)
T cd01893          59 QDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLGVKVPIILVGNKSDLRDGSSQA---GLEEEMLPIMNEF  135 (166)
T ss_pred             hhhHHHhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhcccccchh---HHHHHHHHHHHHH
Confidence            8877778888999999999999887666553  24444543  368999999999997432110   1111121111111


Q ss_pred             -c-ccccccccccCcceeEEeecC
Q psy6316         182 -Q-THKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       182 -~-~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                       + ..++++||++|.|+++++..+
T Consensus       136 ~~~~~~~e~Sa~~~~~v~~lf~~~  159 (166)
T cd01893         136 REIETCVECSAKTLINVSEVFYYA  159 (166)
T ss_pred             hcccEEEEeccccccCHHHHHHHH
Confidence             1 267799999999998865543

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.

>PLN03108 Rab family protein; Provisional

Probab=99.86  E-value=1.2e-21  Score=156.32  Aligned_cols=153  Identities=19%  Similarity=0.148  Sum_probs=105.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++|+|||||+++|++..+...+..+++.++.........     ..+                .+.+|||||+
T Consensus         7 ~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~-----~~i----------------~l~l~Dt~G~   65 (210)
T PLN03108          7 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDN-----KPI----------------KLQIWDTAGQ   65 (210)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECC-----EEE----------------EEEEEeCCCc
Confidence            4699999999999999999998877654444443322211111110     001                1889999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      +.+...+..+++.+|++++|+|+++..+.... .++..+..   .+.|+++++||+|+... ....    ....+++...
T Consensus        66 ~~~~~~~~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~-~~~~----~~~~~~~~~~  140 (210)
T PLN03108         66 ESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHR-RAVS----TEEGEQFAKE  140 (210)
T ss_pred             HHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccc-cCCC----HHHHHHHHHH
Confidence            99998888999999999999999876555543 34443332   36899999999998632 1111    2223333344


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+++++++||++|.|+++.+.++
T Consensus       141 ~~~~~~e~Sa~~~~~v~e~f~~l  163 (210)
T PLN03108        141 HGLIFMEASAKTAQNVEEAFIKT  163 (210)
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHH
Confidence            56788999999999998866544

>cd04158 ARD1 ARD1 subfamily

Probab=99.86  E-value=1.8e-21  Score=150.19  Aligned_cols=149  Identities=17%  Similarity=0.173  Sum_probs=98.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+++|.+..+.. +.++++....    ..+                     +....+.+|||||+.
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~~-~~~T~~~~~~----~~~---------------------~~~~~i~l~Dt~G~~   54 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFMQ-PIPTIGFNVE----TVE---------------------YKNLKFTIWDVGGKH   54 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCceeEE----EEE---------------------ECCEEEEEEECCCCh
Confidence            38999999999999999998875432 2222221111    000                     001128999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhhc-
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES-  179 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~-  179 (259)
                      .+...+..+++.+|++++|+|+++..+..+. .++..+..    .+.|+++|+||+|+...   ...+++.+.+. ... 
T Consensus        55 ~~~~~~~~~~~~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~---~~~~~~~~~~~-~~~~  130 (169)
T cd04158          55 KLRPLWKHYYLNTQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAGA---LSVEEMTELLS-LHKL  130 (169)
T ss_pred             hcchHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcccC---CCHHHHHHHhC-Cccc
Confidence            9998999999999999999999875444332 33333332    24799999999998631   12233333321 111 


Q ss_pred             --cccccccccccccCcceeEEeecCC
Q psy6316         180 --SVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       180 --~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                        ...+.++++||++|.|+++++..+.
T Consensus       131 ~~~~~~~~~~~Sa~~g~gv~~~f~~l~  157 (169)
T cd04158         131 CCGRSWYIQGCDARSGMGLYEGLDWLS  157 (169)
T ss_pred             cCCCcEEEEeCcCCCCCCHHHHHHHHH
Confidence              1124567899999999998766553

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

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

Probab=99.86  E-value=1.8e-21  Score=154.50  Aligned_cols=177  Identities=20%  Similarity=0.181  Sum_probs=105.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhcccc---CCCCCCcceeeccccccCcccccccccccc----------CCCCCCCCCCCCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNV---QDGEAGGITQQIGATNVPADAIRENTKHVR----------GPGGEVGGPGPLE   92 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~   92 (259)
                      +|+++|+.|+|||||+.+|.+...   .....+.++...+.................          .......++....
T Consensus         2 ~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (203)
T cd01888           2 NIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETKL   81 (203)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCcccc
Confidence            699999999999999999975521   111111222222222211110000000000          0000000001111


Q ss_pred             CCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCC-CCHHHHHHHHHHHhCCC-CEEEEEecccccCcccccchhhH
Q psy6316          93 IPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG-LEPQTIESINILKSKKT-PFVVALNKIDRLYNWNTMNRRDV  170 (259)
Q Consensus        93 ~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~-~~~~~~~~l~~~~~~~~-piivv~NK~D~~~~~~~~~~~~~  170 (259)
                      ...+.||||||+++|...+...+..+|++++|+|++++ ...+..+.+..+...+. |+++++||+|+....   .....
T Consensus        82 ~~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~~~~~iiivvNK~Dl~~~~---~~~~~  158 (203)
T cd01888          82 VRHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIMGLKHIIIVQNKIDLVKEE---QALEN  158 (203)
T ss_pred             ccEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHcCCCcEEEEEEchhccCHH---HHHHH
Confidence            23599999999999999888999999999999999874 44555666666665554 689999999997421   11222


Q ss_pred             HHHHhhhhcc---ccccccccccccCcceeEEeecCCC
Q psy6316         171 RDIIKSQESS---VQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       171 ~~~~~~~~~~---~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      .+.++.....   ..++++++||++|+|+++++..+..
T Consensus       159 ~~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~  196 (203)
T cd01888         159 YEQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVK  196 (203)
T ss_pred             HHHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHH
Confidence            2333333322   2467889999999999887665543

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.85  E-value=9.8e-22  Score=152.29  Aligned_cols=156  Identities=17%  Similarity=0.180  Sum_probs=104.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +++++|.+|+|||||++++.+..+...+.++....+.. ....+.     ..+                .+.+|||||+.
T Consensus         2 k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~-~~~~~~-----~~~----------------~~~i~Dt~G~~   59 (173)
T cd04130           2 KCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSV-VVLVDG-----KPV----------------RLQLCDTAGQD   59 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeeeE-EEEECC-----EEE----------------EEEEEECCCCh
Confidence            59999999999999999998877655443332211110 011100     001                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHh--CCCCEEEEEecccccCcccc-------cchhhHHHHH
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKS--KKTPFVVALNKIDRLYNWNT-------MNRRDVRDII  174 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~--~~~piivv~NK~D~~~~~~~-------~~~~~~~~~~  174 (259)
                      .+...+..+++.+|++|+|+|+++..+.+..  .++..+..  .+.|+++++||+|+......       ..+....+..
T Consensus        60 ~~~~~~~~~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~  139 (173)
T cd04130          60 EFDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHNPKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRA  139 (173)
T ss_pred             hhccccccccCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHH
Confidence            9988888899999999999999987665543  35555554  36899999999998642100       0011111223


Q ss_pred             hhhhccccc-cccccccccCcceeEEeecC
Q psy6316         175 KSQESSVQT-HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       175 ~~~~~~~~~-~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+....+. .++++||++|.|++++++.+
T Consensus       140 ~~~a~~~~~~~~~e~Sa~~~~~v~~lf~~~  169 (173)
T cd04130         140 KALAEKIGACEYIECSALTQKNLKEVFDTA  169 (173)
T ss_pred             HHHHHHhCCCeEEEEeCCCCCCHHHHHHHH
Confidence            333334444 78899999999998866543

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,

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

Probab=99.85  E-value=2.3e-21  Score=151.70  Aligned_cols=151  Identities=17%  Similarity=0.149  Sum_probs=100.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|||||||++++.+..+... .++...    +...   .  ...                ...+.+|||||+
T Consensus        18 ~~i~ivG~~~~GKTsli~~l~~~~~~~~-~~t~~~----~~~~---~--~~~----------------~~~~~~~D~~G~   71 (184)
T smart00178       18 AKILFLGLDNAGKTTLLHMLKNDRLAQH-QPTQHP----TSEE---L--AIG----------------NIKFTTFDLGGH   71 (184)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCccc-CCcccc----ceEE---E--EEC----------------CEEEEEEECCCC
Confidence            5599999999999999999988755321 111111    1000   0  000                112899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ..+...+..++..+|++++|+|+++..+... ...+..+.    ..+.|+++|+||+|+...   ...+++.+.+.....
T Consensus        72 ~~~~~~~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~---~~~~~i~~~l~l~~~  148 (184)
T smart00178       72 QQARRLWKDYFPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPYA---ASEDELRYALGLTNT  148 (184)
T ss_pred             HHHHHHHHHHhCCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCC---CCHHHHHHHcCCCcc
Confidence            9999999999999999999999987533222 22333332    247899999999998632   234445544432211


Q ss_pred             --------cccccccccccccCcceeEEeecCC
Q psy6316         180 --------SVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       180 --------~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                              ...+.++++||++|+|+++.++.+.
T Consensus       149 ~~~~~~~~~~~~~i~~~Sa~~~~g~~~~~~wl~  181 (184)
T smart00178      149 TGSKGKVGVRPLEVFMCSVVRRMGYGEGFKWLS  181 (184)
T ss_pred             cccccccCCceeEEEEeecccCCChHHHHHHHH
Confidence                    1245688999999999988666553

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

>KOG0087|consensus

Probab=99.85  E-value=5.2e-22  Score=151.38  Aligned_cols=152  Identities=18%  Similarity=0.144  Sum_probs=122.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+++|||-|+.++....+......+++.++...+..++....+                     .+||||+||
T Consensus        15 FKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vk---------------------aqIWDTAGQ   73 (222)
T KOG0087|consen   15 FKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVK---------------------AQIWDTAGQ   73 (222)
T ss_pred             EEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEE---------------------Eeeecccch
Confidence            35999999999999999999999998888888988887666655433221                     899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHhC---CCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKSK---KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~~---~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ++|+.....++++|-++++|+|.+...+.+.. +|+.+++..   ++++++|+||+|+...     +....+..+.+...
T Consensus        74 ERyrAitSaYYrgAvGAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~l-----raV~te~~k~~Ae~  148 (222)
T KOG0087|consen   74 ERYRAITSAYYRGAVGALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLNHL-----RAVPTEDGKAFAEK  148 (222)
T ss_pred             hhhccccchhhcccceeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhhc-----cccchhhhHhHHHh
Confidence            99999999999999999999999988787764 488888874   6889999999999742     22223334445555


Q ss_pred             ccccccccccccCcceeEEeec
Q psy6316         181 VQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      .+..++++||+.+.+++..+..
T Consensus       149 ~~l~f~EtSAl~~tNVe~aF~~  170 (222)
T KOG0087|consen  149 EGLFFLETSALDATNVEKAFER  170 (222)
T ss_pred             cCceEEEecccccccHHHHHHH
Confidence            5678889999999999875533

>cd04177 RSR1 RSR1 subgroup

Probab=99.85  E-value=1.2e-21  Score=150.96  Aligned_cols=152  Identities=20%  Similarity=0.170  Sum_probs=100.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++.+..+.....++.+..+. .....     ....+                .+.+|||||++
T Consensus         3 ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~-~~~~~-----~~~~~----------------~~~i~Dt~G~~   60 (168)
T cd04177           3 KIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSYR-KQVEI-----DGRQC----------------DLEILDTAGTE   60 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheEE-EEEEE-----CCEEE----------------EEEEEeCCCcc
Confidence            4999999999999999999988765443333221110 00000     00001                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      .|..++..+++.+|++++|+|.++..+..... +...+.    ..+.|+++++||+|+.... ....++    ...+...
T Consensus        61 ~~~~~~~~~~~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~-~~~~~~----~~~~~~~  135 (168)
T cd04177          61 QFTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDR-QVSRED----GVSLSQQ  135 (168)
T ss_pred             cchhhhHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccC-ccCHHH----HHHHHHH
Confidence            99999999999999999999998754443322 233232    3468999999999986421 111122    2222233


Q ss_pred             cc-ccccccccccCcceeEEeecCC
Q psy6316         181 VQ-THKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       181 ~~-~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ++ .+++++||++|.|+++++.++.
T Consensus       136 ~~~~~~~~~SA~~~~~i~~~f~~i~  160 (168)
T cd04177         136 WGNVPFYETSARKRTNVDEVFIDLV  160 (168)
T ss_pred             cCCceEEEeeCCCCCCHHHHHHHHH
Confidence            33 5788999999999988665554

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

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.85  E-value=2e-21  Score=164.94  Aligned_cols=157  Identities=18%  Similarity=0.266  Sum_probs=116.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      +.+|+++|+||+|||||+|+|++.+.      .+....+.++...-...                .++....|.++||+|
T Consensus       178 ~ikiaiiGrPNvGKSsLiN~ilgeeR------~Iv~~~aGTTRD~I~~~----------------~e~~~~~~~liDTAG  235 (444)
T COG1160         178 PIKIAIIGRPNVGKSSLINAILGEER------VIVSDIAGTTRDSIDIE----------------FERDGRKYVLIDTAG  235 (444)
T ss_pred             ceEEEEEeCCCCCchHHHHHhccCce------EEecCCCCccccceeee----------------EEECCeEEEEEECCC
Confidence            45699999999999999999998775      35555544444432211                122233499999999


Q ss_pred             Ccc----------hHHH-HHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHH
Q psy6316         104 HES----------FSNL-RNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       104 ~~~----------~~~~-~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      ...          |... ....+..+|++++|+|++.+++.++...+..+.+.+.++++|+||||+... +....++...
T Consensus       236 iRrk~ki~e~~E~~Sv~rt~~aI~~a~vvllviDa~~~~~~qD~~ia~~i~~~g~~~vIvvNKWDl~~~-~~~~~~~~k~  314 (444)
T COG1160         236 IRRKGKITESVEKYSVARTLKAIERADVVLLVIDATEGISEQDLRIAGLIEEAGRGIVIVVNKWDLVEE-DEATMEEFKK  314 (444)
T ss_pred             CCcccccccceEEEeehhhHhHHhhcCEEEEEEECCCCchHHHHHHHHHHHHcCCCeEEEEEccccCCc-hhhHHHHHHH
Confidence            332          2211 234568899999999999999999999999999999999999999999853 2234555666


Q ss_pred             HHhhhhccccc-cccccccccCcceeEEeecC
Q psy6316         173 IIKSQESSVQT-HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       173 ~~~~~~~~~~~-~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+.+.....++ +++++||++|.|+..+++.+
T Consensus       315 ~i~~~l~~l~~a~i~~iSA~~~~~i~~l~~~i  346 (444)
T COG1160         315 KLRRKLPFLDFAPIVFISALTGQGLDKLFEAI  346 (444)
T ss_pred             HHHHHhccccCCeEEEEEecCCCChHHHHHHH
Confidence            66666666655 56689999999998866554

>cd04135 Tc10 TC10 subfamily

Probab=99.85  E-value=1.2e-21  Score=151.74  Aligned_cols=156  Identities=15%  Similarity=0.180  Sum_probs=103.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||++++.+..+...+.++....+.. .......     .             +   .+.+|||||+.
T Consensus         2 ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~-~~~~~~~-----~-------------~---~~~i~Dt~G~~   59 (174)
T cd04135           2 KCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAV-SVTVGGK-----Q-------------Y---LLGLYDTAGQE   59 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeeEE-EEEECCE-----E-------------E---EEEEEeCCCcc
Confidence            59999999999999999999887765544443322211 1111100     0             0   17899999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH--HHHHHHh--CCCCEEEEEecccccCcccccc-------hhhHHHHH
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE--SINILKS--KKTPFVVALNKIDRLYNWNTMN-------RRDVRDII  174 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~--~l~~~~~--~~~piivv~NK~D~~~~~~~~~-------~~~~~~~~  174 (259)
                      .+...+..+++.+|++++|+|.++..+.....  ++..+..  .+.|+++++||+|+........       ........
T Consensus        60 ~~~~~~~~~~~~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~  139 (174)
T cd04135          60 DYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQG  139 (174)
T ss_pred             cccccccccCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHH
Confidence            99888888899999999999998865555442  4444433  4789999999999864211000       00011222


Q ss_pred             hhhhccccc-cccccccccCcceeEEeecC
Q psy6316         175 KSQESSVQT-HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       175 ~~~~~~~~~-~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +......++ .++++||++|.|+++++..+
T Consensus       140 ~~~~~~~~~~~~~e~Sa~~~~gi~~~f~~~  169 (174)
T cd04135         140 QKLAKEIGAHCYVECSALTQKGLKTVFDEA  169 (174)
T ss_pred             HHHHHHcCCCEEEEecCCcCCCHHHHHHHH
Confidence            333333444 57789999999998866544

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.85  E-value=2.3e-21  Score=157.87  Aligned_cols=154  Identities=20%  Similarity=0.229  Sum_probs=104.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++++..+...+.+++.... .......     ...             +   .+.||||+|++
T Consensus         2 KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~d~~-~k~~~i~-----~~~-------------~---~l~I~Dt~G~~   59 (247)
T cd04143           2 RMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIEDFH-RKLYSIR-----GEV-------------Y---QLDILDTSGNH   59 (247)
T ss_pred             EEEEECcCCCCHHHHHHHHHcCCCCCCCCCChhHhE-EEEEEEC-----CEE-------------E---EEEEEECCCCh
Confidence            599999999999999999998887655444443111 0001000     000             1   28899999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh------------CCCCEEEEEecccccCcccccchhhHHH
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS------------KKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~------------~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      .|..++..++..+|++|+|+|+++..+.+... ++..+..            .+.|+++|+||+|+... .....+++.+
T Consensus        60 ~~~~~~~~~~~~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~-~~v~~~ei~~  138 (247)
T cd04143          60 PFPAMRRLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFP-REVQRDEVEQ  138 (247)
T ss_pred             hhhHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhc-cccCHHHHHH
Confidence            99888888889999999999998865554433 3333322            36899999999998632 1122233332


Q ss_pred             HHhhhhccccccccccccccCcceeEEeecCCC
Q psy6316         173 IIKSQESSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       173 ~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      .+.   ....+.++++||++|.|+++++..+..
T Consensus       139 ~~~---~~~~~~~~evSAktg~gI~elf~~L~~  168 (247)
T cd04143         139 LVG---GDENCAYFEVSAKKNSNLDEMFRALFS  168 (247)
T ss_pred             HHH---hcCCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            222   122567899999999999997766644

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

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

Probab=99.85  E-value=2.1e-21  Score=169.13  Aligned_cols=199  Identities=23%  Similarity=0.232  Sum_probs=120.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccC---CCCCCcceeeccccccCcccc-----ccccccccCCCCCCCCCCCCCCCCe
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQ---DGEAGGITQQIGATNVPADAI-----RENTKHVRGPGGEVGGPGPLEIPGL   96 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~   96 (259)
                      .+|+++|+.++|||||+.+|.+....   ....++++...+.........     .+........+..  +........+
T Consensus        10 ~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~i   87 (411)
T PRK04000         10 VNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNC--GSETELLRRV   87 (411)
T ss_pred             EEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCcccccccccccccc--ccccccccEE
Confidence            45999999999999999999654221   111123333332211111000     0000000000000  0000001249


Q ss_pred             EEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCC-CHHHHHHHHHHHhCCC-CEEEEEecccccCcccccchhhHHHHH
Q psy6316          97 LIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGL-EPQTIESINILKSKKT-PFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus        97 ~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~-~~~~~~~l~~~~~~~~-piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      +|||||||++|...+...+..+|++++|+|++++. ..++.+.+..+...+. |+++|+||+|+....   ......+.+
T Consensus        88 ~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l~~~~i~~iiVVlNK~Dl~~~~---~~~~~~~~i  164 (411)
T PRK04000         88 SFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLMALDIIGIKNIVIVQNKIDLVSKE---RALENYEQI  164 (411)
T ss_pred             EEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHHHHcCCCcEEEEEEeeccccch---hHHHHHHHH
Confidence            99999999999888888888999999999999876 6677777777777765 689999999997421   111112223


Q ss_pred             hhhhcc---ccccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHH
Q psy6316         175 KSQESS---VQTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVD  251 (259)
Q Consensus       175 ~~~~~~---~~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~  251 (259)
                      ..+...   ...+++++||++|.|++.                              .++.+.+.++.+.++.+.+|+|+
T Consensus       165 ~~~l~~~~~~~~~ii~vSA~~g~gI~~------------------------------L~~~L~~~l~~~~~~~~~~~r~~  214 (411)
T PRK04000        165 KEFVKGTVAENAPIIPVSALHKVNIDA------------------------------LIEAIEEEIPTPERDLDKPPRMY  214 (411)
T ss_pred             HHHhccccCCCCeEEEEECCCCcCHHH------------------------------HHHHHHHhCCCCCCCCCCCceEE
Confidence            333221   246788999999999843                              22223333455566678899999


Q ss_pred             HHHhhcc
Q psy6316         252 LKKVFQI  258 (259)
Q Consensus       252 i~~~~~~  258 (259)
                      |+++|+|
T Consensus       215 I~~~f~v  221 (411)
T PRK04000        215 VARSFDV  221 (411)
T ss_pred             EEeeeee
Confidence            9998864

>cd00157 Rho Rho (Ras homology) family

Probab=99.85  E-value=1.6e-21  Score=150.43  Aligned_cols=156  Identities=19%  Similarity=0.187  Sum_probs=102.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+++|++..+...+.++........ ....     ....                .+.+|||||++
T Consensus         2 ki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~-~~~~-----~~~~----------------~l~~~D~~g~~   59 (171)
T cd00157           2 KIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVFDNYSAT-VTVD-----GKQV----------------NLGLWDTAGQE   59 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeeEEE-EEEC-----CEEE----------------EEEEEeCCCcc
Confidence            499999999999999999998877444333332222111 1100     0011                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHhC--CCCEEEEEecccccCcccccch------hhHHHHHh
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKSK--KTPFVVALNKIDRLYNWNTMNR------RDVRDIIK  175 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~~--~~piivv~NK~D~~~~~~~~~~------~~~~~~~~  175 (259)
                      .+.......++.+|++++|+|+++..+....  .++..+...  +.|+++|+||+|+.........      .-......
T Consensus        60 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~  139 (171)
T cd00157          60 EYDRLRPLSYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHYCPNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGE  139 (171)
T ss_pred             cccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHH
Confidence            8877777778999999999999875444432  345444443  5999999999998754321100      00112222


Q ss_pred             hhhccccc-cccccccccCcceeEEeecC
Q psy6316         176 SQESSVQT-HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       176 ~~~~~~~~-~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ......++ .++++||++|.|+.+++..+
T Consensus       140 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  168 (171)
T cd00157         140 KLAKEIGAIGYMECSALTQEGVKEVFEEA  168 (171)
T ss_pred             HHHHHhCCeEEEEeecCCCCCHHHHHHHH
Confidence            33333344 78899999999998866544

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.85  E-value=2.4e-21  Score=148.35  Aligned_cols=151  Identities=17%  Similarity=0.144  Sum_probs=99.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+++++...+.....++....+... ...     ....+                .+.+|||||+.
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~-~~~-----~~~~~----------------~~~i~D~~g~~   59 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADSYRKK-VVL-----DGEDV----------------QLNILDTAGQE   59 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCccccCCcchhhEEEE-EEE-----CCEEE----------------EEEEEECCChh
Confidence            599999999999999999998776544333322111000 000     00001                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      .+...+..+++.+|++++|+|.+++.+.... .++..+..    .++|+++|+||+|+.... ......    .......
T Consensus        60 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~-~~~~~~----~~~~~~~  134 (164)
T cd04139          60 DYAAIRDNYHRSGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKR-QVSSEE----AANLARQ  134 (164)
T ss_pred             hhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEcccccccc-ccCHHH----HHHHHHH
Confidence            9999999999999999999998765433222 23232222    579999999999986411 111111    2222333


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ++.+++++||++|.|+++++..+
T Consensus       135 ~~~~~~~~Sa~~~~gi~~l~~~l  157 (164)
T cd04139         135 WGVPYVETSAKTRQNVEKAFYDL  157 (164)
T ss_pred             hCCeEEEeeCCCCCCHHHHHHHH
Confidence            45788999999999998865443

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

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.85  E-value=5.2e-21  Score=151.08  Aligned_cols=168  Identities=19%  Similarity=0.204  Sum_probs=106.3

Q ss_pred             hhhhhhhhhhhcCCCCcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCC
Q psy6316           3 AVFNKRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPG   82 (259)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (259)
                      +.|.++.....+.+..    ..++|+++|++|+|||||+|+|++..+........+.+.......             .+
T Consensus         7 ~~~~~~~~~~~~~~~~----~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~-------------~~   69 (196)
T PRK00454          7 AEFVTSAPKLEQLPPD----DGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFE-------------VN   69 (196)
T ss_pred             HHHHHhhccHhhCCCC----CCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEe-------------cC
Confidence            4566666555544443    246799999999999999999998653222111111111000000             00


Q ss_pred             CCCCCCCCCCCCCeEEEeCCCCc----------chHHHHHhhcc---CCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCE
Q psy6316          83 GEVGGPGPLEIPGLLIIDTPGHE----------SFSNLRNRGSS---LCDIAILVVDIMHGLEPQTIESINILKSKKTPF  149 (259)
Q Consensus        83 ~~~~~~~~~~~~~~~liDtpG~~----------~~~~~~~~~~~---~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pi  149 (259)
                                 .++.||||||+.          .+......++.   .++++++|+|++.+....+..+...+...+.|+
T Consensus        70 -----------~~l~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~i~~~l~~~~~~~  138 (196)
T PRK00454         70 -----------DKLRLVDLPGYGYAKVSKEEKEKWQKLIEEYLRTRENLKGVVLLIDSRHPLKELDLQMIEWLKEYGIPV  138 (196)
T ss_pred             -----------CeEEEeCCCCCCCcCCCchHHHHHHHHHHHHHHhCccceEEEEEEecCCCCCHHHHHHHHHHHHcCCcE
Confidence                       139999999952          33334444444   457889999988877766666667777788999


Q ss_pred             EEEEecccccCcccccchhhHHHHHhhhhccccccccccccccCcceeEEee
Q psy6316         150 VVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       150 ivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      ++++||+|+....   ..+.....+.+........++++||++|.|+++++.
T Consensus       139 iiv~nK~Dl~~~~---~~~~~~~~i~~~l~~~~~~~~~~Sa~~~~gi~~l~~  187 (196)
T PRK00454        139 LIVLTKADKLKKG---ERKKQLKKVRKALKFGDDEVILFSSLKKQGIDELRA  187 (196)
T ss_pred             EEEEECcccCCHH---HHHHHHHHHHHHHHhcCCceEEEEcCCCCCHHHHHH
Confidence            9999999997421   222333334444333356888999999999877543

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.85  E-value=4e-21  Score=148.00  Aligned_cols=149  Identities=19%  Similarity=0.161  Sum_probs=98.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|||||||+++|.+. +...+.++++    .......     ..                ...+.+|||||+.
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g----~~~~~~~-----~~----------------~~~~~i~D~~G~~   54 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVG----FTPTKLR-----LD----------------KYEVCIFDLGGGA   54 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCccc----ceEEEEE-----EC----------------CEEEEEEECCCcH
Confidence            3899999999999999999876 3222222222    1111100     00                1128999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHH--hhhh
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDII--KSQE  178 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~--~~~~  178 (259)
                      .+..++..+++.+|++++|+|+++..+... ..++..+..    .+.|+++|+||+|+....   ...++.+.+  ..+.
T Consensus        55 ~~~~~~~~~~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~---~~~~i~~~~~l~~~~  131 (167)
T cd04161          55 NFRGIWVNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNAL---LGADVIEYLSLEKLV  131 (167)
T ss_pred             HHHHHHHHHHcCCCEEEEEEECCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCC---CHHHHHHhcCccccc
Confidence            999999999999999999999987654443 334444432    368999999999987432   222333322  2222


Q ss_pred             c--cccccccccccccC------cceeEEeecC
Q psy6316         179 S--SVQTHKTVESARKG------QEICIKIEPI  203 (259)
Q Consensus       179 ~--~~~~~~i~~Sa~~g------~gv~~~l~~i  203 (259)
                      .  ...+.++++||++|      .|+.+.++++
T Consensus       132 ~~~~~~~~~~~~Sa~~g~~~~~~~g~~~~~~wl  164 (167)
T cd04161         132 NENKSLCHIEPCSAIEGLGKKIDPSIVEGLRWL  164 (167)
T ss_pred             CCCCceEEEEEeEceeCCCCccccCHHHHHHHH
Confidence            2  12456778999998      6777655444

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.

>KOG0079|consensus

Probab=99.85  E-value=1.2e-21  Score=140.74  Aligned_cols=150  Identities=17%  Similarity=0.176  Sum_probs=121.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +.+|+|.+|+|||||+-++....+...+..+++.+.-..+.+....+..                     +.||||+|++
T Consensus        10 kllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~Vk---------------------LqIwDtAGqE   68 (198)
T KOG0079|consen   10 KLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVK---------------------LQIWDTAGQE   68 (198)
T ss_pred             HHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEE---------------------EEEeecccHH
Confidence            3789999999999999999999888888778887777666665432222                     9999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHhC--CCCEEEEEecccccCcccccchhhHHHHHhhhhcccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKSK--KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ  182 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~~--~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~  182 (259)
                      .|..+...+++..+++++|+|++++.+..+ .+|+..++..  .+|-++|+||.|...-     +-........++...+
T Consensus        69 rFrtitstyyrgthgv~vVYDVTn~ESF~Nv~rWLeei~~ncdsv~~vLVGNK~d~~~R-----rvV~t~dAr~~A~~mg  143 (198)
T KOG0079|consen   69 RFRTITSTYYRGTHGVIVVYDVTNGESFNNVKRWLEEIRNNCDSVPKVLVGNKNDDPER-----RVVDTEDARAFALQMG  143 (198)
T ss_pred             HHHHHHHHHccCCceEEEEEECcchhhhHhHHHHHHHHHhcCccccceecccCCCCccc-----eeeehHHHHHHHHhcC
Confidence            999999999999999999999999888776 4577777764  5788999999998741     2223344566666778


Q ss_pred             ccccccccccCcceeEEee
Q psy6316         183 THKTVESARKGQEICIKIE  201 (259)
Q Consensus       183 ~~~i~~Sa~~g~gv~~~l~  201 (259)
                      +..|++||+...+++..+.
T Consensus       144 ie~FETSaKe~~NvE~mF~  162 (198)
T KOG0079|consen  144 IELFETSAKENENVEAMFH  162 (198)
T ss_pred             chheehhhhhcccchHHHH
Confidence            9999999999999977443

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

Probab=99.85  E-value=1.8e-21  Score=178.43  Aligned_cols=146  Identities=20%  Similarity=0.230  Sum_probs=101.0

Q ss_pred             CCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCC-CEEEEEecccccCcccccchhhH
Q psy6316          92 EIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKT-PFVVALNKIDRLYNWNTMNRRDV  170 (259)
Q Consensus        92 ~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~-piivv~NK~D~~~~~~~~~~~~~  170 (259)
                      ...++.|+|||||++|...+...+..+|++++|+|+..+...++.+++..+...++ ++++++||+|+.. ++....+.+
T Consensus       102 ~~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t~e~~~~~~~~~~~~iivvvNK~D~~~-~~~~~~~~i  180 (632)
T PRK05506        102 PKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTRRHSFIASLLGIRHVVLAVNKMDLVD-YDQEVFDEI  180 (632)
T ss_pred             CCceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccCHHHHHHHHHhCCCeEEEEEEeccccc-chhHHHHHH
Confidence            33459999999999998888888999999999999999888888888877777764 6888999999873 111122333


Q ss_pred             HHHHhhhhcccc---ccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhH
Q psy6316         171 RDIIKSQESSVQ---THKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQ  247 (259)
Q Consensus       171 ~~~~~~~~~~~~---~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~  247 (259)
                      ...+..+....+   .+++++||++|.|+.+.-    ...+|+.+      .        ..+++++. +..+.+..+.|
T Consensus       181 ~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~~~----~~~~wy~g------~--------tL~~~l~~-~~~~~~~~~~p  241 (632)
T PRK05506        181 VADYRAFAAKLGLHDVTFIPISALKGDNVVTRS----ARMPWYEG------P--------SLLEHLET-VEIASDRNLKD  241 (632)
T ss_pred             HHHHHHHHHHcCCCCccEEEEecccCCCccccc----cCCCcccH------h--------HHHHHHhc-CCCCCCcCCCC
Confidence            344443333333   468899999999998633    22344321      1        12233333 34455557889


Q ss_pred             HHHHHHHhhc
Q psy6316         248 LMVDLKKVFQ  257 (259)
Q Consensus       248 ~~~~i~~~~~  257 (259)
                      |+|+|+++|+
T Consensus       242 ~r~~i~~v~~  251 (632)
T PRK05506        242 FRFPVQYVNR  251 (632)
T ss_pred             ceeeEEEEEe
Confidence            9999998864

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.85  E-value=5e-21  Score=149.47  Aligned_cols=150  Identities=17%  Similarity=0.129  Sum_probs=96.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++|+|||||++++....+.. +.++.+..+    ....     ...                ..+.+|||||+
T Consensus        18 ~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~----~~~~-----~~~----------------~~~~l~D~~G~   71 (182)
T PTZ00133         18 VRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNV----ETVE-----YKN----------------LKFTMWDVGGQ   71 (182)
T ss_pred             cEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccce----EEEE-----ECC----------------EEEEEEECCCC
Confidence            459999999999999999997655532 212222111    0000     001                12999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHH-Hh---CCCCEEEEEecccccCcccccchhhHHHHHhhh-h
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINIL-KS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ-E  178 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~-~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~-~  178 (259)
                      +.+...+..+++.+|++|+|+|+++..+..+ ...+..+ ..   .+.|+++|+||.|+....   ...++...+... .
T Consensus        72 ~~~~~~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~---~~~~i~~~l~~~~~  148 (182)
T PTZ00133         72 DKLRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNAM---STTEVTEKLGLHSV  148 (182)
T ss_pred             HhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCCC---CHHHHHHHhCCCcc
Confidence            9999999999999999999999987533332 2223332 22   358999999999986321   122332322211 1


Q ss_pred             ccccccccccccccCcceeEEeecC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ....+.++++||++|.|+++++..+
T Consensus       149 ~~~~~~~~~~Sa~tg~gv~e~~~~l  173 (182)
T PTZ00133        149 RQRNWYIQGCCATTAQGLYEGLDWL  173 (182)
T ss_pred             cCCcEEEEeeeCCCCCCHHHHHHHH
Confidence            1223455689999999998865543

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.85  E-value=3.7e-21  Score=168.37  Aligned_cols=202  Identities=17%  Similarity=0.195  Sum_probs=129.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcccc---CCCCCCcceeeccccccCcccccccccccc--CCCC--------CCCCCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNV---QDGEAGGITQQIGATNVPADAIRENTKHVR--GPGG--------EVGGPGP   90 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~--------~~~~~~~   90 (259)
                      ..+|+++|+.++|||||+.+|.+...   .+...++++.+.|+.......-........  ..+.        .......
T Consensus        34 ~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  113 (460)
T PTZ00327         34 TINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCGHKM  113 (460)
T ss_pred             cEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccccccc
Confidence            45699999999999999999987543   333445566666655442100000000000  0000        0000001


Q ss_pred             CCCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCC-CCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchh
Q psy6316          91 LEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG-LEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRR  168 (259)
Q Consensus        91 ~~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~-~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~  168 (259)
                      .....+.|+|||||++|.+.+...+..+|++++|+|+.++ ...+..+++..+...+++ +|+++||+|+....   ...
T Consensus       114 ~~~~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~lgi~~iIVvlNKiDlv~~~---~~~  190 (460)
T PTZ00327        114 TLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIMKLKHIIILQNKIDLVKEA---QAQ  190 (460)
T ss_pred             cccceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHcCCCcEEEEEecccccCHH---HHH
Confidence            1123599999999999999999999999999999999886 677888888888777765 78999999997321   112


Q ss_pred             hHHHHHhhhhc---cccccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchh
Q psy6316         169 DVRDIIKSQES---SVQTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTD  245 (259)
Q Consensus       169 ~~~~~~~~~~~---~~~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~  245 (259)
                      +..+.+..+..   ....+++++||++|.|++.                              .++.+.+.++.+.++.+
T Consensus       191 ~~~~ei~~~l~~~~~~~~~iipVSA~~G~nI~~------------------------------Ll~~L~~~lp~~~r~~~  240 (460)
T PTZ00327        191 DQYEEIRNFVKGTIADNAPIIPISAQLKYNIDV------------------------------VLEYICTQIPIPKRDLT  240 (460)
T ss_pred             HHHHHHHHHHHhhccCCCeEEEeeCCCCCCHHH------------------------------HHHHHHhhCCCCCCCCC
Confidence            22223333221   1356889999999998743                              33334444555666667


Q ss_pred             hHHHHHHHHhhcc
Q psy6316         246 WQLMVDLKKVFQI  258 (259)
Q Consensus       246 ~~~~~~i~~~~~~  258 (259)
                      .+|+|+|+++|+|
T Consensus       241 ~p~r~~Idr~F~V  253 (460)
T PTZ00327        241 SPPRMIVIRSFDV  253 (460)
T ss_pred             CCcEEEEEEEEee
Confidence            7888888877754

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.85  E-value=3.1e-21  Score=152.71  Aligned_cols=156  Identities=18%  Similarity=0.189  Sum_probs=102.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++++..+...+..+... ..........     ..+                .+.||||||+.
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~~-~~~~~~~~~~-----~~~----------------~l~i~D~~G~~   58 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVEE-MHRKEYEVGG-----VSL----------------TLDILDTSGSY   58 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchhh-heeEEEEECC-----EEE----------------EEEEEECCCch
Confidence            3899999999999999999988765433222211 1000000000     001                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      .+..++..++..+|++++|+|+++..+..... ++..+..    .++|+++|+||+|+.............   +.....
T Consensus        59 ~~~~~~~~~~~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~---~~~~~~  135 (198)
T cd04147          59 SFPAMRKLSIQNSDAFALVYAVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDAL---STVELD  135 (198)
T ss_pred             hhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHH---HHHHhh
Confidence            99888888999999999999998755544332 2223322    478999999999986432111111111   111123


Q ss_pred             ccccccccccccCcceeEEeecCCCC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      ++..++++||++|.|+++++..+...
T Consensus       136 ~~~~~~~~Sa~~g~gv~~l~~~l~~~  161 (198)
T cd04147         136 WNCGFVETSAKDNENVLEVFKELLRQ  161 (198)
T ss_pred             cCCcEEEecCCCCCCHHHHHHHHHHH
Confidence            34577899999999999987776543

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.

>cd01898 Obg Obg subfamily

Probab=99.85  E-value=5.3e-21  Score=147.52  Aligned_cols=150  Identities=19%  Similarity=0.182  Sum_probs=91.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|||||||+|+|.+.......       ...++..+...     .+...+          ...+.||||||+.
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~-------~~~~t~~~~~~-----~~~~~~----------~~~~~l~DtpG~~   59 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIAD-------YPFTTLVPNLG-----VVRVDD----------GRSFVVADIPGLI   59 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccC-------CCccccCCcce-----EEEcCC----------CCeEEEEecCccc
Confidence            5999999999999999999875432111       00111111000     000000          0139999999963


Q ss_pred             c-------hHHHHHhhccCCCeEEEEEeCCCC-CCHHHHH-HHHHHHh-----CCCCEEEEEecccccCcccccchhhHH
Q psy6316         106 S-------FSNLRNRGSSLCDIAILVVDIMHG-LEPQTIE-SINILKS-----KKTPFVVALNKIDRLYNWNTMNRRDVR  171 (259)
Q Consensus       106 ~-------~~~~~~~~~~~ad~~i~v~d~~~~-~~~~~~~-~l~~~~~-----~~~piivv~NK~D~~~~~~~~~~~~~~  171 (259)
                      .       +...+...+..+|++++|+|+++. .+..... +...+..     .++|+++|+||+|+...      ....
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~------~~~~  133 (170)
T cd01898          60 EGASEGKGLGHRFLRHIERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDE------EELF  133 (170)
T ss_pred             CcccccCCchHHHHHHHHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCc------hhhH
Confidence            2       222333445679999999999876 3444433 4444433     36899999999998642      2222


Q ss_pred             HHHhhhhcc-ccccccccccccCcceeEEeecC
Q psy6316         172 DIIKSQESS-VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       172 ~~~~~~~~~-~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+...... ...+++++||++|.|+++++..+
T Consensus       134 ~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  166 (170)
T cd01898         134 ELLKELLKELWGKPVFPISALTGEGLDELLRKL  166 (170)
T ss_pred             HHHHHHHhhCCCCCEEEEecCCCCCHHHHHHHH
Confidence            223333333 35678899999999998865543

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.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.84  E-value=6.1e-21  Score=144.92  Aligned_cols=149  Identities=15%  Similarity=0.180  Sum_probs=99.0

Q ss_pred             EEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHES  106 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~  106 (259)
                      |+++|++|||||||+++|.+..+...+.++.+....    .+..     ..+                .+.+|||||+..
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~----~~~~-----~~~----------------~~~~~D~~g~~~   56 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMR----KVTK-----GNV----------------TLKVWDLGGQPR   56 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceE----EEEE-----CCE----------------EEEEEECCCCHh
Confidence            899999999999999999988765444333322111    0000     001                299999999999


Q ss_pred             hHHHHHhhccCCCeEEEEEeCCCCCCHH-HHHHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhh-hhcc
Q psy6316         107 FSNLRNRGSSLCDIAILVVDIMHGLEPQ-TIESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS-QESS  180 (259)
Q Consensus       107 ~~~~~~~~~~~ad~~i~v~d~~~~~~~~-~~~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~-~~~~  180 (259)
                      +...+..+++.+|++++|+|+++..... ...++..+..    .++|+++|+||+|+....   ...+....+.. ....
T Consensus        57 ~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~---~~~~~~~~~~~~~~~~  133 (159)
T cd04159          57 FRSMWERYCRGVNAIVYVVDAADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGAL---SVDELIEQMNLKSITD  133 (159)
T ss_pred             HHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCc---CHHHHHHHhCcccccC
Confidence            9999999999999999999997643322 1233333322    468999999999986321   11222222211 1112


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..++++++||++|.|+++++..+
T Consensus       134 ~~~~~~~~Sa~~~~gi~~l~~~l  156 (159)
T cd04159         134 REVSCYSISCKEKTNIDIVLDWL  156 (159)
T ss_pred             CceEEEEEEeccCCChHHHHHHH
Confidence            24577899999999998866544

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.

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.84  E-value=5.8e-21  Score=152.86  Aligned_cols=157  Identities=15%  Similarity=0.167  Sum_probs=106.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||++++.+..+...+.+++...+.. ....+.     ..+                .+.||||+|+
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~~-~~~~~~-----~~v----------------~L~iwDt~G~   59 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYTA-SFEIDK-----RRI----------------ELNMWDTSGS   59 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceEE-EEEECC-----EEE----------------EEEEEeCCCc
Confidence            359999999999999999999888766655555433321 011100     011                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-H-HHHHHHh--CCCCEEEEEecccccCcccccc-------hhhHHHH
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-E-SINILKS--KKTPFVVALNKIDRLYNWNTMN-------RRDVRDI  173 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~-~l~~~~~--~~~piivv~NK~D~~~~~~~~~-------~~~~~~~  173 (259)
                      +.|..++..+++.+|++|+|+|.++..+.... . |...+..  .+.|+++|+||+|+........       .....+.
T Consensus        60 e~~~~l~~~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~  139 (222)
T cd04173          60 SYYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFCPNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQ  139 (222)
T ss_pred             HHHHHHhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEECcccccchhhhhhhhhccCCccCHHH
Confidence            99999999999999999999999987666554 2 3333333  4689999999999864210000       0011223


Q ss_pred             Hhhhhccccc-cccccccccCcc-eeEEeecC
Q psy6316         174 IKSQESSVQT-HKTVESARKGQE-ICIKIEPI  203 (259)
Q Consensus       174 ~~~~~~~~~~-~~i~~Sa~~g~g-v~~~l~~i  203 (259)
                      .+.+....+. .++++||+++++ +.++|...
T Consensus       140 g~~~ak~~~~~~y~E~SAk~~~~~V~~~F~~~  171 (222)
T cd04173         140 GTVLAKQVGAVSYVECSSRSSERSVRDVFHVA  171 (222)
T ss_pred             HHHHHHHcCCCEEEEcCCCcCCcCHHHHHHHH
Confidence            3444445564 788999999885 88765443

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

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

Probab=99.84  E-value=2.1e-21  Score=147.83  Aligned_cols=143  Identities=25%  Similarity=0.241  Sum_probs=92.2

Q ss_pred             EEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCcchH
Q psy6316          29 VLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFS  108 (259)
Q Consensus        29 v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~  108 (259)
                      ++|.+|+|||||+|++.+........++.+       ........                .+....+.+|||||+..+.
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t-------~~~~~~~~----------------~~~~~~~~liDtpG~~~~~   57 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVT-------VEKKEGRF----------------KLGGKEIEIVDLPGTYSLS   57 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcc-------cccceEEE----------------eeCCeEEEEEECCCccccC
Confidence            589999999999999988754322221111       11110000                0011139999999987654


Q ss_pred             H------HHHhhc--cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         109 N------LRNRGS--SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       109 ~------~~~~~~--~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      .      .+..++  ..+|++++|+|+++.  .....++..+...++|+++|+||+|+....      ......+.+...
T Consensus        58 ~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~--~~~~~~~~~~~~~~~~~iiv~NK~Dl~~~~------~~~~~~~~~~~~  129 (158)
T cd01879          58 PYSEDEKVARDFLLGEKPDLIVNVVDATNL--ERNLYLTLQLLELGLPVVVALNMIDEAEKR------GIKIDLDKLSEL  129 (158)
T ss_pred             CCChhHHHHHHHhcCCCCcEEEEEeeCCcc--hhHHHHHHHHHHcCCCEEEEEehhhhcccc------cchhhHHHHHHh
Confidence            3      234444  499999999999763  233455666677889999999999997432      111122333344


Q ss_pred             ccccccccccccCcceeEEeec
Q psy6316         181 VQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ++.+++++||++|.|+..++..
T Consensus       130 ~~~~~~~iSa~~~~~~~~l~~~  151 (158)
T cd01879         130 LGVPVVPTSARKGEGIDELKDA  151 (158)
T ss_pred             hCCCeEEEEccCCCCHHHHHHH
Confidence            4678899999999999875443

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.

>cd04148 RGK RGK subfamily

Probab=99.84  E-value=4.2e-21  Score=154.35  Aligned_cols=151  Identities=15%  Similarity=0.113  Sum_probs=96.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccC-CCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQ-DGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      +|+++|.+|+|||||++++....+. ..+..+.+.+....+..+..     ..                ..+.+|||||+
T Consensus         2 KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~-----~~----------------~~l~i~Dt~G~   60 (221)
T cd04148           2 RVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDG-----EE----------------STLVVIDHWEQ   60 (221)
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECC-----EE----------------EEEEEEeCCCc
Confidence            5999999999999999999876664 22222222111111111110     00                12899999998


Q ss_pred             cchHHHHHhhcc-CCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         105 ESFSNLRNRGSS-LCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       105 ~~~~~~~~~~~~-~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      +.  .....++. .+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+.... ...    .+..+.+.
T Consensus        61 ~~--~~~~~~~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~-~v~----~~~~~~~a  133 (221)
T cd04148          61 EM--WTEDSCMQYQGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSR-EVS----VQEGRACA  133 (221)
T ss_pred             ch--HHHhHHhhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccc-eec----HHHHHHHH
Confidence            83  22334556 89999999999886554433 34444443    368999999999986421 111    11122333


Q ss_pred             ccccccccccccccCcceeEEeecCC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ...++.++++||++|.|++++++.+.
T Consensus       134 ~~~~~~~~e~SA~~~~gv~~l~~~l~  159 (221)
T cd04148         134 VVFDCKFIETSAGLQHNVDELLEGIV  159 (221)
T ss_pred             HHcCCeEEEecCCCCCCHHHHHHHHH
Confidence            44467788999999999998766553

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

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.84  E-value=2.2e-21  Score=150.39  Aligned_cols=157  Identities=18%  Similarity=0.168  Sum_probs=101.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ++|+++|++|+|||||++++.+..+...+.+++...+.. ......     ..+                .+.+|||||+
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~-~~~~~~-----~~~----------------~l~i~Dt~G~   59 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDG-----KQV----------------ELALWDTAGQ   59 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccceEE-EEEECC-----EEE----------------EEEEEeCCCc
Confidence            469999999999999999999887755443333322210 000000     001                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHh--CCCCEEEEEecccccCcccccc-------hhhHHHH
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKS--KKTPFVVALNKIDRLYNWNTMN-------RRDVRDI  173 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~--~~~piivv~NK~D~~~~~~~~~-------~~~~~~~  173 (259)
                      +.+...+..++..+|++++|+|+++..+....  .++..+..  .+.|+++|+||+|+...+....       .......
T Consensus        60 ~~~~~~~~~~~~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~  139 (175)
T cd01870          60 EDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEE  139 (175)
T ss_pred             hhhhhccccccCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhcccChhhhhhhhhccCCCccHHH
Confidence            99888877888999999999999875444333  24444443  4789999999999864211000       0000111


Q ss_pred             Hhhhhcccc-ccccccccccCcceeEEeecC
Q psy6316         174 IKSQESSVQ-THKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       174 ~~~~~~~~~-~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+++....+ +.++++||++|.|+++++..+
T Consensus       140 ~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l  170 (175)
T cd01870         140 GRDMANKIGAFGYMECSAKTKEGVREVFEMA  170 (175)
T ss_pred             HHHHHHHcCCcEEEEeccccCcCHHHHHHHH
Confidence            222222223 467899999999998876554

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

>cd00879 Sar1 Sar1 subfamily

Probab=99.84  E-value=4.4e-21  Score=150.82  Aligned_cols=153  Identities=19%  Similarity=0.156  Sum_probs=100.6

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      .+..+|+++|++|+|||||+++|.+..+.. +.++.....+    ..     ...                ...+.+|||
T Consensus        17 ~~~~ki~ilG~~~~GKStLi~~l~~~~~~~-~~~T~~~~~~----~i-----~~~----------------~~~~~l~D~   70 (190)
T cd00879          17 NKEAKILFLGLDNAGKTTLLHMLKDDRLAQ-HVPTLHPTSE----EL-----TIG----------------NIKFKTFDL   70 (190)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCcc-cCCccCcceE----EE-----EEC----------------CEEEEEEEC
Confidence            345679999999999999999998776532 1111111100    00     000                012899999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHH-HHHHHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQ-TIESINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~-~~~~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      ||+..+...+..++..+|++++|+|+++..+.. ....+..+.    ..+.|+++++||+|+...   ...+++.+.+..
T Consensus        71 ~G~~~~~~~~~~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~~---~~~~~~~~~~~~  147 (190)
T cd00879          71 GGHEQARRLWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPGA---VSEEELRQALGL  147 (190)
T ss_pred             CCCHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCCC---cCHHHHHHHhCc
Confidence            999999888889999999999999998653322 222333332    246899999999998632   223444444432


Q ss_pred             hh------------ccccccccccccccCcceeEEeecC
Q psy6316         177 QE------------SSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       177 ~~------------~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..            ....+.++++||++|+|+++.+..+
T Consensus       148 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~e~~~~l  186 (190)
T cd00879         148 YGTTTGKGVSLKVSGIRPIEVFMCSVVKRQGYGEAFRWL  186 (190)
T ss_pred             ccccccccccccccCceeEEEEEeEecCCCChHHHHHHH
Confidence            11            1123567899999999998866554

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.84  E-value=2.5e-21  Score=145.10  Aligned_cols=134  Identities=16%  Similarity=0.098  Sum_probs=86.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||+|+|.+..+.  +..+.         ..                     .+.   -.+|||||+.
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~~--~~~t~---------~~---------------------~~~---~~~iDt~G~~   46 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEIL--YKKTQ---------AV---------------------EYN---DGAIDTPGEY   46 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCccc--cccce---------eE---------------------EEc---CeeecCchhh
Confidence            5999999999999999999876531  00000         00                     010   3689999962


Q ss_pred             ----chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 ----SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ----~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                          .+.......++.+|++++|+|++++.+.....++..   ...|+++|+||+|+...  ...    .+..+++....
T Consensus        47 ~~~~~~~~~~~~~~~~ad~vilv~d~~~~~s~~~~~~~~~---~~~p~ilv~NK~Dl~~~--~~~----~~~~~~~~~~~  117 (142)
T TIGR02528        47 VENRRLYSALIVTAADADVIALVQSATDPESRFPPGFASI---FVKPVIGLVTKIDLAEA--DVD----IERAKELLETA  117 (142)
T ss_pred             hhhHHHHHHHHHHhhcCCEEEEEecCCCCCcCCChhHHHh---ccCCeEEEEEeeccCCc--ccC----HHHHHHHHHHc
Confidence                222222235789999999999988776555444332   24599999999998631  111    12222222223


Q ss_pred             cc-cccccccccCcceeEEeecC
Q psy6316         182 QT-HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       182 ~~-~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +. +++++||++|.|+++++..+
T Consensus       118 ~~~~~~~~Sa~~~~gi~~l~~~l  140 (142)
T TIGR02528       118 GAEPIFEISSVDEQGLEALVDYL  140 (142)
T ss_pred             CCCcEEEEecCCCCCHHHHHHHH
Confidence            33 67899999999998766543

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.84  E-value=4.7e-21  Score=168.92  Aligned_cols=157  Identities=18%  Similarity=0.269  Sum_probs=106.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+|+|++....      +......++........                ......+.+|||||
T Consensus       172 ~~~v~ivG~~~~GKSsLin~l~~~~~~------~~~~~~gtt~~~~~~~~----------------~~~~~~~~liDT~G  229 (429)
T TIGR03594       172 PIKIAIIGRPNVGKSTLVNALLGEERV------IVSDIAGTTRDSIDIPF----------------ERNGKKYLLIDTAG  229 (429)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCee------ecCCCCCceECcEeEEE----------------EECCcEEEEEECCC
Confidence            456999999999999999999976532      11111111111110000                00111399999999


Q ss_pred             CcchHHH-----------HHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHH
Q psy6316         104 HESFSNL-----------RNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       104 ~~~~~~~-----------~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      +.++...           ...+++.+|++|+|+|++++.+.++..++..+...+.|+++|+||+|+..  .....++...
T Consensus       230 ~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilV~D~~~~~~~~~~~~~~~~~~~~~~iiiv~NK~Dl~~--~~~~~~~~~~  307 (429)
T TIGR03594       230 IRRKGKVTEGVEKYSVLRTLKAIERADVVLLVLDATEGITEQDLRIAGLILEAGKALVIVVNKWDLVK--DEKTREEFKK  307 (429)
T ss_pred             ccccccchhhHHHHHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHcCCcEEEEEECcccCC--CHHHHHHHHH
Confidence            6443211           13467899999999999999999999998888888999999999999972  1112334444


Q ss_pred             HHhhhhccc-cccccccccccCcceeEEeecCC
Q psy6316         173 IIKSQESSV-QTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       173 ~~~~~~~~~-~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      .+....... ..+++++||++|.|+.+++..+.
T Consensus       308 ~~~~~~~~~~~~~vi~~SA~~g~~v~~l~~~i~  340 (429)
T TIGR03594       308 ELRRKLPFLDFAPIVFISALTGQGVDKLLDAID  340 (429)
T ss_pred             HHHHhcccCCCCceEEEeCCCCCCHHHHHHHHH
Confidence            444333332 36788999999999998665553

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.

>cd01894 EngA1 EngA1 subfamily

Probab=99.84  E-value=4.4e-21  Score=145.75  Aligned_cols=144  Identities=21%  Similarity=0.257  Sum_probs=95.6

Q ss_pred             EEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCcch
Q psy6316          28 CVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESF  107 (259)
Q Consensus        28 ~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~  107 (259)
                      +++|.+|+|||||+|+|++......      .....++.......     .           ......+.+|||||+..+
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~------~~~~~~t~~~~~~~-----~-----------~~~~~~~~i~DtpG~~~~   58 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIV------EDTPGVTRDRIYGE-----A-----------EWGGREFILIDTGGIEPD   58 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEee------cCCCCceeCceeEE-----E-----------EECCeEEEEEECCCCCCc
Confidence            5899999999999999987643210      00111111100000     0           011123999999998775


Q ss_pred             HH--------HHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         108 SN--------LRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       108 ~~--------~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ..        .+...++.+|++++|+|+.++.+..+..+...++..+.|+++|+||+|+...      ......+..   
T Consensus        59 ~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~------~~~~~~~~~---  129 (157)
T cd01894          59 DEGISKEIREQAELAIEEADVILFVVDGREGLTPADEEIAKYLRKSKKPVILVVNKVDNIKE------EDEAAEFYS---  129 (157)
T ss_pred             hhHHHHHHHHHHHHHHHhCCEEEEEEeccccCCccHHHHHHHHHhcCCCEEEEEECcccCCh------HHHHHHHHh---
Confidence            43        3345678899999999998877777777778888888999999999999742      111122221   


Q ss_pred             cccc-cccccccccCcceeEEeecC
Q psy6316         180 SVQT-HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~-~~i~~Sa~~g~gv~~~l~~i  203 (259)
                       .+. +++++||++|.|+++++..+
T Consensus       130 -~~~~~~~~~Sa~~~~gv~~l~~~l  153 (157)
T cd01894         130 -LGFGEPIPISAEHGRGIGDLLDAI  153 (157)
T ss_pred             -cCCCCeEEEecccCCCHHHHHHHH
Confidence             223 67899999999998866544

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.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.84  E-value=2e-21  Score=149.29  Aligned_cols=151  Identities=17%  Similarity=0.190  Sum_probs=95.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||+++++...+...+.++...... .....     ....+                .+.+|||||+.
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~~-~~~~~-----~~~~~----------------~~~i~D~~g~~   58 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLYS-RQVTI-----DGEQV----------------SLEILDTAGQQ   58 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHhce-EEEEE-----CCEEE----------------EEEEEECCCCc
Confidence            4899999999999999999876654333232211110 00000     00001                28899999988


Q ss_pred             c-hHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH-----hCCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         106 S-FSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK-----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       106 ~-~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~-----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      . +...+..+++.+|++++|+|+++..+..... ++..+.     ..+.|+++|+||+|+.... ....    +....+.
T Consensus        59 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-~v~~----~~~~~~~  133 (165)
T cd04146          59 QADTEQLERSIRWADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYR-QVST----EEGEKLA  133 (165)
T ss_pred             ccccchHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhC-ccCH----HHHHHHH
Confidence            5 3445667889999999999998865555433 333333     2378999999999985321 1111    1222233


Q ss_pred             ccccccccccccccCc-ceeEEeecC
Q psy6316         179 SSVQTHKTVESARKGQ-EICIKIEPI  203 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~-gv~~~l~~i  203 (259)
                      ...+.+++++||++|. |+++++..+
T Consensus       134 ~~~~~~~~e~Sa~~~~~~v~~~f~~l  159 (165)
T cd04146         134 SELGCLFFEVSAAEDYDGVHSVFHEL  159 (165)
T ss_pred             HHcCCEEEEeCCCCCchhHHHHHHHH
Confidence            3345678899999995 888866544

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

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.84  E-value=1.4e-20  Score=167.20  Aligned_cols=157  Identities=18%  Similarity=0.253  Sum_probs=104.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+|+|++....      .......++........                .+....+.||||||
T Consensus       211 ~~kI~iiG~~nvGKSSLin~l~~~~~~------~~s~~~gtT~d~~~~~~----------------~~~~~~~~l~DTaG  268 (472)
T PRK03003        211 PRRVALVGKPNVGKSSLLNKLAGEERS------VVDDVAGTTVDPVDSLI----------------ELGGKTWRFVDTAG  268 (472)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCcc------cccCCCCccCCcceEEE----------------EECCEEEEEEECCC
Confidence            467999999999999999999987642      11111112221111000                01111289999999


Q ss_pred             Cc----------chHHHH-HhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHH
Q psy6316         104 HE----------SFSNLR-NRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       104 ~~----------~~~~~~-~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      ..          .|.... ..+++.+|++++|+|++++.+.++..++..+...++|+|+|+||+|+....   .......
T Consensus       269 ~~~~~~~~~~~e~~~~~~~~~~i~~ad~vilV~Da~~~~s~~~~~~~~~~~~~~~piIiV~NK~Dl~~~~---~~~~~~~  345 (472)
T PRK03003        269 LRRRVKQASGHEYYASLRTHAAIEAAEVAVVLIDASEPISEQDQRVLSMVIEAGRALVLAFNKWDLVDED---RRYYLER  345 (472)
T ss_pred             ccccccccchHHHHHHHHHHHHHhcCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECcccCChh---HHHHHHH
Confidence            52          222222 235689999999999999999999888888888899999999999997421   1122223


Q ss_pred             HHhhhhcc-ccccccccccccCcceeEEeecCCC
Q psy6316         173 IIKSQESS-VQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       173 ~~~~~~~~-~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      .+...... ...+++++||++|.|+++++..+..
T Consensus       346 ~i~~~l~~~~~~~~~~~SAk~g~gv~~lf~~i~~  379 (472)
T PRK03003        346 EIDRELAQVPWAPRVNISAKTGRAVDKLVPALET  379 (472)
T ss_pred             HHHHhcccCCCCCEEEEECCCCCCHHHHHHHHHH
Confidence            33332222 2356788999999999987766643

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.84  E-value=2e-20  Score=150.14  Aligned_cols=170  Identities=21%  Similarity=0.186  Sum_probs=105.9

Q ss_pred             EEEEeeCCCChhHHHhHHhccccCCCCCCcce--------eecccccc----CccccccccccccCCCCCC----CCCCC
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTNVQDGEAGGIT--------QQIGATNV----PADAIRENTKHVRGPGGEV----GGPGP   90 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~--------~~~~~~~~----~~~~~~~~~~~~~~~~~~~----~~~~~   90 (259)
                      |+++|+.++|||||+++|....+..+......        ...|.+..    ...... ....+.+.....    .....
T Consensus         2 v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~-~~~~~~~~~~~~~~~~~~~~~   80 (224)
T cd04165           2 VAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDS-DGEVVNYPDNHLSESDIEICE   80 (224)
T ss_pred             EEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCC-CCceecCCCCccccccceeee
Confidence            89999999999999999987666543321110        00011100    000000 000000000000    00011


Q ss_pred             CCCCCeEEEeCCCCcchHHHHHhhcc--CCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchh
Q psy6316          91 LEIPGLLIIDTPGHESFSNLRNRGSS--LCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRR  168 (259)
Q Consensus        91 ~~~~~~~liDtpG~~~~~~~~~~~~~--~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~  168 (259)
                      .....++|+|||||.+|.......+.  .+|++++|+|+..+...++.+++..+...++|+++|+||+|+....   ...
T Consensus        81 ~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~~~~ip~ivvvNK~D~~~~~---~~~  157 (224)
T cd04165          81 KSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLALALNIPVFVVVTKIDLAPAN---ILQ  157 (224)
T ss_pred             eCCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEECccccCHH---HHH
Confidence            22335999999999999888777764  7999999999999999999999999999999999999999986321   222


Q ss_pred             hHHHHHhhhhcc--------------------------ccccccccccccCcceeEEe
Q psy6316         169 DVRDIIKSQESS--------------------------VQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       169 ~~~~~~~~~~~~--------------------------~~~~~i~~Sa~~g~gv~~~l  200 (259)
                      .....+......                          ...+++.+||.+|+|++.+.
T Consensus       158 ~~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~  215 (224)
T cd04165         158 ETLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLH  215 (224)
T ss_pred             HHHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHH
Confidence            333333322221                          12366788999999987744

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

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.84  E-value=7.8e-21  Score=171.86  Aligned_cols=107  Identities=29%  Similarity=0.395  Sum_probs=81.9

Q ss_pred             eEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316          96 LLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus        96 ~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      ++|||||||.+|...+..+++.+|++|+|+|++++.+.++...+..+...+.|+++|+||+|+...    ..+.....+.
T Consensus        72 l~liDTPG~~dF~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~~~ipiIiViNKiDl~~~----~~~~~~~el~  147 (595)
T TIGR01393        72 LNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALENDLEIIPVINKIDLPSA----DPERVKKEIE  147 (595)
T ss_pred             EEEEECCCcHHHHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHHcCCCEEEEEECcCCCcc----CHHHHHHHHH
Confidence            899999999999999999999999999999999988888887777777788999999999998632    1222223333


Q ss_pred             hhhccccccccccccccCcceeEEeecCCCC
Q psy6316         176 SQESSVQTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       176 ~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      .........++++||++|.|+++++..+...
T Consensus       148 ~~lg~~~~~vi~vSAktG~GI~~Lle~I~~~  178 (595)
T TIGR01393       148 EVIGLDASEAILASAKTGIGIEEILEAIVKR  178 (595)
T ss_pred             HHhCCCcceEEEeeccCCCCHHHHHHHHHHh
Confidence            3222111246899999999998866655443

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.

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

Probab=99.84  E-value=1.5e-20  Score=150.98  Aligned_cols=106  Identities=25%  Similarity=0.349  Sum_probs=76.5

Q ss_pred             CCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCC-------CCHHHHHHHHHHHhCC-CCEEEEEecccccCc-cc
Q psy6316          93 IPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG-------LEPQTIESINILKSKK-TPFVVALNKIDRLYN-WN  163 (259)
Q Consensus        93 ~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~-------~~~~~~~~l~~~~~~~-~piivv~NK~D~~~~-~~  163 (259)
                      ...+.+|||||+.+|...+...++.+|++++|+|++++       ...+..+.+......+ .|+++++||+|+... +.
T Consensus        76 ~~~i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiivvNK~Dl~~~~~~  155 (219)
T cd01883          76 KYRFTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLARTLGVKQLIVAVNKMDDVTVNWS  155 (219)
T ss_pred             CeEEEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHHHcCCCeEEEEEEcccccccccc
Confidence            33599999999998888888888999999999999873       3445566666666666 678999999999732 11


Q ss_pred             ccchhhHHHHHhhhhccc-----cccccccccccCcceeE
Q psy6316         164 TMNRRDVRDIIKSQESSV-----QTHKTVESARKGQEICI  198 (259)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~-----~~~~i~~Sa~~g~gv~~  198 (259)
                      ......+.+.++......     +++++++||++|.|+.+
T Consensus       156 ~~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~~  195 (219)
T cd01883         156 EERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLIE  195 (219)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCCc
Confidence            122334444444333332     36789999999999985

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

>KOG0093|consensus

Probab=99.84  E-value=5.9e-21  Score=137.07  Aligned_cols=161  Identities=16%  Similarity=0.152  Sum_probs=117.4

Q ss_pred             cCCCCcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCC
Q psy6316          14 ENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEI   93 (259)
Q Consensus        14 ~~~~~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (259)
                      ..++.++-|-  ++.++|.+.+|||||+.+.++..+.....++++.+....+.-     .....+               
T Consensus        13 s~dqnFDymf--KlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvy-----r~~kRi---------------   70 (193)
T KOG0093|consen   13 SIDQNFDYMF--KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVY-----RSDKRI---------------   70 (193)
T ss_pred             ccccccccee--eEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEee-----ecccEE---------------
Confidence            4455554443  799999999999999999999988766555555443322111     111111               


Q ss_pred             CCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH---hCCCCEEEEEecccccCcccccchhh
Q psy6316          94 PGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK---SKKTPFVVALNKIDRLYNWNTMNRRD  169 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~---~~~~piivv~NK~D~~~~~~~~~~~~  169 (259)
                       ++++|||+|++.|+.....++++++++|+++|.++..+....+ +.-+++   ..+.|+|+|.||||+. ++...    
T Consensus        71 -klQiwDTagqEryrtiTTayyRgamgfiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd-~eRvi----  144 (193)
T KOG0093|consen   71 -KLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMD-SERVI----  144 (193)
T ss_pred             -EEEEEecccchhhhHHHHHHhhccceEEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCc-cceee----
Confidence             2999999999999999999999999999999999876665544 444444   3589999999999986 32222    


Q ss_pred             HHHHHhhhhccccccccccccccCcceeEEeec
Q psy6316         170 VRDIIKSQESSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       170 ~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ..+....+...+++.++++||+.+-++..++.+
T Consensus       145 s~e~g~~l~~~LGfefFEtSaK~NinVk~~Fe~  177 (193)
T KOG0093|consen  145 SHERGRQLADQLGFEFFETSAKENINVKQVFER  177 (193)
T ss_pred             eHHHHHHHHHHhChHHhhhcccccccHHHHHHH
Confidence            234455566677899999999999888775543

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.84  E-value=4.7e-20  Score=145.57  Aligned_cols=154  Identities=15%  Similarity=0.118  Sum_probs=104.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+++|||||++++.+..+...+.++++..+................+                .+.||||+|++
T Consensus         2 KIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~----------------~l~IwDtaG~e   65 (202)
T cd04102           2 RVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTF----------------FVELWDVGGSE   65 (202)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEE----------------EEEEEecCCch
Confidence            59999999999999999999988876665555533321111110000000011                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----------------------CCCCEEEEEecccccCcc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----------------------KKTPFVVALNKIDRLYNW  162 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----------------------~~~piivv~NK~D~~~~~  162 (259)
                      .|..++..+++.+|++|+|+|.++..+..... |+..+..                      .+.|+++|+||+|+... 
T Consensus        66 ~~~~l~~~~yr~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~-  144 (202)
T cd04102          66 SVKSTRAVFYNQVNGIILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPE-  144 (202)
T ss_pred             hHHHHHHHHhCcCCEEEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhh-
Confidence            99999999999999999999999987766654 5555533                      25899999999998632 


Q ss_pred             cccchhhHHHHHhhhhccccccccccccccCcce
Q psy6316         163 NTMNRRDVRDIIKSQESSVQTHKTVESARKGQEI  196 (259)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv  196 (259)
                      ..............++..++.+.+..+|..+..+
T Consensus       145 r~~~~~~~~~~~~~ia~~~~~~~i~~~c~~~~~~  178 (202)
T cd04102         145 KESSGNLVLTARGFVAEQGNAEEINLNCTNGRLL  178 (202)
T ss_pred             cccchHHHhhHhhhHHHhcCCceEEEecCCcccc
Confidence            2222233333344556666777777777766544

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.

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.84  E-value=1.2e-20  Score=166.04  Aligned_cols=145  Identities=25%  Similarity=0.241  Sum_probs=96.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+|+|++....      +......++.........                +....+.+|||||+
T Consensus       216 ~kV~ivG~~nvGKSSLln~L~~~~~a------~v~~~~gtT~d~~~~~i~----------------~~g~~i~l~DT~G~  273 (449)
T PRK05291        216 LKVVIAGRPNVGKSSLLNALLGEERA------IVTDIAGTTRDVIEEHIN----------------LDGIPLRLIDTAGI  273 (449)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCc------ccCCCCCcccccEEEEEE----------------ECCeEEEEEeCCCC
Confidence            56999999999999999999876532      111111122211111000                01113999999997


Q ss_pred             cchHHH--------HHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         105 ESFSNL--------RNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       105 ~~~~~~--------~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      .++...        ...++..+|++++|+|++++.+..+...+..  ..+.|+++|+||+|+....      ...     
T Consensus       274 ~~~~~~ie~~gi~~~~~~~~~aD~il~VvD~s~~~s~~~~~~l~~--~~~~piiiV~NK~DL~~~~------~~~-----  340 (449)
T PRK05291        274 RETDDEVEKIGIERSREAIEEADLVLLVLDASEPLTEEDDEILEE--LKDKPVIVVLNKADLTGEI------DLE-----  340 (449)
T ss_pred             CCCccHHHHHHHHHHHHHHHhCCEEEEEecCCCCCChhHHHHHHh--cCCCCcEEEEEhhhccccc------hhh-----
Confidence            654322        2346789999999999988777666555554  4578999999999997321      111     


Q ss_pred             hhccccccccccccccCcceeEEeecCCCC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                        .....+++++||++|.|+++++..+...
T Consensus       341 --~~~~~~~i~iSAktg~GI~~L~~~L~~~  368 (449)
T PRK05291        341 --EENGKPVIRISAKTGEGIDELREAIKEL  368 (449)
T ss_pred             --hccCCceEEEEeeCCCCHHHHHHHHHHH
Confidence              2234577899999999999977766443

>cd01895 EngA2 EngA2 subfamily

Probab=99.84  E-value=2.2e-20  Score=144.10  Aligned_cols=155  Identities=16%  Similarity=0.213  Sum_probs=98.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      +.+|+++|.+|+|||||+|+|++.......      ....++.......     .           .....++.+|||||
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~------~~~~~~~~~~~~~-----~-----------~~~~~~~~iiDtpG   59 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVS------DIAGTTRDSIDVP-----F-----------EYDGKKYTLIDTAG   59 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceecc------CCCCCccCceeeE-----E-----------EECCeeEEEEECCC
Confidence            356999999999999999999876532111      1111111100000     0           01111389999999


Q ss_pred             CcchH-----------HHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHH
Q psy6316         104 HESFS-----------NLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       104 ~~~~~-----------~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      +....           ......+..+|++++|+|++++.+.....++..+...+.|+++++||+|+.... ....+...+
T Consensus        60 ~~~~~~~~~~~e~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~-~~~~~~~~~  138 (174)
T cd01895          60 IRRKGKVEEGIEKYSVLRTLKAIERADVVLLVIDATEGITEQDLRIAGLILEEGKALVIVVNKWDLVEKD-SKTMKEFKK  138 (174)
T ss_pred             CccccchhccHHHHHHHHHHHHHhhcCeEEEEEeCCCCcchhHHHHHHHHHhcCCCEEEEEeccccCCcc-HHHHHHHHH
Confidence            64321           112235678999999999998878777777777777889999999999987431 012222333


Q ss_pred             HHhhhhccc-cccccccccccCcceeEEee
Q psy6316         173 IIKSQESSV-QTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       173 ~~~~~~~~~-~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      .+.+..... ..+++++||++|.|+++++.
T Consensus       139 ~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~  168 (174)
T cd01895         139 EIRRKLPFLDYAPIVFISALTGQGVDKLFD  168 (174)
T ss_pred             HHHhhcccccCCceEEEeccCCCCHHHHHH
Confidence            333332222 35788999999999877543

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.

>PRK04213 GTP-binding protein; Provisional

Probab=99.83  E-value=9.9e-21  Score=150.18  Aligned_cols=149  Identities=26%  Similarity=0.317  Sum_probs=92.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      .++|+++|.+|+|||||+|+|.+..+.....++.      + ......                    ...++.+|||||
T Consensus         9 ~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~------t-~~~~~~--------------------~~~~~~l~Dt~G   61 (201)
T PRK04213          9 KPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGV------T-RKPNHY--------------------DWGDFILTDLPG   61 (201)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCccCCCCce------e-eCceEE--------------------eecceEEEeCCc
Confidence            3569999999999999999998876533222111      1 111100                    001299999999


Q ss_pred             C-----------cchHHHHHhhc----cCCCeEEEEEeCCCCC-----------CHHHHHHHHHHHhCCCCEEEEEeccc
Q psy6316         104 H-----------ESFSNLRNRGS----SLCDIAILVVDIMHGL-----------EPQTIESINILKSKKTPFVVALNKID  157 (259)
Q Consensus       104 ~-----------~~~~~~~~~~~----~~ad~~i~v~d~~~~~-----------~~~~~~~l~~~~~~~~piivv~NK~D  157 (259)
                      .           +.+...+..++    ..++++++|+|+++..           ...+.+++..+...++|+++|+||+|
T Consensus        62 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~p~iiv~NK~D  141 (201)
T PRK04213         62 FGFMSGVPKEVQEKIKDEIVRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRELGIPPIVAVNKMD  141 (201)
T ss_pred             cccccccCHHHHHHHHHHHHHHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHHcCCCeEEEEECcc
Confidence            3           44554444443    4578999999986531           12334556666677899999999999


Q ss_pred             ccCcccccchhhHHHHHhhhhcc------ccccccccccccCcceeEEeecCCC
Q psy6316         158 RLYNWNTMNRRDVRDIIKSQESS------VQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       158 ~~~~~~~~~~~~~~~~~~~~~~~------~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      +....     .+....+......      ++.+++++||++| |+++++..+..
T Consensus       142 l~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~  189 (201)
T PRK04213        142 KIKNR-----DEVLDEIAERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRK  189 (201)
T ss_pred             ccCcH-----HHHHHHHHHHhcCCccccccCCcEEEEecccC-CHHHHHHHHHH
Confidence            86321     1112222221111      1125789999999 99886665543

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.83  E-value=5.3e-21  Score=149.03  Aligned_cols=153  Identities=18%  Similarity=0.160  Sum_probs=100.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||++++.+..+.....++...... .......     .             .+   .+.+|||||+
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~-----~-------------~~---~~~l~D~~g~   59 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTFS-KIIRYKG-----Q-------------DY---HLEIVDTAGQ   59 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhEE-EEEEECC-----E-------------EE---EEEEEECCCh
Confidence            35999999999999999999987664333332221110 0000000     0             01   1789999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      .++...+..++..+|++++|+|+++..+.+... ++..+.    ..+.|+++++||+|+.... .....    ....+..
T Consensus        60 ~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~-~~~~~----~~~~~~~  134 (180)
T cd04137          60 DEYSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQR-QVSTE----EGKELAE  134 (180)
T ss_pred             HhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcC-ccCHH----HHHHHHH
Confidence            999988889999999999999998754444332 223332    2467999999999986321 11111    1222333


Q ss_pred             cccccccccccccCcceeEEeecCC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      .++++++++||++|.|+.+++.++.
T Consensus       135 ~~~~~~~~~Sa~~~~gv~~l~~~l~  159 (180)
T cd04137         135 SWGAAFLESSARENENVEEAFELLI  159 (180)
T ss_pred             HcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            4457788999999999988665553

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

>PRK10218 GTP-binding protein; Provisional

Probab=99.83  E-value=1.1e-20  Score=170.30  Aligned_cols=203  Identities=21%  Similarity=0.179  Sum_probs=126.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc--ccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT--NVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      ++|+++|+.++|||||+++|+..  .+.....  .. .......+.+..+.......      .....+....+++||||
T Consensus         6 RnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~--~~-~~v~D~~~~E~erGiTi~~~------~~~i~~~~~~inliDTP   76 (607)
T PRK10218          6 RNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAE--TQ-ERVMDSNDLEKERGITILAK------NTAIKWNDYRINIVDTP   76 (607)
T ss_pred             eEEEEECCCCCcHHHHHHHHHHhcCCcccccc--cc-eeeeccccccccCceEEEEE------EEEEecCCEEEEEEECC
Confidence            47999999999999999999862  2211100  00 00000000000000000000      00001222249999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhh---hc
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ---ES  179 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~---~~  179 (259)
                      ||.+|...+..+++.+|++++|+|++++...++..++..+...++|.++++||+|+.........+++...+..+   ..
T Consensus        77 G~~df~~~v~~~l~~aDg~ILVVDa~~G~~~qt~~~l~~a~~~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~  156 (607)
T PRK10218         77 GHADFGGEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFAYGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDE  156 (607)
T ss_pred             CcchhHHHHHHHHHhCCEEEEEEecccCccHHHHHHHHHHHHcCCCEEEEEECcCCCCCchhHHHHHHHHHHhccCcccc
Confidence            999999999999999999999999999888888888998888999999999999987432222223333333221   12


Q ss_pred             cccccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHHHHHhh
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVF  256 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~~  256 (259)
                      ...++++++||++|.+......        .            .+-+...++++-++++.|..+.+.||.+.|.+++
T Consensus       157 ~~~~PVi~~SA~~G~~~~~~~~--------~------------~~~i~~Lld~Ii~~iP~P~~~~~~Pl~~~V~k~~  213 (607)
T PRK10218        157 QLDFPIVYASALNGIAGLDHED--------M------------AEDMTPLYQAIVDHVPAPDVDLDGPFQMQISQLD  213 (607)
T ss_pred             ccCCCEEEeEhhcCcccCCccc--------c------------ccchHHHHHHHHHhCCCCCCCCCCCeEEEEEeeE
Confidence            2357889999999987532100        0            0112344556666677777777778887776653

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

Probab=99.83  E-value=1.2e-19  Score=149.53  Aligned_cols=163  Identities=20%  Similarity=0.224  Sum_probs=102.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeecccccc-CccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV-PADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ||+++|++|+|||||+++|+...-.....+.+......... +.+..+..  .+..    ...+..+...+++||||||+
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgi--ti~~----~~~~~~~~~~~i~liDTPG~   74 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGI--TIQS----AATTCFWKDHRINIIDTPGH   74 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCc--Ceec----cEEEEEECCEEEEEEECCCc
Confidence            59999999999999999997421110000001100000000 00000000  0000    00011222334999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccccc-
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQT-  183 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~-  183 (259)
                      .+|...+..+++.+|++++|+|+..+...++...+..+...++|+++++||+|+...    ..+.....++.......+ 
T Consensus        75 ~df~~~~~~~l~~aD~ailVVDa~~g~~~~t~~~~~~~~~~~~p~ivviNK~D~~~a----~~~~~~~~l~~~l~~~~~~  150 (270)
T cd01886          75 VDFTIEVERSLRVLDGAVAVFDAVAGVEPQTETVWRQADRYNVPRIAFVNKMDRTGA----DFFRVVEQIREKLGANPVP  150 (270)
T ss_pred             HHHHHHHHHHHHHcCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECCCCCCC----CHHHHHHHHHHHhCCCceE
Confidence            999999999999999999999999998888889999999999999999999998742    233444555544443333 


Q ss_pred             cccccccccC-cceeE
Q psy6316         184 HKTVESARKG-QEICI  198 (259)
Q Consensus       184 ~~i~~Sa~~g-~gv~~  198 (259)
                      ..+|+|+..+ .|+..
T Consensus       151 ~~~Pisa~~~f~g~vd  166 (270)
T cd01886         151 LQLPIGEEDDFRGVVD  166 (270)
T ss_pred             EEeccccCCCceEEEE
Confidence            3458898754 34444

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

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.83  E-value=1.5e-20  Score=166.98  Aligned_cols=151  Identities=17%  Similarity=0.218  Sum_probs=100.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ++|+++|.+|||||||+|+|++......     ....+.+ .......     .           .+....+.+|||||+
T Consensus        39 ~~V~IvG~~nvGKSSL~nrl~~~~~~~v-----~~~~gvT-~d~~~~~-----~-----------~~~~~~~~l~DT~G~   96 (472)
T PRK03003         39 PVVAVVGRPNVGKSTLVNRILGRREAVV-----EDVPGVT-RDRVSYD-----A-----------EWNGRRFTVVDTGGW   96 (472)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCcCcccc-----cCCCCCC-EeeEEEE-----E-----------EECCcEEEEEeCCCc
Confidence            5799999999999999999997653210     1111111 1100000     0           011113899999996


Q ss_pred             cc--------hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         105 ES--------FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       105 ~~--------~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      +.        +...+..+++.+|++|+|+|++++.+..+..++..++..++|+++|+||+|+....     .+..+   .
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~aD~il~VvD~~~~~s~~~~~i~~~l~~~~~piilV~NK~Dl~~~~-----~~~~~---~  168 (472)
T PRK03003         97 EPDAKGLQASVAEQAEVAMRTADAVLFVVDATVGATATDEAVARVLRRSGKPVILAANKVDDERGE-----ADAAA---L  168 (472)
T ss_pred             CCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECccCCccc-----hhhHH---H
Confidence            52        33345567889999999999999888877788888888899999999999986321     11111   1


Q ss_pred             hhccccccccccccccCcceeEEeecCCCC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      ....++ .++++||++|.|+++++..+...
T Consensus       169 ~~~g~~-~~~~iSA~~g~gi~eL~~~i~~~  197 (472)
T PRK03003        169 WSLGLG-EPHPVSALHGRGVGDLLDAVLAA  197 (472)
T ss_pred             HhcCCC-CeEEEEcCCCCCcHHHHHHHHhh
Confidence            111112 34789999999999877666543

>cd00876 Ras Ras family

Probab=99.83  E-value=7.6e-21  Score=144.90  Aligned_cols=152  Identities=22%  Similarity=0.155  Sum_probs=101.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||++++++..+.....++...... ......     ....                .+.+||+||+.
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~~~~~-~~~~~~-----~~~~----------------~~~l~D~~g~~   58 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIEDSYR-KTIVVD-----GETY----------------TLDILDTAGQE   58 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChhHeEE-EEEEEC-----CEEE----------------EEEEEECCChH
Confidence            4999999999999999999877654443332221110 000000     0001                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      .+...+...++.+|++++|+|+++..+..+. .++..+..    .+.|+++++||+|+.... .    ...+........
T Consensus        59 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~-~----~~~~~~~~~~~~  133 (160)
T cd00876          59 EFSAMRDLYIRQGDGFILVYSITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENER-Q----VSKEEGKALAKE  133 (160)
T ss_pred             HHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccc-e----ecHHHHHHHHHH
Confidence            9999888999999999999999875444333 23333322    368999999999987421 1    112233333444


Q ss_pred             ccccccccccccCcceeEEeecCC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      .+.+++++||++|.|+.+++..+.
T Consensus       134 ~~~~~~~~S~~~~~~i~~l~~~l~  157 (160)
T cd00876         134 WGCPFIETSAKDNINIDEVFKLLV  157 (160)
T ss_pred             cCCcEEEeccCCCCCHHHHHHHHH
Confidence            457888999999999988665543

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

>cd04163 Era Era subfamily

Probab=99.83  E-value=3.4e-20  Score=141.93  Aligned_cols=154  Identities=21%  Similarity=0.287  Sum_probs=99.7

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+++|.+|+|||||+|++++..+......      ..++.      ........          .....+.+||||
T Consensus         2 ~~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~------~~~~~------~~~~~~~~----------~~~~~~~liDtp   59 (168)
T cd04163           2 KSGFVAIVGRPNVGKSTLLNALVGQKISIVSPK------PQTTR------NRIRGIYT----------DDDAQIIFVDTP   59 (168)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhCCceEeccCC------CCcee------ceEEEEEE----------cCCeEEEEEECC
Confidence            356799999999999999999987654211110      00000      00000000          001138999999


Q ss_pred             CCcchHH--------HHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316         103 GHESFSN--------LRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus       103 G~~~~~~--------~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      |......        .....+..+|++++|+|+++........+...+...+.|+++++||+|+...     ........
T Consensus        60 G~~~~~~~~~~~~~~~~~~~~~~~d~i~~v~d~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~-----~~~~~~~~  134 (168)
T cd04163          60 GIHKPKKKLGERMVKAAWSALKDVDLVLFVVDASEPIGEGDEFILELLKKSKTPVILVLNKIDLVKD-----KEDLLPLL  134 (168)
T ss_pred             CCCcchHHHHHHHHHHHHHHHHhCCEEEEEEECCCccCchHHHHHHHHHHhCCCEEEEEEchhcccc-----HHHHHHHH
Confidence            9654322        2344578999999999998875555666777777778999999999998732     23333334


Q ss_pred             hhhhccc-cccccccccccCcceeEEeecC
Q psy6316         175 KSQESSV-QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       175 ~~~~~~~-~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ....... ..+++.+|++++.|+++++..+
T Consensus       135 ~~~~~~~~~~~~~~~s~~~~~~~~~l~~~l  164 (168)
T cd04163         135 EKLKELGPFAEIFPISALKGENVDELLEEI  164 (168)
T ss_pred             HHHHhccCCCceEEEEeccCCChHHHHHHH
Confidence            4444433 3577889999999988755433

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.

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.83  E-value=4.1e-20  Score=147.73  Aligned_cols=66  Identities=36%  Similarity=0.507  Sum_probs=61.4

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      .++|||||||.+|......+++.+|++++|+|++++...++...+......++|+++++||+|+..
T Consensus        74 ~i~iiDTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~~~~~~~~p~ilviNKiD~~~  139 (222)
T cd01885          74 LINLIDSPGHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTETVLRQALKERVKPVLVINKIDRLI  139 (222)
T ss_pred             EEEEECCCCccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECCCcch
Confidence            389999999999999999999999999999999999999988888888888899999999999863

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

>KOG0086|consensus

Probab=99.83  E-value=2.4e-20  Score=134.79  Aligned_cols=150  Identities=20%  Similarity=0.150  Sum_probs=115.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+++++|+.|+|||+|+.+++..++.....-+++.+++.....+....     +                .++||||+|+
T Consensus        10 fKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~-----v----------------KLQIWDTAGQ   68 (214)
T KOG0086|consen   10 FKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKT-----V----------------KLQIWDTAGQ   68 (214)
T ss_pred             heeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcE-----E----------------EEEEeecccH
Confidence            359999999999999999999999988777777777765444332211     1                2999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ++|++....++++|-++++|+|+++..+...+. |+.-.+.   .++-+++++||.|+..     .++.......++...
T Consensus        69 ErFRSVtRsYYRGAAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~~-----~R~VtflEAs~FaqE  143 (214)
T KOG0086|consen   69 ERFRSVTRSYYRGAAGALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLDP-----EREVTFLEASRFAQE  143 (214)
T ss_pred             HHHHHHHHHHhccccceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcCh-----hhhhhHHHHHhhhcc
Confidence            999999999999999999999999877776654 4444444   3556788999999863     234444455556655


Q ss_pred             ccccccccccccCcceeEEe
Q psy6316         181 VQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l  200 (259)
                      ...-+.++||++|+++++.+
T Consensus       144 nel~flETSa~TGeNVEEaF  163 (214)
T KOG0086|consen  144 NELMFLETSALTGENVEEAF  163 (214)
T ss_pred             cceeeeeecccccccHHHHH
Confidence            55656689999999998844

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

Probab=99.83  E-value=9.6e-21  Score=144.94  Aligned_cols=151  Identities=21%  Similarity=0.252  Sum_probs=108.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|..++|||||++++.+..+...+.++++.+........+..     .+                .+.+||++|++
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~-----~~----------------~l~i~D~~g~~   59 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGK-----PV----------------NLEIWDTSGQE   59 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTE-----EE----------------EEEEEEETTSG
T ss_pred             CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccccc-----cc----------------ccccccccccc
Confidence            5999999999999999999998887666555543332222222111     11                19999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+.......++.+|++++|+|.++..+..... |+..+..   .+.|+++++||.|+... ....    .+..+.+...+
T Consensus        60 ~~~~~~~~~~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~-~~v~----~~~~~~~~~~~  134 (162)
T PF00071_consen   60 RFDSLRDIFYRNSDAIIIVFDVTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDE-REVS----VEEAQEFAKEL  134 (162)
T ss_dssp             GGHHHHHHHHTTESEEEEEEETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGGG-SSSC----HHHHHHHHHHT
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccceeeecccccccc-ccch----hhHHHHHHHHh
Confidence            99998889999999999999998755544433 4444443   24799999999998741 1222    23345555556


Q ss_pred             cccccccccccCcceeEEeec
Q psy6316         182 QTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      +.+++.+||+++.|+.+.+..
T Consensus       135 ~~~~~e~Sa~~~~~v~~~f~~  155 (162)
T PF00071_consen  135 GVPYFEVSAKNGENVKEIFQE  155 (162)
T ss_dssp             TSEEEEEBTTTTTTHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHH
Confidence            688899999999999875543

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 ....

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.82  E-value=2.7e-20  Score=168.07  Aligned_cols=203  Identities=21%  Similarity=0.183  Sum_probs=124.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc--ccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT--NVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +||+++|+.++|||||+++|+..  .+....  .... ......+.+..+...  +...    .....+....++|||||
T Consensus         2 RNIaIiGHvd~GKTTLv~~LL~~sg~~~~~~--~v~~-~~~D~~~~ErerGiT--I~~~----~~~v~~~~~kinlIDTP   72 (594)
T TIGR01394         2 RNIAIIAHVDHGKTTLVDALLKQSGTFRANE--AVAE-RVMDSNDLERERGIT--ILAK----NTAIRYNGTKINIVDTP   72 (594)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCCcccc--ccee-ecccCchHHHhCCcc--EEee----eEEEEECCEEEEEEECC
Confidence            47999999999999999999853  221110  0000 000000001100000  0000    00011222349999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhh---c
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE---S  179 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~---~  179 (259)
                      ||.+|...+..+++.+|++++|+|+.++...++..++..+...++|+++++||+|+.........+++.+.+..+.   .
T Consensus        73 Gh~DF~~ev~~~l~~aD~alLVVDa~~G~~~qT~~~l~~a~~~~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e  152 (594)
T TIGR01394        73 GHADFGGEVERVLGMVDGVLLLVDASEGPMPQTRFVLKKALELGLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDE  152 (594)
T ss_pred             CHHHHHHHHHHHHHhCCEEEEEEeCCCCCcHHHHHHHHHHHHCCCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccc
Confidence            9999999999999999999999999999888999999999999999999999999864221111222222222111   2


Q ss_pred             cccccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHHHHHhh
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVF  256 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~~  256 (259)
                      ...++++++||++|.+....-.           .         .+-+...++.+-++++.|..+.+.||.+.|.++|
T Consensus       153 ~l~~pvl~~SA~~g~~~~~~~~-----------~---------~~gi~~Lld~Iv~~lP~P~~~~~~pl~~~V~~i~  209 (594)
T TIGR01394       153 QLDFPIVYASGRAGWASLDLDD-----------P---------SDNMAPLFDAIVRHVPAPKGDLDEPLQMLVTNLD  209 (594)
T ss_pred             cccCcEEechhhcCcccccCcc-----------c---------ccCHHHHHHHHHHhCCCCCCCCCCCEEEEEEEEE
Confidence            2356788999999987544100           0         0011234455555566666666777777665554

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.82  E-value=4.6e-20  Score=155.99  Aligned_cols=152  Identities=18%  Similarity=0.172  Sum_probs=96.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ..|+++|.||||||||+|+|++.+..       ...+..+|..+....     +...          ....+++|||||.
T Consensus       159 adVglVG~PNaGKSTLln~ls~a~~~-------va~ypfTT~~p~~G~-----v~~~----------~~~~~~i~D~PGl  216 (335)
T PRK12299        159 ADVGLVGLPNAGKSTLISAVSAAKPK-------IADYPFTTLHPNLGV-----VRVD----------DYKSFVIADIPGL  216 (335)
T ss_pred             CCEEEEcCCCCCHHHHHHHHHcCCCc-------cCCCCCceeCceEEE-----EEeC----------CCcEEEEEeCCCc
Confidence            56999999999999999999876532       112222222221110     0000          0113999999995


Q ss_pred             c-------chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh-----CCCCEEEEEecccccCcccccchhhHH
Q psy6316         105 E-------SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS-----KKTPFVVALNKIDRLYNWNTMNRRDVR  171 (259)
Q Consensus       105 ~-------~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~-----~~~piivv~NK~D~~~~~~~~~~~~~~  171 (259)
                      .       .+...+..+++.+|++++|+|+++..+.++.. +...+..     .++|+++|+||+|+...+.     ...
T Consensus       217 i~ga~~~~gLg~~flrhie~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~-----~~~  291 (335)
T PRK12299        217 IEGASEGAGLGHRFLKHIERTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEE-----ERE  291 (335)
T ss_pred             cCCCCccccHHHHHHHHhhhcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchh-----HHH
Confidence            3       24445566778899999999998654444443 4444543     3689999999999874211     111


Q ss_pred             HHHhhhhccccccccccccccCcceeEEeecC
Q psy6316         172 DIIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       172 ~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ...+......+++++++||++++|+++++..+
T Consensus       292 ~~~~~~~~~~~~~i~~iSAktg~GI~eL~~~L  323 (335)
T PRK12299        292 KRAALELAALGGPVFLISAVTGEGLDELLRAL  323 (335)
T ss_pred             HHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHH
Confidence            12222223345788899999999998855444

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.82  E-value=1.8e-20  Score=159.53  Aligned_cols=148  Identities=22%  Similarity=0.301  Sum_probs=106.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+++++|+||||||||+|+|++...      ++..++..||.++-...-...+++                +.++||+|.
T Consensus       218 ~kvvIiG~PNvGKSSLLNaL~~~d~------AIVTdI~GTTRDviee~i~i~G~p----------------v~l~DTAGi  275 (454)
T COG0486         218 LKVVIIGRPNVGKSSLLNALLGRDR------AIVTDIAGTTRDVIEEDINLNGIP----------------VRLVDTAGI  275 (454)
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCCc------eEecCCCCCccceEEEEEEECCEE----------------EEEEecCCc
Confidence            3499999999999999999998776      577777767666544433333333                999999995


Q ss_pred             cchHHH--------HHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         105 ESFSNL--------RNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       105 ~~~~~~--------~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      .+-...        ....+..||++++|+|++.+....+...+. ....++|+++|+||+|+.....      ... . .
T Consensus       276 Ret~d~VE~iGIeRs~~~i~~ADlvL~v~D~~~~~~~~d~~~~~-~~~~~~~~i~v~NK~DL~~~~~------~~~-~-~  346 (454)
T COG0486         276 RETDDVVERIGIERAKKAIEEADLVLFVLDASQPLDKEDLALIE-LLPKKKPIIVVLNKADLVSKIE------LES-E-K  346 (454)
T ss_pred             ccCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCchhhHHHHH-hcccCCCEEEEEechhcccccc------cch-h-h
Confidence            432222        224678999999999999877777776666 5566799999999999985321      111 1 1


Q ss_pred             hhccccccccccccccCcceeEEeecCCC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      ..  .+.+++.+||++|+|++.+.+++..
T Consensus       347 ~~--~~~~~i~iSa~t~~Gl~~L~~~i~~  373 (454)
T COG0486         347 LA--NGDAIISISAKTGEGLDALREAIKQ  373 (454)
T ss_pred             cc--CCCceEEEEecCccCHHHHHHHHHH
Confidence            11  1346789999999999987666543

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.82  E-value=3.8e-20  Score=167.61  Aligned_cols=107  Identities=31%  Similarity=0.399  Sum_probs=82.4

Q ss_pred             eEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316          96 LLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus        96 ~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      ++|||||||.+|...+..+++.+|++|+|+|++++...++...+..+...+.|+++|+||+|+...    ........+.
T Consensus        76 lnLiDTPGh~dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~~~lpiIvViNKiDl~~a----~~~~v~~ei~  151 (600)
T PRK05433         76 LNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALENDLEIIPVLNKIDLPAA----DPERVKQEIE  151 (600)
T ss_pred             EEEEECCCcHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEEEECCCCCcc----cHHHHHHHHH
Confidence            899999999999999999999999999999999988888888777777788999999999998632    1222223333


Q ss_pred             hhhccccccccccccccCcceeEEeecCCCC
Q psy6316         176 SQESSVQTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       176 ~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      .........++++||++|.|++.++..+...
T Consensus       152 ~~lg~~~~~vi~iSAktG~GI~~Ll~~I~~~  182 (600)
T PRK05433        152 DVIGIDASDAVLVSAKTGIGIEEVLEAIVER  182 (600)
T ss_pred             HHhCCCcceEEEEecCCCCCHHHHHHHHHHh
Confidence            3222111347899999999998766655443

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.82  E-value=3.2e-20  Score=146.19  Aligned_cols=162  Identities=13%  Similarity=0.080  Sum_probs=99.4

Q ss_pred             EEEEEeeCCCChhHHHh-HHhccccC-----CCCCCccee-eccccccCc-cccccccccccCCCCCCCCCCCCCCCCeE
Q psy6316          26 IVCVLGHVDTGKTKILD-KLRRTNVQ-----DGEAGGITQ-QIGATNVPA-DAIRENTKHVRGPGGEVGGPGPLEIPGLL   97 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin-~l~~~~~~-----~~~~~~~~~-~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (259)
                      +|+++|.+|+|||||+. ++.+..+.     ..+.++++. +........ .....   .+.+.           ...+.
T Consensus         4 Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~---~~~~~-----------~v~l~   69 (195)
T cd01873           4 KCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRD---VVDGV-----------SVSLR   69 (195)
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccce---eeCCE-----------EEEEE
Confidence            59999999999999996 56554332     222223321 000000000 00000   00000           01299


Q ss_pred             EEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH--HHHHHHh--CCCCEEEEEecccccCcccc---------
Q psy6316          98 IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE--SINILKS--KKTPFVVALNKIDRLYNWNT---------  164 (259)
Q Consensus        98 liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~--~l~~~~~--~~~piivv~NK~D~~~~~~~---------  164 (259)
                      ||||+|++.  .....+++.+|++++|+|.++..+.....  |+..+..  .+.|+++|+||+|+......         
T Consensus        70 iwDTaG~~~--~~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~~~~~~~~~~~~~  147 (195)
T cd01873          70 LWDTFGDHD--KDRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCPRVPVILVGCKLDLRYADLDEVNRARRPL  147 (195)
T ss_pred             EEeCCCChh--hhhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCCCCCEEEEEEchhccccccchhhhccccc
Confidence            999999875  24455789999999999999877776653  5555544  36899999999998631000         


Q ss_pred             -----cchhhHHHHHhhhhccccccccccccccCcceeEEeecC
Q psy6316         165 -----MNRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       165 -----~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                           ..+....+..+.+...++++++++||++|.|+++++..+
T Consensus       148 ~~~~~~~~~V~~~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~  191 (195)
T cd01873         148 ARPIKNADILPPETGRAVAKELGIPYYETSVVTQFGVKDVFDNA  191 (195)
T ss_pred             ccccccCCccCHHHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHH
Confidence                 011222334455666667888999999999998866544

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.82  E-value=7.7e-20  Score=169.17  Aligned_cols=152  Identities=20%  Similarity=0.235  Sum_probs=102.3

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      |+..+|+++|++|+|||||+|+|.+.....+...+.+.       .....  .   ..           +...++.+|||
T Consensus         1 ~~~~~IaLvG~pNvGKSTLfN~Ltg~~~~vgn~pGvTv-------e~k~g--~---~~-----------~~~~~i~lvDt   57 (772)
T PRK09554          1 MKKLTIGLIGNPNSGKTTLFNQLTGARQRVGNWAGVTV-------ERKEG--Q---FS-----------TTDHQVTLVDL   57 (772)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhCCCCccCCCCCceE-------eeEEE--E---EE-----------cCceEEEEEEC
Confidence            34567999999999999999999887654333222211       11000  0   00           11113999999


Q ss_pred             CCCcchHHH----------HHhh--ccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhh
Q psy6316         102 PGHESFSNL----------RNRG--SSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRD  169 (259)
Q Consensus       102 pG~~~~~~~----------~~~~--~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~  169 (259)
                      ||+.++...          ...+  ...+|++++|+|+++.  .....++.++.+.++|+++++||+|+...      ..
T Consensus        58 PG~ysl~~~~~~~s~~E~i~~~~l~~~~aD~vI~VvDat~l--er~l~l~~ql~e~giPvIvVlNK~Dl~~~------~~  129 (772)
T PRK09554         58 PGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNL--ERNLYLTLQLLELGIPCIVALNMLDIAEK------QN  129 (772)
T ss_pred             CCccccccccccccHHHHHHHHHHhccCCCEEEEEecCCcc--hhhHHHHHHHHHcCCCEEEEEEchhhhhc------cC
Confidence            997665321          1122  2589999999999873  34555677888889999999999998632      22


Q ss_pred             HHHHHhhhhccccccccccccccCcceeEEeecCC
Q psy6316         170 VRDIIKSQESSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       170 ~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      .....+++...++++++++||++|+|++++.+.+.
T Consensus       130 i~id~~~L~~~LG~pVvpiSA~~g~GIdeL~~~I~  164 (772)
T PRK09554        130 IRIDIDALSARLGCPVIPLVSTRGRGIEALKLAID  164 (772)
T ss_pred             cHHHHHHHHHHhCCCEEEEEeecCCCHHHHHHHHH
Confidence            23334445555678999999999999988665553

>KOG0458|consensus

Probab=99.82  E-value=2.8e-20  Score=160.97  Aligned_cols=193  Identities=24%  Similarity=0.330  Sum_probs=140.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc-------------------------------cCCCCCCcceeeccccccCcccccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN-------------------------------VQDGEAGGITQQIGATNVPADAIRE   73 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~   73 (259)
                      .+.+++|+.++|||||+.+|+..-                               ..+...++++.+++.+.....    
T Consensus       178 l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~fes~----  253 (603)
T KOG0458|consen  178 LNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWFESK----  253 (603)
T ss_pred             eEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEEecC----
Confidence            569999999999999999996331                               112222344444443333211    


Q ss_pred             ccccccCCCCCCCCCCCCCCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCC-------CCHHHHHHHHHHHhCC
Q psy6316          74 NTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG-------LEPQTIESINILKSKK  146 (259)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~-------~~~~~~~~l~~~~~~~  146 (259)
                                         ...++|+|+|||.+|...+......||++++|+|++.+       ...+.+++...++..+
T Consensus       254 -------------------~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~Lg  314 (603)
T KOG0458|consen  254 -------------------SKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSLG  314 (603)
T ss_pred             -------------------ceeEEEecCCCccccchhhhccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHcC
Confidence                               11299999999999999999999999999999999754       3456788888888888


Q ss_pred             C-CEEEEEecccccCcccccchhhHHHHHhhhh-ccc-----cccccccccccCcceeEEeecCCCCCCcccccCCcchh
Q psy6316         147 T-PFVVALNKIDRLYNWNTMNRRDVRDIIKSQE-SSV-----QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDEND  219 (259)
Q Consensus       147 ~-piivv~NK~D~~~~~~~~~~~~~~~~~~~~~-~~~-----~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~  219 (259)
                      + .++|++||+|.+ +|++...+++...+.-+. ...     .+.+||+|+.+|+|+-..-+ .-....||.+.      
T Consensus       315 i~qlivaiNKmD~V-~Wsq~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~~~-~~~l~~WY~Gp------  386 (603)
T KOG0458|consen  315 ISQLIVAINKMDLV-SWSQDRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIKIEQ-ENELSQWYKGP------  386 (603)
T ss_pred             cceEEEEeeccccc-CccHHHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCccccccc-chhhhhhhcCC------
Confidence            6 478899999997 788778888888887776 333     45789999999999965210 00111222111      


Q ss_pred             hHHHHhhhhhHHHHHHHHHhhcCchhhHHHHHHHHhhc
Q psy6316         220 FLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQ  257 (259)
Q Consensus       220 ~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~~~  257 (259)
                              -.++.+++ +..+.+..+.||++.|.|+|.
T Consensus       387 --------~LL~~id~-~~~p~~~~~kPl~ltIsdi~~  415 (603)
T KOG0458|consen  387 --------TLLSQIDS-FKIPERPIDKPLRLTISDIYP  415 (603)
T ss_pred             --------hHHHHHhh-ccCCCCcccCCeEEEhhheee
Confidence                    25566666 788888899999999999885

>cd01878 HflX HflX subfamily

Probab=99.82  E-value=4.4e-20  Score=146.80  Aligned_cols=145  Identities=22%  Similarity=0.308  Sum_probs=89.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ++|+++|++|||||||+|+|++..+......  .     .+..+...     .+...+          ...+.||||||+
T Consensus        42 ~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~--~-----~t~~~~~~-----~~~~~~----------~~~~~i~Dt~G~   99 (204)
T cd01878          42 PTVALVGYTNAGKSTLFNALTGADVYAEDQL--F-----ATLDPTTR-----RLRLPD----------GREVLLTDTVGF   99 (204)
T ss_pred             CeEEEECCCCCCHHHHHHHHhcchhccCCcc--c-----eeccceeE-----EEEecC----------CceEEEeCCCcc
Confidence            4699999999999999999998764211110  0     01111000     000000          003999999996


Q ss_pred             cc---------hHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH---hCCCCEEEEEecccccCcccccchhhHH
Q psy6316         105 ES---------FSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK---SKKTPFVVALNKIDRLYNWNTMNRRDVR  171 (259)
Q Consensus       105 ~~---------~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~---~~~~piivv~NK~D~~~~~~~~~~~~~~  171 (259)
                      .+         +.. ....+..+|++++|+|++++.+..... +...+.   ..++|+++|+||+|+....      ...
T Consensus       100 ~~~~~~~~~~~~~~-~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~------~~~  172 (204)
T cd01878         100 IRDLPHQLVEAFRS-TLEEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDE------ELE  172 (204)
T ss_pred             ccCCCHHHHHHHHH-HHHHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChH------HHH
Confidence            32         111 112356899999999998766554432 223333   3468999999999997421      111


Q ss_pred             HHHhhhhccccccccccccccCcceeEEeec
Q psy6316         172 DIIKSQESSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       172 ~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                          ........+++++||++|.|+++++..
T Consensus       173 ----~~~~~~~~~~~~~Sa~~~~gi~~l~~~  199 (204)
T cd01878         173 ----ERLEAGRPDAVFISAKTGEGLDELLEA  199 (204)
T ss_pred             ----HHhhcCCCceEEEEcCCCCCHHHHHHH
Confidence                222334567889999999999875543

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.82  E-value=4.4e-20  Score=157.31  Aligned_cols=145  Identities=21%  Similarity=0.286  Sum_probs=90.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ++|+++|.+|||||||+|+|++..+.       ..+...++..+.......   .            ....+.||||||+
T Consensus       190 ~~ValvG~~NvGKSSLln~L~~~~~~-------v~~~~~tT~d~~~~~i~~---~------------~~~~i~l~DT~G~  247 (351)
T TIGR03156       190 PTVALVGYTNAGKSTLFNALTGADVY-------AADQLFATLDPTTRRLDL---P------------DGGEVLLTDTVGF  247 (351)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCcee-------eccCCccccCCEEEEEEe---C------------CCceEEEEecCcc
Confidence            66999999999999999999987542       212212222221111100   0            0113999999996


Q ss_pred             c---------chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH----HHHHHHhCCCCEEEEEecccccCcccccchhhHH
Q psy6316         105 E---------SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE----SINILKSKKTPFVVALNKIDRLYNWNTMNRRDVR  171 (259)
Q Consensus       105 ~---------~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~----~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~  171 (259)
                      .         .|.. ....+..+|++++|+|++++.......    ++..+...++|+++|+||+|+...      ..+.
T Consensus       248 ~~~l~~~lie~f~~-tle~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~------~~v~  320 (351)
T TIGR03156       248 IRDLPHELVAAFRA-TLEEVREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDE------PRIE  320 (351)
T ss_pred             cccCCHHHHHHHHH-HHHHHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCCh------HhHH
Confidence            2         1222 223478999999999998876554432    333333347899999999998631      1111


Q ss_pred             HHHhhhhccccccccccccccCcceeEEeecC
Q psy6316         172 DIIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       172 ~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      . ..   . ...+++++||++|.|+++++..+
T Consensus       321 ~-~~---~-~~~~~i~iSAktg~GI~eL~~~I  347 (351)
T TIGR03156       321 R-LE---E-GYPEAVFVSAKTGEGLDLLLEAI  347 (351)
T ss_pred             H-HH---h-CCCCEEEEEccCCCCHHHHHHHH
Confidence            1 11   1 12357899999999998865543

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).

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.82  E-value=5.7e-20  Score=162.30  Aligned_cols=155  Identities=17%  Similarity=0.227  Sum_probs=104.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+|+|++....      +......++.......     .           .+....+.+|||||
T Consensus       173 ~~~v~ivG~~n~GKStlin~ll~~~~~------~~~~~~gtt~~~~~~~-----~-----------~~~~~~~~lvDT~G  230 (435)
T PRK00093        173 PIKIAIIGRPNVGKSSLINALLGEERV------IVSDIAGTTRDSIDTP-----F-----------ERDGQKYTLIDTAG  230 (435)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCce------eecCCCCceEEEEEEE-----E-----------EECCeeEEEEECCC
Confidence            456999999999999999999876532      1111111111110000     0           01111399999999


Q ss_pred             CcchH-----------HHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHH
Q psy6316         104 HESFS-----------NLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       104 ~~~~~-----------~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      +....           .....+++.+|++|+|+|++++.+.++..++..+.+.++|+++++||+|+...+   ..++...
T Consensus       231 ~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilViD~~~~~~~~~~~i~~~~~~~~~~~ivv~NK~Dl~~~~---~~~~~~~  307 (435)
T PRK00093        231 IRRKGKVTEGVEKYSVIRTLKAIERADVVLLVIDATEGITEQDLRIAGLALEAGRALVIVVNKWDLVDEK---TMEEFKK  307 (435)
T ss_pred             CCCCcchhhHHHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCcEEEEEECccCCCHH---HHHHHHH
Confidence            54311           112346789999999999999999999999999888899999999999987321   2233444


Q ss_pred             HHhhhhccc-cccccccccccCcceeEEeecC
Q psy6316         173 IIKSQESSV-QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       173 ~~~~~~~~~-~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+....... ..+++++||++|.|+.+++..+
T Consensus       308 ~~~~~l~~~~~~~i~~~SA~~~~gv~~l~~~i  339 (435)
T PRK00093        308 ELRRRLPFLDYAPIVFISALTGQGVDKLLEAI  339 (435)
T ss_pred             HHHHhcccccCCCEEEEeCCCCCCHHHHHHHH
Confidence            444333322 3578899999999998866554

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.82  E-value=4.1e-20  Score=151.22  Aligned_cols=115  Identities=27%  Similarity=0.300  Sum_probs=93.4

Q ss_pred             CCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHH
Q psy6316          93 IPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVR  171 (259)
Q Consensus        93 ~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~  171 (259)
                      .++|.+.|||||+.|...+....+.||++|+++|+..+...|++++.....-.+++ +++++||+|+. ++++...+++.
T Consensus        85 KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~Gvl~QTrRHs~I~sLLGIrhvvvAVNKmDLv-dy~e~~F~~I~  163 (431)
T COG2895          85 KRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGVLEQTRRHSFIASLLGIRHVVVAVNKMDLV-DYSEEVFEAIV  163 (431)
T ss_pred             cceEEEecCCcHHHHhhhhhcccccccEEEEEEecchhhHHHhHHHHHHHHHhCCcEEEEEEeeeccc-ccCHHHHHHHH
Confidence            34599999999999999999999999999999999999999999988888888865 77889999998 44555666666


Q ss_pred             HHHhhhhcccc---ccccccccccCcceeEEeecCCCCCCcccc
Q psy6316         172 DIIKSQESSVQ---THKTVESARKGQEICIKIEPIPGEAPKMFG  212 (259)
Q Consensus       172 ~~~~~~~~~~~---~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~  212 (259)
                      .....+...++   ..+||+||+.|+|+...    ....||+.+
T Consensus       164 ~dy~~fa~~L~~~~~~~IPiSAl~GDNV~~~----s~~mpWY~G  203 (431)
T COG2895         164 ADYLAFAAQLGLKDVRFIPISALLGDNVVSK----SENMPWYKG  203 (431)
T ss_pred             HHHHHHHHHcCCCcceEEechhccCCccccc----ccCCCcccC
Confidence            66666666654   46789999999999874    344555543

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.82  E-value=5.1e-20  Score=140.46  Aligned_cols=146  Identities=15%  Similarity=0.148  Sum_probs=94.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+.+++...+...+.+. ...+. .......     ..+                .+.+|||+|++
T Consensus         2 ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~-~~~~~-~~i~~~~-----~~~----------------~l~i~D~~g~~   58 (158)
T cd04103           2 KLGIVGNLQSGKSALVHRYLTGSYVQLESPE-GGRFK-KEVLVDG-----QSH----------------LLLIRDEGGAP   58 (158)
T ss_pred             EEEEECCCCCcHHHHHHHHHhCCCCCCCCCC-ccceE-EEEEECC-----EEE----------------EEEEEECCCCC
Confidence            5999999999999999999877664432211 11110 0011000     001                18999999987


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCc-ccccchhhHHHHHhhhhc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYN-WNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~-~~~~~~~~~~~~~~~~~~  179 (259)
                      ..     .+++.+|++++|+|.++..+.+.. .++..+..    .+.|+++|+||+|+... ......+    ..+.+..
T Consensus        59 ~~-----~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~----~~~~~~~  129 (158)
T cd04103          59 DA-----QFASWVDAVIFVFSLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDA----RARQLCA  129 (158)
T ss_pred             ch-----hHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHH----HHHHHHH
Confidence            52     356789999999999998777763 45555543    34799999999998521 1111111    2222332


Q ss_pred             cc-cccccccccccCcceeEEeecC
Q psy6316         180 SV-QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~-~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .. ++.++++||++|.|+++++..+
T Consensus       130 ~~~~~~~~e~SAk~~~~i~~~f~~~  154 (158)
T cd04103         130 DMKRCSYYETCATYGLNVERVFQEA  154 (158)
T ss_pred             HhCCCcEEEEecCCCCCHHHHHHHH
Confidence            32 4788999999999998876554

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.

>KOG0095|consensus

Probab=99.82  E-value=2.6e-20  Score=134.11  Aligned_cols=152  Identities=20%  Similarity=0.220  Sum_probs=114.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|..|+|||+|++++...-+.++...+++.++-..+..+...     .+.                +.+|||+|+
T Consensus         8 fkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~ge-----kik----------------lqiwdtagq   66 (213)
T KOG0095|consen    8 FKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGE-----KIK----------------LQIWDTAGQ   66 (213)
T ss_pred             EEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCe-----EEE----------------EEEeeccch
Confidence            45999999999999999999999998888888887766555544322     222                999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHhC---CCCEEEEEecccccCcccccchhhH-HHHHhhhhc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKSK---KTPFVVALNKIDRLYNWNTMNRRDV-RDIIKSQES  179 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~~---~~piivv~NK~D~~~~~~~~~~~~~-~~~~~~~~~  179 (259)
                      ++|++...++++.|+++|+|+|.+...+..- -+|+..+...   .+--|+|+||+|+..      +.++ .+.-+++.+
T Consensus        67 erfrsitqsyyrsahalilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~d------rrevp~qigeefs~  140 (213)
T KOG0095|consen   67 ERFRSITQSYYRSAHALILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLAD------RREVPQQIGEEFSE  140 (213)
T ss_pred             HHHHHHHHHHhhhcceEEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchhh------hhhhhHHHHHHHHH
Confidence            9999999999999999999999987666543 3566666653   334578999999863      2233 333344444


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .....+.++||+..++++.++..+
T Consensus       141 ~qdmyfletsakea~nve~lf~~~  164 (213)
T KOG0095|consen  141 AQDMYFLETSAKEADNVEKLFLDL  164 (213)
T ss_pred             hhhhhhhhhcccchhhHHHHHHHH
Confidence            444566789999999998865433

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.81  E-value=6.3e-20  Score=162.00  Aligned_cols=149  Identities=21%  Similarity=0.267  Sum_probs=101.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ++|+++|++|+|||||+|+|++....      +......++........                .+....+.+|||||+
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~------~v~~~~~~t~d~~~~~~----------------~~~~~~~~liDT~G~   59 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDA------IVADTPGVTRDRIYGEA----------------EWLGREFILIDTGGI   59 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCce------eeCCCCCCcccceEEEE----------------EECCcEEEEEECCCC
Confidence            46999999999999999999877642      11111111111110000                011113999999998


Q ss_pred             cc--------hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         105 ES--------FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       105 ~~--------~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      ..        +......++..+|++|+|+|++++.+..+......++..++|+++|+||+|....     ....    .+
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~ad~il~vvd~~~~~~~~~~~~~~~l~~~~~piilv~NK~D~~~~-----~~~~----~~  130 (435)
T PRK00093         60 EPDDDGFEKQIREQAELAIEEADVILFVVDGRAGLTPADEEIAKILRKSNKPVILVVNKVDGPDE-----EADA----YE  130 (435)
T ss_pred             CCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCcEEEEEECccCccc-----hhhH----HH
Confidence            76        2333455678999999999999888888888888888889999999999997521     1111    11


Q ss_pred             hhccccc-cccccccccCcceeEEeecCCC
Q psy6316         177 QESSVQT-HKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       177 ~~~~~~~-~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      +. .+++ .++++||++|.|+++++..+..
T Consensus       131 ~~-~lg~~~~~~iSa~~g~gv~~l~~~I~~  159 (435)
T PRK00093        131 FY-SLGLGEPYPISAEHGRGIGDLLDAILE  159 (435)
T ss_pred             HH-hcCCCCCEEEEeeCCCCHHHHHHHHHh
Confidence            11 2233 4789999999999987776654

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.81  E-value=5.8e-20  Score=162.02  Aligned_cols=147  Identities=21%  Similarity=0.247  Sum_probs=101.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||+|+|++....      +......++.......     +           .+....+.+|||||+.
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~------~v~~~~g~t~d~~~~~-----~-----------~~~~~~~~liDTpG~~   58 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDA------IVSDTPGVTRDRKYGD-----A-----------EWGGREFILIDTGGIE   58 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcc------eecCCCCcccCceEEE-----E-----------EECCeEEEEEECCCCC
Confidence            3899999999999999999876532      1111111111111100     0           0111139999999963


Q ss_pred             --------chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         106 --------SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       106 --------~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                              .+......+++.+|++++|+|++++.+..+..+...+++.++|+++|+||+|+...+     ... .   ++
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~ad~vl~vvD~~~~~~~~d~~i~~~l~~~~~piilVvNK~D~~~~~-----~~~-~---~~  129 (429)
T TIGR03594        59 EDDDGLDKQIREQAEIAIEEADVILFVVDGREGLTPEDEEIAKWLRKSGKPVILVANKIDGKKED-----AVA-A---EF  129 (429)
T ss_pred             CcchhHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHHHHHHHHHHHhCCCEEEEEECccCCccc-----ccH-H---HH
Confidence                    344455667899999999999999888888888888988999999999999987422     111 1   11


Q ss_pred             hccccc-cccccccccCcceeEEeecCC
Q psy6316         178 ESSVQT-HKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       178 ~~~~~~-~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      . .+++ .++++||.+|.|+.+++..+.
T Consensus       130 ~-~lg~~~~~~vSa~~g~gv~~ll~~i~  156 (429)
T TIGR03594       130 Y-SLGFGEPIPISAEHGRGIGDLLDAIL  156 (429)
T ss_pred             H-hcCCCCeEEEeCCcCCChHHHHHHHH
Confidence            1 2234 678999999999988766554

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.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.81  E-value=9.3e-20  Score=159.60  Aligned_cols=144  Identities=23%  Similarity=0.278  Sum_probs=92.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++|+|||||+|+|++....      +...+..++.......-.                +....+.+|||||+
T Consensus       204 ~kVvIvG~~nvGKSSLiN~L~~~~~a------ivs~~pgtTrd~~~~~i~----------------~~g~~v~l~DTaG~  261 (442)
T TIGR00450       204 FKLAIVGSPNVGKSSLLNALLKQDRA------IVSDIKGTTRDVVEGDFE----------------LNGILIKLLDTAGI  261 (442)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCCc------ccCCCCCcEEEEEEEEEE----------------ECCEEEEEeeCCCc
Confidence            46999999999999999999876431      111121122211111000                11112899999997


Q ss_pred             cchHHH--------HHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         105 ESFSNL--------RNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       105 ~~~~~~--------~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      ..+...        ...+++.+|++++|+|++++.+..+. ++..+...++|+++|+||+|+...       +.    ..
T Consensus       262 ~~~~~~ie~~gi~~~~~~~~~aD~il~V~D~s~~~s~~~~-~l~~~~~~~~piIlV~NK~Dl~~~-------~~----~~  329 (442)
T TIGR00450       262 REHADFVERLGIEKSFKAIKQADLVIYVLDASQPLTKDDF-LIIDLNKSKKPFILVLNKIDLKIN-------SL----EF  329 (442)
T ss_pred             ccchhHHHHHHHHHHHHHHhhCCEEEEEEECCCCCChhHH-HHHHHhhCCCCEEEEEECccCCCc-------ch----hh
Confidence            554322        23567899999999999887776555 666666678999999999998632       11    11


Q ss_pred             hhccccccccccccccCcceeEEeecC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +...++.+++.+||++ .|+++.+..+
T Consensus       330 ~~~~~~~~~~~vSak~-~gI~~~~~~L  355 (442)
T TIGR00450       330 FVSSKVLNSSNLSAKQ-LKIKALVDLL  355 (442)
T ss_pred             hhhhcCCceEEEEEec-CCHHHHHHHH
Confidence            2223345678899998 4666644444

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.

>cd04155 Arl3 Arl3 subfamily

Probab=99.81  E-value=8.2e-20  Score=141.34  Aligned_cols=152  Identities=18%  Similarity=0.156  Sum_probs=97.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+++|.+..+...     ..+.+.+.....                     .....+.+|||||
T Consensus        14 ~~~v~i~G~~g~GKStLl~~l~~~~~~~~-----~~t~g~~~~~i~---------------------~~~~~~~~~D~~G   67 (173)
T cd04155          14 EPRILILGLDNAGKTTILKQLASEDISHI-----TPTQGFNIKTVQ---------------------SDGFKLNVWDIGG   67 (173)
T ss_pred             ccEEEEEccCCCCHHHHHHHHhcCCCccc-----CCCCCcceEEEE---------------------ECCEEEEEEECCC
Confidence            45599999999999999999987654211     111111100000                     0011289999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHH----HhCCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINIL----KSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~----~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      +..+...+..+++.+|++++|+|+++...... ...+..+    ...++|+++++||+|+....   ..+++.+.+....
T Consensus        68 ~~~~~~~~~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~---~~~~i~~~l~~~~  144 (173)
T cd04155          68 QRAIRPYWRNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAA---PAEEIAEALNLHD  144 (173)
T ss_pred             CHHHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCC---CHHHHHHHcCCcc
Confidence            99888888889999999999999986433222 2222222    23468999999999986421   1223333222111


Q ss_pred             -ccccccccccccccCcceeEEeecCC
Q psy6316         179 -SSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       179 -~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                       ....++++++||++|.|+++++..+.
T Consensus       145 ~~~~~~~~~~~Sa~~~~gi~~~~~~l~  171 (173)
T cd04155         145 LRDRTWHIQACSAKTGEGLQEGMNWVC  171 (173)
T ss_pred             cCCCeEEEEEeECCCCCCHHHHHHHHh
Confidence             11124567899999999998776653

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.

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.81  E-value=2.3e-19  Score=134.47  Aligned_cols=166  Identities=23%  Similarity=0.272  Sum_probs=115.8

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCC-CCeEEE
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEI-PGLLII   99 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~li   99 (259)
                      .++..+|+++|+.++||||++.+++.................. ..+ .+....++.+           .+.. ..+.++
T Consensus         7 k~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~-kr~-tTva~D~g~~-----------~~~~~~~v~Lf   73 (187)
T COG2229           7 KMIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKG-KRP-TTVAMDFGSI-----------ELDEDTGVHLF   73 (187)
T ss_pred             cccceeEEEEcccccchhhHHHHhhccccceeecccccccccc-ccc-eeEeecccce-----------EEcCcceEEEe
Confidence            5667889999999999999999998775321111000000000 000 0000111111           1111 129999


Q ss_pred             eCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCC-CCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKK-TPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       100 DtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~-~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      |||||++|.-+|..+.+.+.++|+++|++.+......+.+..+...+ +|+++++||.|+...+   ..+++.+.+....
T Consensus        74 gtPGq~RF~fm~~~l~~ga~gaivlVDss~~~~~~a~~ii~f~~~~~~ip~vVa~NK~DL~~a~---ppe~i~e~l~~~~  150 (187)
T COG2229          74 GTPGQERFKFMWEILSRGAVGAIVLVDSSRPITFHAEEIIDFLTSRNPIPVVVAINKQDLFDAL---PPEKIREALKLEL  150 (187)
T ss_pred             cCCCcHHHHHHHHHHhCCcceEEEEEecCCCcchHHHHHHHHHhhccCCCEEEEeeccccCCCC---CHHHHHHHHHhcc
Confidence            99999999999999999999999999999988887778888888877 9999999999998554   4455555554443


Q ss_pred             ccccccccccccccCcceeEEeecCC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                        .+.+.|..+|.+++|..+.+..++
T Consensus       151 --~~~~vi~~~a~e~~~~~~~L~~ll  174 (187)
T COG2229         151 --LSVPVIEIDATEGEGARDQLDVLL  174 (187)
T ss_pred             --CCCceeeeecccchhHHHHHHHHH
Confidence              467899999999999877555444

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.81  E-value=3.3e-20  Score=143.91  Aligned_cols=151  Identities=23%  Similarity=0.240  Sum_probs=102.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|..||||||++++|.......     ..++.+........                     ....+.+||.+|
T Consensus        14 ~~~ililGl~~sGKTtll~~l~~~~~~~-----~~pT~g~~~~~i~~---------------------~~~~~~~~d~gG   67 (175)
T PF00025_consen   14 EIKILILGLDGSGKTTLLNRLKNGEISE-----TIPTIGFNIEEIKY---------------------KGYSLTIWDLGG   67 (175)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHSSSEEE-----EEEESSEEEEEEEE---------------------TTEEEEEEEESS
T ss_pred             EEEEEEECCCccchHHHHHHhhhccccc-----cCcccccccceeee---------------------CcEEEEEEeccc
Confidence            3459999999999999999998654321     22222222211111                     111299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHH-HHHHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHh--h
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQ-TIESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIK--S  176 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~-~~~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~--~  176 (259)
                      +..+...|..+++.+|++|||+|+++..... ....+..+..    .++|+++++||.|+....   ...++...+.  .
T Consensus        68 ~~~~~~~w~~y~~~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~~---~~~~i~~~l~l~~  144 (175)
T PF00025_consen   68 QESFRPLWKSYFQNADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDAM---SEEEIKEYLGLEK  144 (175)
T ss_dssp             SGGGGGGGGGGHTTESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTSS---THHHHHHHTTGGG
T ss_pred             cccccccceeeccccceeEEEEecccceeecccccchhhhcchhhcccceEEEEeccccccCcc---hhhHHHhhhhhhh
Confidence            9999999999999999999999998743322 2333333322    468999999999987432   3344444332  2


Q ss_pred             hhccccccccccccccCcceeEEeecC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +.....+.++.+||.+|+|+.+.++++
T Consensus       145 l~~~~~~~v~~~sa~~g~Gv~e~l~WL  171 (175)
T PF00025_consen  145 LKNKRPWSVFSCSAKTGEGVDEGLEWL  171 (175)
T ss_dssp             TTSSSCEEEEEEBTTTTBTHHHHHHHH
T ss_pred             cccCCceEEEeeeccCCcCHHHHHHHH
Confidence            222456778899999999998755443

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 ....

>cd04129 Rho2 Rho2 subfamily

Probab=99.81  E-value=5.7e-20  Score=144.17  Aligned_cols=157  Identities=16%  Similarity=0.136  Sum_probs=100.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||++++....+.+....+....+.. ....     ....+                .+.+|||||++
T Consensus         3 Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~~~-~~~~-----~~~~~----------------~l~i~Dt~g~~   60 (187)
T cd04129           3 KLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENYVT-DCRV-----DGKPV----------------QLALWDTAGQE   60 (187)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEE-EEEE-----CCEEE----------------EEEEEECCCCh
Confidence            59999999999999999998666544332222211110 0000     00001                28999999988


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHh--CCCCEEEEEecccccCccccc-----chhhHHHHHhh
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKS--KKTPFVVALNKIDRLYNWNTM-----NRRDVRDIIKS  176 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~--~~~piivv~NK~D~~~~~~~~-----~~~~~~~~~~~  176 (259)
                      .+.......+..+|++++++|.++..+....  .++..+..  .+.|+++|+||+|+.......     .+.........
T Consensus        61 ~~~~~~~~~~~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~  140 (187)
T cd04129          61 EYERLRPLSYSKAHVILIGFAVDTPDSLENVRTKWIEEVRRYCPNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKR  140 (187)
T ss_pred             hccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHH
Confidence            8776666677899999999999876555443  25555543  368999999999985321100     01111122333


Q ss_pred             hhcccc-ccccccccccCcceeEEeecCC
Q psy6316         177 QESSVQ-THKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       177 ~~~~~~-~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      +...++ ..++++||++|.|+++++..+.
T Consensus       141 ~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~  169 (187)
T cd04129         141 VAKEIGAKKYMECSALTGEGVDDVFEAAT  169 (187)
T ss_pred             HHHHhCCcEEEEccCCCCCCHHHHHHHHH
Confidence            444444 3688999999999998776554

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).

>KOG0462|consensus

Probab=99.81  E-value=6.5e-20  Score=157.45  Aligned_cols=166  Identities=27%  Similarity=0.339  Sum_probs=122.0

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcccc--CC-------------CCCCcceeeccccccCccccccccccccCCCCCCCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNV--QD-------------GEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGG   87 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~--~~-------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (259)
                      +.+|++|+-+.++|||||..+|+...-  ..             ...++|+..-       ++..-...+  +.      
T Consensus        59 ~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIka-------Qtasify~~--~~------  123 (650)
T KOG0462|consen   59 NIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKA-------QTASIFYKD--GQ------  123 (650)
T ss_pred             hccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEe-------eeeEEEEEc--CC------
Confidence            356899999999999999999963311  00             0111221111       100000000  00      


Q ss_pred             CCCCCCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccch
Q psy6316          88 PGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNR  167 (259)
Q Consensus        88 ~~~~~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~  167 (259)
                        .|   -+++||||||.+|.....+.+..||++|+|+|+.++...|+...+....+.+..+|.|+||+|+...    ..
T Consensus       124 --~y---lLNLIDTPGHvDFs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe~~L~iIpVlNKIDlp~a----dp  194 (650)
T KOG0462|consen  124 --SY---LLNLIDTPGHVDFSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFEAGLAIIPVLNKIDLPSA----DP  194 (650)
T ss_pred             --ce---EEEeecCCCcccccceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHHcCCeEEEeeeccCCCCC----CH
Confidence              12   2999999999999999999999999999999999999999999999999999999999999999854    35


Q ss_pred             hhHHHHHhhhhccccccccccccccCcceeEEeecCCCCCCcccc
Q psy6316         168 RDVRDIIKSQESSVQTHKTVESARKGQEICIKIEPIPGEAPKMFG  212 (259)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~  212 (259)
                      +.....+..+....+-+++.+||++|.|+..++.+++...|....
T Consensus       195 e~V~~q~~~lF~~~~~~~i~vSAK~G~~v~~lL~AII~rVPpP~~  239 (650)
T KOG0462|consen  195 ERVENQLFELFDIPPAEVIYVSAKTGLNVEELLEAIIRRVPPPKG  239 (650)
T ss_pred             HHHHHHHHHHhcCCccceEEEEeccCccHHHHHHHHHhhCCCCCC
Confidence            666666777766666789999999999998866666655555433

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

Probab=99.81  E-value=1.1e-19  Score=137.91  Aligned_cols=141  Identities=21%  Similarity=0.276  Sum_probs=92.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||++++.+.......      ....++.......     .           ......+++|||||+.
T Consensus         3 ~i~l~G~~~~GKstli~~l~~~~~~~~~------~~~~~~~~~~~~~-----~-----------~~~~~~~~i~DtpG~~   60 (157)
T cd04164           3 KVVIVGKPNVGKSSLLNALAGRDRAIVS------DIAGTTRDVIEES-----I-----------DIGGIPVRLIDTAGIR   60 (157)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCceEecc------CCCCCccceEEEE-----E-----------EeCCEEEEEEECCCcC
Confidence            4999999999999999999876542110      0001111110000     0           0111138999999965


Q ss_pred             chHH--------HHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         106 SFSN--------LRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       106 ~~~~--------~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      ++..        .....+..+|++++|+|+++..+..+...+..  ..+.|+++|+||+|+....      ..      .
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~v~v~d~~~~~~~~~~~~~~~--~~~~~vi~v~nK~D~~~~~------~~------~  126 (157)
T cd04164          61 ETEDEIEKIGIERAREAIEEADLVLFVIDASRGLDEEDLEILEL--PADKPIIVVLNKSDLLPDS------EL------L  126 (157)
T ss_pred             CCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCCHHHHHHHHh--hcCCCEEEEEEchhcCCcc------cc------c
Confidence            5432        12345678999999999998766666555444  5679999999999997432      11      2


Q ss_pred             hccccccccccccccCcceeEEeec
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ......+++++||+++.|+++++..
T Consensus       127 ~~~~~~~~~~~Sa~~~~~v~~l~~~  151 (157)
T cd04164         127 SLLAGKPIIAISAKTGEGLDELKEA  151 (157)
T ss_pred             cccCCCceEEEECCCCCCHHHHHHH
Confidence            2333567889999999999875544

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.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.80  E-value=1.1e-19  Score=153.53  Aligned_cols=151  Identities=20%  Similarity=0.206  Sum_probs=94.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ..|+++|.+|||||||+|+|++.+..       ...+..++..+....     +...+          ...++||||||.
T Consensus       158 adV~lvG~pnaGKSTLl~~lt~~~~~-------va~y~fTT~~p~ig~-----v~~~~----------~~~~~i~D~PGl  215 (329)
T TIGR02729       158 ADVGLVGLPNAGKSTLISAVSAAKPK-------IADYPFTTLVPNLGV-----VRVDD----------GRSFVIADIPGL  215 (329)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhcCCcc-------ccCCCCCccCCEEEE-----EEeCC----------ceEEEEEeCCCc
Confidence            56999999999999999999876532       111112222111100     00000          013999999995


Q ss_pred             cc-------hHHHHHhhccCCCeEEEEEeCCCC---CCHHHHH-HHHHHHh-----CCCCEEEEEecccccCcccccchh
Q psy6316         105 ES-------FSNLRNRGSSLCDIAILVVDIMHG---LEPQTIE-SINILKS-----KKTPFVVALNKIDRLYNWNTMNRR  168 (259)
Q Consensus       105 ~~-------~~~~~~~~~~~ad~~i~v~d~~~~---~~~~~~~-~l~~~~~-----~~~piivv~NK~D~~~~~~~~~~~  168 (259)
                      ..       ....+...+..+|++++|+|+++.   ....+.. +..++..     .++|+++|+||+|+...      .
T Consensus       216 i~~a~~~~gLg~~flrhierad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~------~  289 (329)
T TIGR02729       216 IEGASEGAGLGHRFLKHIERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDE------E  289 (329)
T ss_pred             ccCCcccccHHHHHHHHHHhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCCh------H
Confidence            32       344455567789999999999864   2222332 3333433     36899999999999742      2


Q ss_pred             hHHHHHhhhhccccccccccccccCcceeEEeecC
Q psy6316         169 DVRDIIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       169 ~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ...+..+.+....+++++++||++++|+++++..+
T Consensus       290 ~~~~~~~~l~~~~~~~vi~iSAktg~GI~eL~~~I  324 (329)
T TIGR02729       290 ELAELLKELKKALGKPVFPISALTGEGLDELLYAL  324 (329)
T ss_pred             HHHHHHHHHHHHcCCcEEEEEccCCcCHHHHHHHH
Confidence            22233333333445688899999999998865443

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.

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.80  E-value=1.8e-19  Score=144.46  Aligned_cols=152  Identities=14%  Similarity=0.116  Sum_probs=102.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+++++...+...+..+++..+.........     ..+                .+.+|||||
T Consensus         9 ~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~i----------------~i~~~Dt~g   67 (215)
T PTZ00132          9 EFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNC-----GPI----------------CFNVWDTAG   67 (215)
T ss_pred             CceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECC-----eEE----------------EEEEEECCC
Confidence            34599999999999999988876666555444444333221111100     111                199999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh--CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS--KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ++.+...+..++..++++++|+|.++..+..... ++..+..  .+.|+++++||+|+....   ...+..    .+...
T Consensus        68 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~i~lv~nK~Dl~~~~---~~~~~~----~~~~~  140 (215)
T PTZ00132         68 QEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVCENIPIVLVGNKVDVKDRQ---VKARQI----TFHRK  140 (215)
T ss_pred             chhhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccCcccc---CCHHHH----HHHHH
Confidence            9999888888899999999999998866655433 3333332  468999999999985321   111111    22233


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .++.++++||++|.|+++.+..+
T Consensus       141 ~~~~~~e~Sa~~~~~v~~~f~~i  163 (215)
T PTZ00132        141 KNLQYYDISAKSNYNFEKPFLWL  163 (215)
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHH
Confidence            45678899999999998755443

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.80  E-value=1.2e-19  Score=160.71  Aligned_cols=152  Identities=21%  Similarity=0.259  Sum_probs=115.5

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +...|+++|.||+|||||.|+|+|.+...+++++.+.+......                       .++.+++.++|+|
T Consensus         2 ~~~~valvGNPNvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~-----------------------~~~~~~i~ivDLP   58 (653)
T COG0370           2 KKLTVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKL-----------------------KYKGHEIEIVDLP   58 (653)
T ss_pred             CcceEEEecCCCccHHHHHHHHhccCceecCCCCeeEEEEEEEE-----------------------EecCceEEEEeCC
Confidence            34569999999999999999999999887777766543322111                       1222249999999


Q ss_pred             CCcchH------HHHHhhc--cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316         103 GHESFS------NLRNRGS--SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus       103 G~~~~~------~~~~~~~--~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      |.....      .....++  ..+|+++.|+|+++  .+.+..+.-++.+.++|+++++|++|..      +++.+.-..
T Consensus        59 G~YSL~~~S~DE~Var~~ll~~~~D~ivnVvDAtn--LeRnLyltlQLlE~g~p~ilaLNm~D~A------~~~Gi~ID~  130 (653)
T COG0370          59 GTYSLTAYSEDEKVARDFLLEGKPDLIVNVVDATN--LERNLYLTLQLLELGIPMILALNMIDEA------KKRGIRIDI  130 (653)
T ss_pred             CcCCCCCCCchHHHHHHHHhcCCCCEEEEEcccch--HHHHHHHHHHHHHcCCCeEEEeccHhhH------HhcCCcccH
Confidence            932211      2222333  57899999999987  5667778889999999999999999997      355566667


Q ss_pred             hhhhccccccccccccccCcceeEEeecCCC
Q psy6316         175 KSQESSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       175 ~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      +++.+.++++.+++||++|+|+++++.++..
T Consensus       131 ~~L~~~LGvPVv~tvA~~g~G~~~l~~~i~~  161 (653)
T COG0370         131 EKLSKLLGVPVVPTVAKRGEGLEELKRAIIE  161 (653)
T ss_pred             HHHHHHhCCCEEEEEeecCCCHHHHHHHHHH
Confidence            7777888999999999999999987776654

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.80  E-value=4e-19  Score=164.82  Aligned_cols=157  Identities=17%  Similarity=0.284  Sum_probs=104.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      .++|+++|++|+|||||+|+|++.+..      +......++........                .+...++.||||||
T Consensus       450 ~~kI~ivG~~nvGKSSLin~l~~~~~~------~v~~~~gtT~d~~~~~~----------------~~~~~~~~liDTaG  507 (712)
T PRK09518        450 LRRVALVGRPNVGKSSLLNQLTHEERA------VVNDLAGTTRDPVDEIV----------------EIDGEDWLFIDTAG  507 (712)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCcccc------ccCCCCCCCcCcceeEE----------------EECCCEEEEEECCC
Confidence            467999999999999999999987642      11112112221111100                01111388999999


Q ss_pred             Ccc----------hHHH-HHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHH
Q psy6316         104 HES----------FSNL-RNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       104 ~~~----------~~~~-~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      +..          |... ...+++.+|++++|+|++++.+.++..++..+...++|+++|+||+|+....   ..+.+..
T Consensus       508 ~~~~~~~~~~~e~~~~~r~~~~i~~advvilViDat~~~s~~~~~i~~~~~~~~~piIiV~NK~DL~~~~---~~~~~~~  584 (712)
T PRK09518        508 IKRRQHKLTGAEYYSSLRTQAAIERSELALFLFDASQPISEQDLKVMSMAVDAGRALVLVFNKWDLMDEF---RRQRLER  584 (712)
T ss_pred             cccCcccchhHHHHHHHHHHHHhhcCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEEchhcCChh---HHHHHHH
Confidence            531          2221 1245689999999999999999999888888888899999999999997421   1222333


Q ss_pred             HHhhhhcccc-ccccccccccCcceeEEeecCCC
Q psy6316         173 IIKSQESSVQ-THKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       173 ~~~~~~~~~~-~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      .+........ .+++++||++|.|+++++..+..
T Consensus       585 ~~~~~l~~~~~~~ii~iSAktg~gv~~L~~~i~~  618 (712)
T PRK09518        585 LWKTEFDRVTWARRVNLSAKTGWHTNRLAPAMQE  618 (712)
T ss_pred             HHHHhccCCCCCCEEEEECCCCCCHHHHHHHHHH
Confidence            3333222222 35578999999999987766544

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.80  E-value=1e-19  Score=138.72  Aligned_cols=138  Identities=14%  Similarity=0.156  Sum_probs=86.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||+|+|.+...       ...       ......                  +..  ..+|||||+.
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~~~-------~~~-------~~~~v~------------------~~~--~~~iDtpG~~   48 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGNYT-------LAR-------KTQAVE------------------FND--KGDIDTPGEY   48 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCc-------cCc-------cceEEE------------------ECC--CCcccCCccc
Confidence            699999999999999999976431       100       000000                  000  1369999962


Q ss_pred             ----chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 ----SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ----~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                          ++.......+..+|++++|+|+++..+......+. + ..+.|+++++||+|+...    ..+...+.+....  .
T Consensus        49 ~~~~~~~~~~~~~~~~ad~il~v~d~~~~~s~~~~~~~~-~-~~~~~ii~v~nK~Dl~~~----~~~~~~~~~~~~~--~  120 (158)
T PRK15467         49 FSHPRWYHALITTLQDVDMLIYVHGANDPESRLPAGLLD-I-GVSKRQIAVISKTDMPDA----DVAATRKLLLETG--F  120 (158)
T ss_pred             cCCHHHHHHHHHHHhcCCEEEEEEeCCCcccccCHHHHh-c-cCCCCeEEEEEccccCcc----cHHHHHHHHHHcC--C
Confidence                33333445578999999999998765443322222 1 246799999999998531    1222222222221  1


Q ss_pred             cccccccccccCcceeEEeecCCC
Q psy6316         182 QTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      ..+++++||++|.|+++++..+..
T Consensus       121 ~~p~~~~Sa~~g~gi~~l~~~l~~  144 (158)
T PRK15467        121 EEPIFELNSHDPQSVQQLVDYLAS  144 (158)
T ss_pred             CCCEEEEECCCccCHHHHHHHHHH
Confidence            247889999999999987665543

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.80  E-value=1.2e-18  Score=144.29  Aligned_cols=167  Identities=18%  Similarity=0.213  Sum_probs=104.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccc-cccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADA-IRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      +|+++|++|+|||||+++|+...-.....+.+.  .+.+...... .......+...    .....+...++++|||||+
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~--~g~~~~d~~~~e~~r~~ti~~~----~~~~~~~~~~i~liDtPG~   74 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVE--DGTTVSDYDPEEIKRKMSISTS----VAPLEWKGHKINLIDTPGY   74 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeec--CCcccCCCCHHHHhhcccccce----eEEEEECCEEEEEEECcCH
Confidence            489999999999999999975432111111111  1111111000 00000000000    0000122224999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhcccccc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTH  184 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  184 (259)
                      .+|...+..+++.+|++++|+|++.+...+....+..+...++|.++++||+|+...    ..++....++..   ++.+
T Consensus        75 ~~f~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~~~~~~~~p~iivvNK~D~~~~----~~~~~~~~l~~~---~~~~  147 (268)
T cd04170          75 ADFVGETRAALRAADAALVVVSAQSGVEVGTEKLWEFADEAGIPRIIFINKMDRERA----DFDKTLAALQEA---FGRP  147 (268)
T ss_pred             HHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECCccCCC----CHHHHHHHHHHH---hCCC
Confidence            988888899999999999999999988887788888888889999999999998742    223333334333   2334


Q ss_pred             cc--ccccccCcceeEEeecCCC
Q psy6316         185 KT--VESARKGQEICIKIEPIPG  205 (259)
Q Consensus       185 ~i--~~Sa~~g~gv~~~l~~i~~  205 (259)
                      ++  .+...+|.++..++..+..
T Consensus       148 ~~~~~ip~~~~~~~~~~vd~~~~  170 (268)
T cd04170         148 VVPLQLPIGEGDDFKGVVDLLTE  170 (268)
T ss_pred             eEEEEecccCCCceeEEEEcccC
Confidence            44  4567888888877665543

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

>cd04167 Snu114p Snu114p subfamily

Probab=99.79  E-value=3.2e-19  Score=142.77  Aligned_cols=133  Identities=27%  Similarity=0.269  Sum_probs=82.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeecc--ccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIG--ATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      +|+++|++|+|||||+++|+.........+.......  ......+..+............- .........+++|||||
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~-~~~~~~~~~i~iiDtpG   80 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVL-PDSKGKSYLFNIIDTPG   80 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEE-EcCCCCEEEEEEEECCC
Confidence            6999999999999999999876543221000000000  00000000000000000000000 00000112389999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEeccccc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      +.+|......++..+|++++|+|++++.......++......+.|+++++||+|+.
T Consensus        81 ~~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~~~~~~~~~~~~~p~iiviNK~D~~  136 (213)
T cd04167          81 HVNFMDEVAAALRLSDGVVLVVDVVEGVTSNTERLIRHAILEGLPIVLVINKIDRL  136 (213)
T ss_pred             CcchHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECcccC
Confidence            99998888899999999999999998887777777777777789999999999986

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.79  E-value=2.5e-19  Score=166.23  Aligned_cols=151  Identities=19%  Similarity=0.271  Sum_probs=101.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ++|+++|++|+|||||+|+|++....      +......++...      .....          .+....+.+|||||.
T Consensus       276 ~~V~IvG~~nvGKSSL~n~l~~~~~~------iv~~~pGvT~d~------~~~~~----------~~~~~~~~liDT~G~  333 (712)
T PRK09518        276 GVVAIVGRPNVGKSTLVNRILGRREA------VVEDTPGVTRDR------VSYDA----------EWAGTDFKLVDTGGW  333 (712)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCce------eecCCCCeeEEE------EEEEE----------EECCEEEEEEeCCCc
Confidence            57999999999999999999876531      111111111110      00000          111123999999996


Q ss_pred             cc--------hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         105 ES--------FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       105 ~~--------~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      ..        +......+++.+|++|+|+|++++....+..++..++..++|+++|+||+|+...     ...... .  
T Consensus       334 ~~~~~~~~~~~~~~~~~~~~~aD~iL~VvDa~~~~~~~d~~i~~~Lr~~~~pvIlV~NK~D~~~~-----~~~~~~-~--  405 (712)
T PRK09518        334 EADVEGIDSAIASQAQIAVSLADAVVFVVDGQVGLTSTDERIVRMLRRAGKPVVLAVNKIDDQAS-----EYDAAE-F--  405 (712)
T ss_pred             CCCCccHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEEEEEECcccccc-----hhhHHH-H--
Confidence            53        3344456788999999999999988888888888888899999999999998631     111111 1  


Q ss_pred             hhccccccccccccccCcceeEEeecCCCC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      ....+ ...+++||++|.|+.+++..+...
T Consensus       406 ~~lg~-~~~~~iSA~~g~GI~eLl~~i~~~  434 (712)
T PRK09518        406 WKLGL-GEPYPISAMHGRGVGDLLDEALDS  434 (712)
T ss_pred             HHcCC-CCeEEEECCCCCCchHHHHHHHHh
Confidence            11111 245789999999999877666543

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.79  E-value=3.3e-19  Score=154.49  Aligned_cols=170  Identities=17%  Similarity=0.159  Sum_probs=101.6

Q ss_pred             hhhhhhhhhhhcCCCCccc---------cc-ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccc
Q psy6316           3 AVFNKRREKIEENPEDENF---------MR-AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIR   72 (259)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~---------~r-~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   72 (259)
                      +.|.+.+.+.-..++.+..         +| -..|+++|.||||||||+|+|++.+..      + ..+..++..+....
T Consensus       127 ~~F~~s~~~~p~~~~~G~~ge~~~~~lelk~~adVglVG~pNaGKSTLLn~Lt~ak~k------I-a~ypfTTl~PnlG~  199 (424)
T PRK12297        127 AHFATSTNQAPRIAENGEPGEERELRLELKLLADVGLVGFPNVGKSTLLSVVSNAKPK------I-ANYHFTTLVPNLGV  199 (424)
T ss_pred             hhhcCCCCCCCCcCCCCCCCeEeEEEEeecccCcEEEEcCCCCCHHHHHHHHHcCCCc------c-ccCCcceeceEEEE
Confidence            4566666655555543311         11 236999999999999999999876542      1 12222222221110


Q ss_pred             cccccccCCCCCCCCCCCCCCCCeEEEeCCCCcc-------hHHHHHhhccCCCeEEEEEeCCCC---CCHHH-HHHHHH
Q psy6316          73 ENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHES-------FSNLRNRGSSLCDIAILVVDIMHG---LEPQT-IESINI  141 (259)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~-------~~~~~~~~~~~ad~~i~v~d~~~~---~~~~~-~~~l~~  141 (259)
                           +...+          ...+++|||||...       ....+...+..+|++++|+|+++.   ....+ ..+...
T Consensus       200 -----v~~~~----------~~~~~laD~PGliega~~~~gLg~~fLrhier~~llI~VID~s~~~~~dp~e~~~~i~~E  264 (424)
T PRK12297        200 -----VETDD----------GRSFVMADIPGLIEGASEGVGLGHQFLRHIERTRVIVHVIDMSGSEGRDPIEDYEKINKE  264 (424)
T ss_pred             -----EEEeC----------CceEEEEECCCCcccccccchHHHHHHHHHhhCCEEEEEEeCCccccCChHHHHHHHHHH
Confidence                 00000          11399999999532       233444556789999999999753   12222 234444


Q ss_pred             HHh-----CCCCEEEEEecccccCcccccchhhHHHHHhhhhccccccccccccccCcceeEEeecC
Q psy6316         142 LKS-----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       142 ~~~-----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +..     .++|.++|+||+|+..      ..+.   ++.+...++++++++||++++|+++++..+
T Consensus       265 L~~y~~~L~~kP~IVV~NK~DL~~------~~e~---l~~l~~~l~~~i~~iSA~tgeGI~eL~~~L  322 (424)
T PRK12297        265 LKLYNPRLLERPQIVVANKMDLPE------AEEN---LEEFKEKLGPKVFPISALTGQGLDELLYAV  322 (424)
T ss_pred             HhhhchhccCCcEEEEEeCCCCcC------CHHH---HHHHHHHhCCcEEEEeCCCCCCHHHHHHHH
Confidence            443     3689999999999742      1111   222222223678899999999999865544

>KOG0073|consensus

Probab=99.79  E-value=6.9e-19  Score=128.84  Aligned_cols=148  Identities=22%  Similarity=0.212  Sum_probs=105.4

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      +||   |.++|..||||||++++|.+....     ++....++......                     ++...+++||
T Consensus        16 E~r---iLiLGLdNsGKTti~~kl~~~~~~-----~i~pt~gf~Iktl~---------------------~~~~~L~iwD   66 (185)
T KOG0073|consen   16 EVR---ILILGLDNSGKTTIVKKLLGEDTD-----TISPTLGFQIKTLE---------------------YKGYTLNIWD   66 (185)
T ss_pred             eeE---EEEEecCCCCchhHHHHhcCCCcc-----ccCCccceeeEEEE---------------------ecceEEEEEE
Confidence            566   999999999999999999877632     23333332222211                     1112399999


Q ss_pred             CCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHH----HhCCCCEEEEEecccccCcccccchhhHH--HH
Q psy6316         101 TPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINIL----KSKKTPFVVALNKIDRLYNWNTMNRRDVR--DI  173 (259)
Q Consensus       101 tpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~----~~~~~piivv~NK~D~~~~~~~~~~~~~~--~~  173 (259)
                      ..|+..+++.|..|+..+|++|+|+|.++....++ ...+..+    +-.+.|++++.||.|+...   ...+.+.  ..
T Consensus        67 vGGq~~lr~~W~nYfestdglIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~---l~~~~i~~~~~  143 (185)
T KOG0073|consen   67 VGGQKTLRSYWKNYFESTDGLIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGA---LSLEEISKALD  143 (185)
T ss_pred             cCCcchhHHHHHHhhhccCeEEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccc---cCHHHHHHhhC
Confidence            99999999999999999999999999876544333 2222222    2357899999999999732   2334444  34


Q ss_pred             HhhhhccccccccccccccCcceeEEe
Q psy6316         174 IKSQESSVQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       174 ~~~~~~~~~~~~i~~Sa~~g~gv~~~l  200 (259)
                      ++.+.+...|+++.+||.+|+++.+-+
T Consensus       144 L~~l~ks~~~~l~~cs~~tge~l~~gi  170 (185)
T KOG0073|consen  144 LEELAKSHHWRLVKCSAVTGEDLLEGI  170 (185)
T ss_pred             HHHhccccCceEEEEeccccccHHHHH
Confidence            566667788999999999998876533

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.79  E-value=6.2e-19  Score=142.80  Aligned_cols=129  Identities=29%  Similarity=0.337  Sum_probs=86.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccC-ccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVP-ADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      +|+++|++|+|||||+++|+...-.....+.+.......... .+..+.......      ..+..+...++.+|||||+
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~------~~~~~~~~~~i~liDTPG~   74 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSA------VASFQWEDTKVNLIDTPGH   74 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeee------eEEEEECCEEEEEEeCCCc
Confidence            589999999999999999976422111111111000000000 000000000000      0001122234999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      .+|...+..+++.+|++++|+|++++...+...++..+...++|+++++||+|+..
T Consensus        75 ~~f~~~~~~~l~~aD~~IlVvd~~~g~~~~~~~~~~~~~~~~~P~iivvNK~D~~~  130 (237)
T cd04168          75 MDFIAEVERSLSVLDGAILVISAVEGVQAQTRILWRLLRKLNIPTIIFVNKIDRAG  130 (237)
T ss_pred             cchHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECccccC
Confidence            99999999999999999999999998888888888888889999999999999874

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.

>cd04169 RF3 RF3 subfamily

Probab=99.79  E-value=1.2e-18  Score=143.49  Aligned_cols=132  Identities=27%  Similarity=0.335  Sum_probs=85.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCccee--eccccccCcccc-ccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQ--QIGATNVPADAI-RENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ++|+++|++|+|||||+++|+...-.....+.+..  ..+.+..+.... +.....+...    ..+..+....+.+|||
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~----~~~~~~~~~~i~liDT   78 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSS----VMQFEYRDCVINLLDT   78 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEE----EEEEeeCCEEEEEEEC
Confidence            57999999999999999999753211111111110  001111111100 0000000000    0011223334999999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      ||+.+|......+++.+|++|+|+|++++...+...++......++|+++++||+|+..
T Consensus        79 PG~~df~~~~~~~l~~aD~~IlVvda~~g~~~~~~~i~~~~~~~~~P~iivvNK~D~~~  137 (267)
T cd04169          79 PGHEDFSEDTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLRGIPIITFINKLDREG  137 (267)
T ss_pred             CCchHHHHHHHHHHHHCCEEEEEEECCCCccHHHHHHHHHHHhcCCCEEEEEECCccCC
Confidence            99999988888889999999999999988777777788888888999999999999864

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.78  E-value=5.4e-19  Score=133.82  Aligned_cols=151  Identities=19%  Similarity=0.230  Sum_probs=94.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+++|.+..+...+.++.+............     ...                .+.+|||||+
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~----------------~~~~~D~~G~   60 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDG-----KTY----------------KFNLLDTAGQ   60 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECC-----EEE----------------EEEEEECCCc
Confidence            4699999999999999999998875443333333222111111100     001                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCC-CCHHH--HHHHHHH---HhCCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHG-LEPQT--IESINIL---KSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~-~~~~~--~~~l~~~---~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      ..+...+......++.++.++|.... .+...  ..+...+   ...+.|+++++||+|+....   ........+.   
T Consensus        61 ~~~~~~~~~~~~~~~~~i~~~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~---~~~~~~~~~~---  134 (161)
T TIGR00231        61 EDYRAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAK---LKTHVAFLFA---  134 (161)
T ss_pred             ccchHHHHHHHhhhhEEEEEEEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcch---hhHHHHHHHh---
Confidence            99988888878888888888887654 22211  1222222   22278999999999997321   1111222222   


Q ss_pred             ccccccccccccccCcceeEEeec
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      .....+++++||++|.|+.+++..
T Consensus       135 ~~~~~~~~~~sa~~~~gv~~~~~~  158 (161)
T TIGR00231       135 KLNGEPIIPLSAETGKNIDSAFKI  158 (161)
T ss_pred             hccCCceEEeecCCCCCHHHHHHH
Confidence            222456889999999999875543

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.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.78  E-value=5.9e-19  Score=154.81  Aligned_cols=150  Identities=19%  Similarity=0.161  Sum_probs=92.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ..|+++|.||||||||+|+|++.+..      + .++..+|..+....     +.           +....|+||||||.
T Consensus       160 adV~LVG~PNAGKSTLln~Ls~akpk------I-adypfTTl~P~lGv-----v~-----------~~~~~f~laDtPGl  216 (500)
T PRK12296        160 ADVGLVGFPSAGKSSLISALSAAKPK------I-ADYPFTTLVPNLGV-----VQ-----------AGDTRFTVADVPGL  216 (500)
T ss_pred             ceEEEEEcCCCCHHHHHHHHhcCCcc------c-cccCcccccceEEE-----EE-----------ECCeEEEEEECCCC
Confidence            56999999999999999999876542      2 22222332221111     10           11113999999995


Q ss_pred             cc-------hHHHHHhhccCCCeEEEEEeCCCCC----CHHHHH-HHHHH--------------HhCCCCEEEEEecccc
Q psy6316         105 ES-------FSNLRNRGSSLCDIAILVVDIMHGL----EPQTIE-SINIL--------------KSKKTPFVVALNKIDR  158 (259)
Q Consensus       105 ~~-------~~~~~~~~~~~ad~~i~v~d~~~~~----~~~~~~-~l~~~--------------~~~~~piivv~NK~D~  158 (259)
                      ..       .......++..+|++|+|+|+++..    ...+.. +...+              ...++|+++|+||+|+
T Consensus       217 iegas~g~gLg~~fLrhieradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL  296 (500)
T PRK12296        217 IPGASEGKGLGLDFLRHIERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDV  296 (500)
T ss_pred             ccccchhhHHHHHHHHHHHhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccc
Confidence            32       2233445678899999999997521    111222 11122              1246899999999998


Q ss_pred             cCcccccchhhHHHHHhhhhccccccccccccccCcceeEEeecC
Q psy6316         159 LYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ...      .+..+.+.......+++++++||+++.|+++++..+
T Consensus       297 ~da------~el~e~l~~~l~~~g~~Vf~ISA~tgeGLdEL~~~L  335 (500)
T PRK12296        297 PDA------RELAEFVRPELEARGWPVFEVSAASREGLRELSFAL  335 (500)
T ss_pred             hhh------HHHHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHH
Confidence            632      222333332333346788999999999998865444

>PRK11058 GTPase HflX; Provisional

Probab=99.77  E-value=1.1e-18  Score=151.95  Aligned_cols=150  Identities=17%  Similarity=0.283  Sum_probs=92.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      +.|+++|.+|||||||+|+|++..+...       +...++..+....-.   ..  +          ...+.+|||||.
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~v~-------~~~~tTld~~~~~i~---l~--~----------~~~~~l~DTaG~  255 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVYAA-------DQLFATLDPTLRRID---VA--D----------VGETVLADTVGF  255 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeec-------cCCCCCcCCceEEEE---eC--C----------CCeEEEEecCcc
Confidence            6799999999999999999987664311       111112211110000   00  0          012899999996


Q ss_pred             cch--HHH------HHhhccCCCeEEEEEeCCCCCCHHHH----HHHHHHHhCCCCEEEEEecccccCcccccchhhHHH
Q psy6316         105 ESF--SNL------RNRGSSLCDIAILVVDIMHGLEPQTI----ESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       105 ~~~--~~~------~~~~~~~ad~~i~v~d~~~~~~~~~~----~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      .+.  ...      +...+..+|++++|+|++++......    .++..+...++|+++|+||+|+....    .... .
T Consensus       256 ~r~lp~~lve~f~~tl~~~~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~~----~~~~-~  330 (426)
T PRK11058        256 IRHLPHDLVAAFKATLQETRQATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDDF----EPRI-D  330 (426)
T ss_pred             cccCCHHHHHHHHHHHHHhhcCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCch----hHHH-H
Confidence            321  111      22346889999999999887655543    33444444579999999999986321    0111 1


Q ss_pred             HHhhhhcccccc-ccccccccCcceeEEeecCCCC
Q psy6316         173 IIKSQESSVQTH-KTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       173 ~~~~~~~~~~~~-~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                         ..  ..+.+ .+.+||++|.|++.++..+...
T Consensus       331 ---~~--~~~~~~~v~ISAktG~GIdeL~e~I~~~  360 (426)
T PRK11058        331 ---RD--EENKPIRVWLSAQTGAGIPLLFQALTER  360 (426)
T ss_pred             ---HH--hcCCCceEEEeCCCCCCHHHHHHHHHHH
Confidence               11  11233 4789999999999877666443

>KOG0091|consensus

Probab=99.77  E-value=8.2e-19  Score=128.32  Aligned_cols=149  Identities=17%  Similarity=0.150  Sum_probs=114.1

Q ss_pred             EEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHES  106 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~  106 (259)
                      +.++|++-+|||||+..+...++.+-..++++.+.-.......    ....+                .+.+|||+|+++
T Consensus        11 livigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~----pg~ri----------------klqlwdtagqer   70 (213)
T KOG0091|consen   11 LIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELR----PGYRI----------------KLQLWDTAGQER   70 (213)
T ss_pred             EEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcC----CCcEE----------------EEEEeeccchHH
Confidence            9999999999999999999999887666666655432222111    11111                299999999999


Q ss_pred             hHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHhC----CCC-EEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         107 FSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKSK----KTP-FVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       107 ~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~~----~~p-iivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      |++...++++.+=++++|+|.++..+....+ |+......    .++ ..+|++|+|+..     .++...+..+++.+.
T Consensus        71 frsitksyyrnsvgvllvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~S-----qRqVt~EEaEklAa~  145 (213)
T KOG0091|consen   71 FRSITKSYYRNSVGVLLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQS-----QRQVTAEEAEKLAAS  145 (213)
T ss_pred             HHHHHHHHhhcccceEEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhh-----hccccHHHHHHHHHh
Confidence            9999999999999999999999987777665 33333321    233 467999999974     355666777888888


Q ss_pred             ccccccccccccCcceeEEe
Q psy6316         181 VQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l  200 (259)
                      .+..++++||++|.|+++.+
T Consensus       146 hgM~FVETSak~g~NVeEAF  165 (213)
T KOG0091|consen  146 HGMAFVETSAKNGCNVEEAF  165 (213)
T ss_pred             cCceEEEecccCCCcHHHHH
Confidence            89999999999999998743

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

Probab=99.77  E-value=7.6e-19  Score=136.07  Aligned_cols=146  Identities=19%  Similarity=0.174  Sum_probs=87.0

Q ss_pred             EEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCC-CCCeEEEeCCCCcc-
Q psy6316          29 VLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLE-IPGLLIIDTPGHES-  106 (259)
Q Consensus        29 v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~liDtpG~~~-  106 (259)
                      ++|++|||||||+|+|.+.......       ...++..+....     +           .+. ...+.||||||+.. 
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~-------~~~~t~~~~~~~-----~-----------~~~~~~~~~i~DtpG~~~~   57 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVAN-------YPFTTLEPNLGV-----V-----------EVPDGARIQVADIPGLIEG   57 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccC-------CCceeecCcceE-----E-----------EcCCCCeEEEEeccccchh
Confidence            5899999999999999887541111       111111111000     0           011 12399999999632 


Q ss_pred             ------hHHHHHhhccCCCeEEEEEeCCCCC------CHHHHH-HHHHHH----------hCCCCEEEEEecccccCccc
Q psy6316         107 ------FSNLRNRGSSLCDIAILVVDIMHGL------EPQTIE-SINILK----------SKKTPFVVALNKIDRLYNWN  163 (259)
Q Consensus       107 ------~~~~~~~~~~~ad~~i~v~d~~~~~------~~~~~~-~l~~~~----------~~~~piivv~NK~D~~~~~~  163 (259)
                            ....+...++.+|++++|+|+++..      ...+.. +...+.          ..++|+++|+||+|+...  
T Consensus        58 ~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~--  135 (176)
T cd01881          58 ASEGRGLGNQFLAHIRRADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDA--  135 (176)
T ss_pred             hhcCCCccHHHHHHHhccCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCch--
Confidence                  1122345577899999999998763      222222 222222          146899999999999732  


Q ss_pred             ccchhhHHHH-HhhhhccccccccccccccCcceeEEeecC
Q psy6316         164 TMNRRDVRDI-IKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       164 ~~~~~~~~~~-~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                          ...... ...........++++||++|.|++++++.+
T Consensus       136 ----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gl~~l~~~l  172 (176)
T cd01881         136 ----EELEEELVRELALEEGAEVVPISAKTEEGLDELIRAI  172 (176)
T ss_pred             ----hHHHHHHHHHHhcCCCCCEEEEehhhhcCHHHHHHHH
Confidence                111111 122233345678899999999998765543

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

>KOG0088|consensus

Probab=99.77  E-value=1.1e-19  Score=132.23  Aligned_cols=153  Identities=22%  Similarity=0.194  Sum_probs=115.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|..-+|||||+-+++..+|....-.++...+-.....++..                     .-++.||||+|+
T Consensus        14 FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~---------------------ra~L~IWDTAGQ   72 (218)
T KOG0088|consen   14 FKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDC---------------------RADLHIWDTAGQ   72 (218)
T ss_pred             eEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccc---------------------eeeeeeeeccch
Confidence            55999999999999999999988886655444433222222221111                     113999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ++|..+-.-|+++++++++|+|.++..+++... |...++.   ..+-+++|+||+|+..     ++....+....+...
T Consensus        73 ErfHALGPIYYRgSnGalLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEe-----eR~Vt~qeAe~YAes  147 (218)
T KOG0088|consen   73 ERFHALGPIYYRGSNGALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEE-----ERQVTRQEAEAYAES  147 (218)
T ss_pred             HhhhccCceEEeCCCceEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHH-----hhhhhHHHHHHHHHh
Confidence            999999889999999999999999987777644 5555554   3467899999999963     345566667777888


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+..++.+||+.+.|+.+++..+
T Consensus       148 vGA~y~eTSAk~N~Gi~elFe~L  170 (218)
T KOG0088|consen  148 VGALYMETSAKDNVGISELFESL  170 (218)
T ss_pred             hchhheecccccccCHHHHHHHH
Confidence            88899999999999999876544

>PLN00023 GTP-binding protein; Provisional

Probab=99.77  E-value=4.7e-18  Score=140.85  Aligned_cols=133  Identities=17%  Similarity=0.195  Sum_probs=90.3

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEE
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLII   99 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li   99 (259)
                      +.+...+|+++|..|+|||||++++.+..+...+..+++.++................+..-        .-....+.||
T Consensus        17 ~~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d--------~~k~v~LqIW   88 (334)
T PLN00023         17 PPCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGD--------SERDFFVELW   88 (334)
T ss_pred             CCccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCccccccccccc--------CCceEEEEEE
Confidence            44555679999999999999999999988876666666554432221111000000000000        0000129999


Q ss_pred             eCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHhC---------------CCCEEEEEecccccC
Q psy6316         100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKSK---------------KTPFVVALNKIDRLY  160 (259)
Q Consensus       100 DtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~~---------------~~piivv~NK~D~~~  160 (259)
                      ||+|++.|..++..+++.+|++|+|+|+++..+..... |+..+...               ++|+++|+||+|+..
T Consensus        89 DTAGqErfrsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~  165 (334)
T PLN00023         89 DVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAP  165 (334)
T ss_pred             ECCCChhhhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccccc
Confidence            99999999999999999999999999999866655543 55555432               378999999999863

>KOG0461|consensus

Probab=99.76  E-value=2.5e-18  Score=140.40  Aligned_cols=194  Identities=23%  Similarity=0.281  Sum_probs=137.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc-------cCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeE
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN-------VQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLL   97 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (259)
                      .|++++|+.++|||||.++|....       -.+...++++-+.|.....+.....-.              ....-+++
T Consensus         8 ~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLp--------------q~e~lq~t   73 (522)
T KOG0461|consen    8 LNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLP--------------QGEQLQFT   73 (522)
T ss_pred             eeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccC--------------ccccceeE
Confidence            579999999999999999995321       112223456666665555443322111              11112499


Q ss_pred             EEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcc-cccchhhHHHHHhh
Q psy6316          98 IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNW-NTMNRRDVRDIIKS  176 (259)
Q Consensus        98 liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~-~~~~~~~~~~~~~~  176 (259)
                      ++|||||...........+..|+.++|+|+..+.+.+..+.+-.-.....+.++|+||+|..... .....++....+++
T Consensus        74 lvDCPGHasLIRtiiggaqiiDlm~lviDv~kG~QtQtAEcLiig~~~c~klvvvinkid~lpE~qr~ski~k~~kk~~K  153 (522)
T KOG0461|consen   74 LVDCPGHASLIRTIIGGAQIIDLMILVIDVQKGKQTQTAECLIIGELLCKKLVVVINKIDVLPENQRASKIEKSAKKVRK  153 (522)
T ss_pred             EEeCCCcHHHHHHHHhhhheeeeeeEEEehhcccccccchhhhhhhhhccceEEEEeccccccchhhhhHHHHHHHHHHH
Confidence            99999999988888888999999999999999999999888777777778899999999987431 11222333333333


Q ss_pred             hhcc----ccccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHHH
Q psy6316         177 QESS----VQTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDL  252 (259)
Q Consensus       177 ~~~~----~~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~i  252 (259)
                      ..+.    .+.+++++||+.|+--                          .+.+.|..+++.+.+-.|.++...||+|.+
T Consensus       154 tLe~t~f~g~~PI~~vsa~~G~~~--------------------------~~~i~eL~e~l~s~if~P~Rd~~gpflm~v  207 (522)
T KOG0461|consen  154 TLESTGFDGNSPIVEVSAADGYFK--------------------------EEMIQELKEALESRIFEPKRDEEGPFLMAV  207 (522)
T ss_pred             HHHhcCcCCCCceeEEecCCCccc--------------------------hhHHHHHHHHHHHhhcCCCcCCCCCeEEEe
Confidence            3332    2468889999988321                          122345566677778899999999999999


Q ss_pred             HHhhcc
Q psy6316         253 KKVFQI  258 (259)
Q Consensus       253 ~~~~~~  258 (259)
                      +++|.|
T Consensus       208 DHCF~I  213 (522)
T KOG0461|consen  208 DHCFAI  213 (522)
T ss_pred             eeeEEe
Confidence            999987

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.76  E-value=9e-19  Score=158.56  Aligned_cols=144  Identities=21%  Similarity=0.235  Sum_probs=95.9

Q ss_pred             eeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCcchHHH
Q psy6316          31 GHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNL  110 (259)
Q Consensus        31 G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~  110 (259)
                      |.+|+|||||+|+|.+..+...+.++.+.+.......                       +...++++|||||+.++...
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~-----------------------~~~~~i~lvDtPG~~~~~~~   57 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLG-----------------------FQGEDIEIVDLPGIYSLTTF   57 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEE-----------------------ECCeEEEEEECCCccccCcc
Confidence            8999999999999998765433333222211110000                       01113899999998765432


Q ss_pred             ------HHhhc--cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhcccc
Q psy6316         111 ------RNRGS--SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ  182 (259)
Q Consensus       111 ------~~~~~--~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~  182 (259)
                            ...++  +.+|++++|+|+++.  ........++.+.++|+++++||+|+...      .......+.+.+.++
T Consensus        58 s~~e~v~~~~l~~~~aDvvI~VvDat~l--er~l~l~~ql~~~~~PiIIVlNK~Dl~~~------~~i~~d~~~L~~~lg  129 (591)
T TIGR00437        58 SLEEEVARDYLLNEKPDLVVNVVDASNL--ERNLYLTLQLLELGIPMILALNLVDEAEK------KGIRIDEEKLEERLG  129 (591)
T ss_pred             chHHHHHHHHHhhcCCCEEEEEecCCcc--hhhHHHHHHHHhcCCCEEEEEehhHHHHh------CCChhhHHHHHHHcC
Confidence                  22232  479999999999763  33455666677789999999999998632      112222344445557


Q ss_pred             ccccccccccCcceeEEeecCCC
Q psy6316         183 THKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       183 ~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      .+++++||++|+|++++++.+..
T Consensus       130 ~pvv~tSA~tg~Gi~eL~~~i~~  152 (591)
T TIGR00437       130 VPVVPTSATEGRGIERLKDAIRK  152 (591)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            88999999999999998776644

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.

>KOG0081|consensus

Probab=99.75  E-value=2.2e-19  Score=130.66  Aligned_cols=155  Identities=20%  Similarity=0.164  Sum_probs=111.0

Q ss_pred             EEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHES  106 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~  106 (259)
                      ++.+|.+|+||||++.+....++......+++.++.........        .+.++    .+.....++.+|||+|+++
T Consensus        12 fLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s--------~gp~g----~gr~~rihLQlWDTAGQER   79 (219)
T KOG0081|consen   12 FLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNS--------SGPGG----GGRGQRIHLQLWDTAGQER   79 (219)
T ss_pred             HHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEec--------cCCCC----CCcceEEEEeeeccccHHH
Confidence            67899999999999999988887655433343332211111100        00000    0122222489999999999


Q ss_pred             hHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHhC----CCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         107 FSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKSK----KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       107 ~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~~----~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      |+++...++++|-++++++|.++..+.-+ ..|+.+++..    +-.+++++||+|+..     .+..-......+....
T Consensus        80 FRSLTTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~-----~R~Vs~~qa~~La~ky  154 (219)
T KOG0081|consen   80 FRSLTTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLED-----QRVVSEDQAAALADKY  154 (219)
T ss_pred             HHHHHHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhh-----hhhhhHHHHHHHHHHh
Confidence            99999999999999999999998766655 4577887763    345888999999974     2333445566777888


Q ss_pred             cccccccccccCcceeE
Q psy6316         182 QTHKTVESARKGQEICI  198 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~  198 (259)
                      +.++|++||-+|.++++
T Consensus       155 glPYfETSA~tg~Nv~k  171 (219)
T KOG0081|consen  155 GLPYFETSACTGTNVEK  171 (219)
T ss_pred             CCCeeeeccccCcCHHH
Confidence            99999999999999976

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.75  E-value=1.8e-18  Score=129.76  Aligned_cols=149  Identities=21%  Similarity=0.232  Sum_probs=95.6

Q ss_pred             EEeeCCCChhHHHhHHhccccC-CCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCcch
Q psy6316          29 VLGHVDTGKTKILDKLRRTNVQ-DGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESF  107 (259)
Q Consensus        29 v~G~~~~GKStlin~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~  107 (259)
                      ++|++|+|||||++++.+.... .....+. ...........                     .....+.+||+||+..+
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~---------------------~~~~~~~l~D~~g~~~~   58 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVD---------------------GKKVKLQIWDTAGQERF   58 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEEC---------------------CEEEEEEEEecCChHHH
Confidence            5899999999999999887652 1111111 11110000000                     00112999999999888


Q ss_pred             HHHHHhhccCCCeEEEEEeCCCCCCHHHHHHH-----HHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhcccc
Q psy6316         108 SNLRNRGSSLCDIAILVVDIMHGLEPQTIESI-----NILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ  182 (259)
Q Consensus       108 ~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l-----~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~  182 (259)
                      ...+...++.+|++++|+|++..........+     ......+.|+++++||+|+......   ... ...........
T Consensus        59 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~---~~~-~~~~~~~~~~~  134 (157)
T cd00882          59 RSLRRLYYRGADGIILVYDVTDRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVV---SEE-ELAEQLAKELG  134 (157)
T ss_pred             HhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccch---HHH-HHHHHHHhhcC
Confidence            88888888999999999999886555444432     2334467999999999998743211   111 01222233345


Q ss_pred             ccccccccccCcceeEEeecC
Q psy6316         183 THKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       183 ~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+++++|++++.|+.+++..+
T Consensus       135 ~~~~~~s~~~~~~i~~~~~~l  155 (157)
T cd00882         135 VPYFETSAKTGENVEELFEEL  155 (157)
T ss_pred             CcEEEEecCCCCChHHHHHHH
Confidence            788899999999987755443

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

>KOG0097|consensus

Probab=99.75  E-value=4.7e-18  Score=121.46  Aligned_cols=149  Identities=18%  Similarity=0.161  Sum_probs=112.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+-.++|..|+|||+|+..+...++-..-..+++..++.....+....     +                .+.+|||+|+
T Consensus        12 fkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqk-----i----------------klqiwdtagq   70 (215)
T KOG0097|consen   12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQK-----I----------------KLQIWDTAGQ   70 (215)
T ss_pred             EEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcE-----E----------------EEEEeecccH
Confidence            348899999999999999999988876665666666654433332211     1                2999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHhC---CCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKSK---KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~~---~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ++|+....++++.+-++++|+|.+...+...+. |+.-.+..   +.-++++.||+|+..     .++...+..+.+...
T Consensus        71 erfravtrsyyrgaagalmvyditrrstynhlsswl~dar~ltnpnt~i~lignkadle~-----qrdv~yeeak~faee  145 (215)
T KOG0097|consen   71 ERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLES-----QRDVTYEEAKEFAEE  145 (215)
T ss_pred             HHHHHHHHHHhccccceeEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhhh-----cccCcHHHHHHHHhh
Confidence            999999999999999999999998876665554 44444444   344778999999864     234444555666666


Q ss_pred             ccccccccccccCcceeEE
Q psy6316         181 VQTHKTVESARKGQEICIK  199 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~  199 (259)
                      .+.-++.+||++|.+++..
T Consensus       146 ngl~fle~saktg~nveda  164 (215)
T KOG0097|consen  146 NGLMFLEASAKTGQNVEDA  164 (215)
T ss_pred             cCeEEEEecccccCcHHHH
Confidence            6778889999999999763

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.75  E-value=7.7e-18  Score=129.12  Aligned_cols=148  Identities=19%  Similarity=0.231  Sum_probs=93.6

Q ss_pred             EEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHES  106 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~  106 (259)
                      |+++|.+|+|||||+|.|.+........+..+.+.     .....        ..+.           .+++|||||+..
T Consensus         2 i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~-----~~~~~--------~~~~-----------~~~~~D~~g~~~   57 (170)
T cd01876           2 IAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQ-----LINFF--------NVND-----------KFRLVDLPGYGY   57 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcce-----eEEEE--------EccC-----------eEEEecCCCccc
Confidence            89999999999999999985444322221111111     00000        0000           299999999543


Q ss_pred             ----------hHHHHHhhc---cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHH
Q psy6316         107 ----------FSNLRNRGS---SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDI  173 (259)
Q Consensus       107 ----------~~~~~~~~~---~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~  173 (259)
                                +......++   ..++++++++|.+...+......+..+...+.|+++++||+|+....   ........
T Consensus        58 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~~~~~vi~v~nK~D~~~~~---~~~~~~~~  134 (170)
T cd01876          58 AKVSKEVKEKWGKLIEEYLENRENLKGVVLLIDSRHGPTEIDLEMLDWLEELGIPFLVVLTKADKLKKS---ELAKALKE  134 (170)
T ss_pred             cccCHHHHHHHHHHHHHHHHhChhhhEEEEEEEcCcCCCHhHHHHHHHHHHcCCCEEEEEEchhcCChH---HHHHHHHH
Confidence                      233333333   35688999999987766667777788888889999999999986321   12222222


Q ss_pred             Hhhhhc--cccccccccccccCcceeEEee
Q psy6316         174 IKSQES--SVQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       174 ~~~~~~--~~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      +.....  ....+++++||+++.|+.+++.
T Consensus       135 ~~~~l~~~~~~~~~~~~Sa~~~~~~~~l~~  164 (170)
T cd01876         135 IKKELKLFEIDPPIILFSSLKGQGIDELRA  164 (170)
T ss_pred             HHHHHHhccCCCceEEEecCCCCCHHHHHH
Confidence            332222  3346778999999998877443

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.

>cd00880 Era_like Era (E

Probab=99.75  E-value=5.1e-18  Score=128.58  Aligned_cols=150  Identities=21%  Similarity=0.250  Sum_probs=95.5

Q ss_pred             EEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCcchH
Q psy6316          29 VLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFS  108 (259)
Q Consensus        29 v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~  108 (259)
                      ++|++|+|||||+++|.+......     ....+ ++...........               ....+.+|||||+..+.
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~-----~~~~~-~~~~~~~~~~~~~---------------~~~~~~~~Dt~g~~~~~   59 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIV-----SPVPG-TTTDPVEYVWELG---------------PLGPVVLIDTPGIDEAG   59 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCcccccc-----CCCCC-cEECCeEEEEEec---------------CCCcEEEEECCCCCccc
Confidence            589999999999999987655311     00001 1111100000000               01139999999966543


Q ss_pred             -------HHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHH-HHhhhhcc
Q psy6316         109 -------NLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRD-IIKSQESS  180 (259)
Q Consensus       109 -------~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~-~~~~~~~~  180 (259)
                             ......++.+|++++|+|+..........+.......+.|+++|+||+|+....   ....... ........
T Consensus        60 ~~~~~~~~~~~~~~~~~d~il~v~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nK~D~~~~~---~~~~~~~~~~~~~~~~  136 (163)
T cd00880          60 GLGREREELARRVLERADLILFVVDADLRADEEEEKLLELLRERGKPVLLVLNKIDLLPEE---EEEELLELRLLILLLL  136 (163)
T ss_pred             cchhhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCeEEEEEEccccCChh---hHHHHHHHHHhhcccc
Confidence                   344457789999999999998877766666677777899999999999997431   1111110 11222333


Q ss_pred             ccccccccccccCcceeEEeec
Q psy6316         181 VQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ...+++++||+++.|+..++..
T Consensus       137 ~~~~~~~~sa~~~~~v~~l~~~  158 (163)
T cd00880         137 LGLPVIAVSALTGEGIDELREA  158 (163)
T ss_pred             cCCceEEEeeeccCCHHHHHHH
Confidence            4577889999999998775443

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

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.74  E-value=6.5e-17  Score=149.78  Aligned_cols=159  Identities=21%  Similarity=0.224  Sum_probs=100.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeec-cccccCc-cccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQI-GATNVPA-DAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      .++|+++|++|+|||||+++|+...-....   ++... +.+..+. ...+.....+...    .....+...+++||||
T Consensus        10 irni~iiG~~~~GKsTL~~~ll~~~g~~~~---~~~~~~g~~~~D~~~~e~~rgiti~~~----~~~~~~~~~~i~liDT   82 (689)
T TIGR00484        10 FRNIGISAHIDAGKTTTTERILFYTGRIHK---IGEVHDGAATMDWMEQEKERGITITSA----ATTVFWKGHRINIIDT   82 (689)
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHhCCCccc---cccccCCccccCCCHHHHhcCCCEecc----eEEEEECCeEEEEEEC
Confidence            458999999999999999999753211000   00000 0000000 0000000000000    0001122334999999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      ||+.++...+..+++.+|++++|+|++++...++..++..+...++|+++++||+|+...    ......+.+.......
T Consensus        83 PG~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~p~ivviNK~D~~~~----~~~~~~~~i~~~l~~~  158 (689)
T TIGR00484        83 PGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVWRQANRYEVPRIAFVNKMDKTGA----NFLRVVNQIKQRLGAN  158 (689)
T ss_pred             CCCcchhHHHHHHHHHhCEEEEEEeCCCCCChhHHHHHHHHHHcCCCEEEEEECCCCCCC----CHHHHHHHHHHHhCCC
Confidence            999998888889999999999999999998888888999999899999999999999743    2333444444433322


Q ss_pred             cc-cccccccccC
Q psy6316         182 QT-HKTVESARKG  193 (259)
Q Consensus       182 ~~-~~i~~Sa~~g  193 (259)
                      .+ ..+++|+..+
T Consensus       159 ~~~~~ipis~~~~  171 (689)
T TIGR00484       159 AVPIQLPIGAEDN  171 (689)
T ss_pred             ceeEEeccccCCC
Confidence            22 3467898766

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.

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

Probab=99.74  E-value=4.6e-18  Score=124.77  Aligned_cols=134  Identities=19%  Similarity=0.159  Sum_probs=88.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC--
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG--  103 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG--  103 (259)
                      +|.++|++|||||||+++|.+.......              .+...                  +.   =.+|||||  
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~~~~~K--------------Tq~i~------------------~~---~~~IDTPGEy   47 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEEIRYKK--------------TQAIE------------------YY---DNTIDTPGEY   47 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCCCCcCc--------------cceeE------------------ec---ccEEECChhh
Confidence            6999999999999999999776542110              00000                  00   24699999  


Q ss_pred             --CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         104 --HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       104 --~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                        ...|...+.....+||++++|.|+++....-.-.+   ....+.|+|-|+||+|+..+     ..+ .+..+++....
T Consensus        48 iE~~~~y~aLi~ta~dad~V~ll~dat~~~~~~pP~f---a~~f~~pvIGVITK~Dl~~~-----~~~-i~~a~~~L~~a  118 (143)
T PF10662_consen   48 IENPRFYHALIVTAQDADVVLLLQDATEPRSVFPPGF---ASMFNKPVIGVITKIDLPSD-----DAN-IERAKKWLKNA  118 (143)
T ss_pred             eeCHHHHHHHHHHHhhCCEEEEEecCCCCCccCCchh---hcccCCCEEEEEECccCccc-----hhh-HHHHHHHHHHc
Confidence              45566666777789999999999987543322222   23457899999999999732     112 22222233222


Q ss_pred             cc-cccccccccCcceeEEeecC
Q psy6316         182 QT-HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       182 ~~-~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ++ .+|.+|+.+|+|++++.+.+
T Consensus       119 G~~~if~vS~~~~eGi~eL~~~L  141 (143)
T PF10662_consen  119 GVKEIFEVSAVTGEGIEELKDYL  141 (143)
T ss_pred             CCCCeEEEECCCCcCHHHHHHHH
Confidence            33 56789999999998865543

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

>PRK09866 hypothetical protein; Provisional

Probab=99.74  E-value=1.3e-17  Score=147.61  Aligned_cols=112  Identities=17%  Similarity=0.171  Sum_probs=82.6

Q ss_pred             CCeEEEeCCCCcc-----hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCC--CCEEEEEecccccCcccccc
Q psy6316          94 PGLLIIDTPGHES-----FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKK--TPFVVALNKIDRLYNWNTMN  166 (259)
Q Consensus        94 ~~~~liDtpG~~~-----~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~--~piivv~NK~D~~~~~~~~~  166 (259)
                      .+++|+||||...     +...+...+..+|+++||+|++...+..+..+++.++..+  .|+++|+||+|+...+ ...
T Consensus       230 ~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~DeeIlk~Lkk~~K~~PVILVVNKIDl~dre-edd  308 (741)
T PRK09866        230 GQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISDEEVREAILAVGQSVPLYVLVNKFDQQDRN-SDD  308 (741)
T ss_pred             CCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhHHHHHHHHHhcCCCCCEEEEEEcccCCCcc-cch
Confidence            4699999999422     3445667889999999999998888888888888888877  4999999999986322 112


Q ss_pred             hhhHHHHHhhhh--ccc-cccccccccccCcceeEEeecCCCC
Q psy6316         167 RRDVRDIIKSQE--SSV-QTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       167 ~~~~~~~~~~~~--~~~-~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      .+.+...+....  ... ...++++||++|.|++.++..+...
T Consensus       309 kE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~~  351 (741)
T PRK09866        309 ADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELANN  351 (741)
T ss_pred             HHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHhC
Confidence            344555444332  122 2367899999999999987777553

>KOG0395|consensus

Probab=99.74  E-value=2.9e-18  Score=134.47  Aligned_cols=158  Identities=20%  Similarity=0.138  Sum_probs=118.4

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+++|.+|+|||+|+.++.+..+...+.++++..+... ...+     ....                .+.|+||+
T Consensus         2 ~~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptied~y~k~-~~v~-----~~~~----------------~l~ilDt~   59 (196)
T KOG0395|consen    2 REYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIEDSYRKE-LTVD-----GEVC----------------MLEILDTA   59 (196)
T ss_pred             CceEEEEECCCCCCcchheeeecccccccccCCCccccceEE-EEEC-----CEEE----------------EEEEEcCC
Confidence            345699999999999999999999999888777776333211 1111     0111                28899999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      |+.++..+...++..+|++++|++.++..+.+... +..++.+    ..+|+++|+||+|+...     +....+.-+.+
T Consensus        60 g~~~~~~~~~~~~~~~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~-----R~V~~eeg~~l  134 (196)
T KOG0395|consen   60 GQEEFSAMRDLYIRNGDGFLLVYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERE-----RQVSEEEGKAL  134 (196)
T ss_pred             CcccChHHHHHhhccCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhc-----cccCHHHHHHH
Confidence            99999999999999999999999999987777654 3333322    34799999999999742     33334445555


Q ss_pred             hccccccccccccccCcceeEEeecCCCCC
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEPIPGEA  207 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~~  207 (259)
                      ...+.+.++++||+...++++++..++.+.
T Consensus       135 a~~~~~~f~E~Sak~~~~v~~~F~~L~r~~  164 (196)
T KOG0395|consen  135 ARSWGCAFIETSAKLNYNVDEVFYELVREI  164 (196)
T ss_pred             HHhcCCcEEEeeccCCcCHHHHHHHHHHHH
Confidence            777888988999999999998776665543

>KOG0070|consensus

Probab=99.74  E-value=1.8e-18  Score=129.94  Aligned_cols=152  Identities=20%  Similarity=0.190  Sum_probs=104.2

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEE
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLII   99 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li   99 (259)
                      .++|   |+++|-.+|||||++++|...++... -+++    |.+...+                     .|++..+++|
T Consensus        16 ~e~~---IlmlGLD~AGKTTILykLk~~E~vtt-vPTi----GfnVE~v---------------------~ykn~~f~vW   66 (181)
T KOG0070|consen   16 KEMR---ILMVGLDAAGKTTILYKLKLGEIVTT-VPTI----GFNVETV---------------------EYKNISFTVW   66 (181)
T ss_pred             ceEE---EEEEeccCCCceeeeEeeccCCcccC-CCcc----ccceeEE---------------------EEcceEEEEE
Confidence            4556   99999999999999999976665432 1222    2111111                     1222239999


Q ss_pred             eCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-H-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316         100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-I-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus       100 DtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      |..|+..++..|..|++..+++|||+|+++.....+ + ++...+..   .+.|+++..||.|+...-   +..++.+.+
T Consensus        67 DvGGq~k~R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~al---s~~ei~~~L  143 (181)
T KOG0070|consen   67 DVGGQEKLRPLWKHYFQNTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGAL---SAAEITNKL  143 (181)
T ss_pred             ecCCCcccccchhhhccCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccccC---CHHHHHhHh
Confidence            999999999999999999999999999987544332 2 23333333   368999999999998543   233344433


Q ss_pred             hhh-hccccccccccccccCcceeEEeecC
Q psy6316         175 KSQ-ESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       175 ~~~-~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ... .....|.+..++|.+|+|+.+.++.+
T Consensus       144 ~l~~l~~~~w~iq~~~a~~G~GL~egl~wl  173 (181)
T KOG0070|consen  144 GLHSLRSRNWHIQSTCAISGEGLYEGLDWL  173 (181)
T ss_pred             hhhccCCCCcEEeeccccccccHHHHHHHH
Confidence            322 22357788899999999997754433

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.73  E-value=1.5e-18  Score=146.96  Aligned_cols=169  Identities=28%  Similarity=0.353  Sum_probs=123.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcccc---------------CCCCCCcceeeccccccCccccccccccccCCCCCCCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNV---------------QDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGP   88 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (259)
                      .+|+.++.+-++|||||..+|+...-               .-...++++...-.........       .   +     
T Consensus         9 IRNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~-------~---g-----   73 (603)
T COG0481           9 IRNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAK-------D---G-----   73 (603)
T ss_pred             ccceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeC-------C---C-----
Confidence            45899999999999999999964311               0011122222111111111000       0   0     


Q ss_pred             CCCCCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchh
Q psy6316          89 GPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRR  168 (259)
Q Consensus        89 ~~~~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~  168 (259)
                      ..|   .++++|||||.+|.....+.+..|.++++|+|++.+...|+........+.+.-+|.|+||+|++..    ..+
T Consensus        74 ~~Y---~lnlIDTPGHVDFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAle~~LeIiPViNKIDLP~A----dpe  146 (603)
T COG0481          74 ETY---VLNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALENNLEIIPVLNKIDLPAA----DPE  146 (603)
T ss_pred             CEE---EEEEcCCCCccceEEEehhhHhhCCCcEEEEECccchHHHHHHHHHHHHHcCcEEEEeeecccCCCC----CHH
Confidence            022   2999999999999999999999999999999999999999999888888999999999999999865    345


Q ss_pred             hHHHHHhhhhccccccccccccccCcceeEEeecCCCCCCcccccC
Q psy6316         169 DVRDIIKSQESSVQTHKTVESARKGQEICIKIEPIPGEAPKMFGRH  214 (259)
Q Consensus       169 ~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~  214 (259)
                      ...+.++.....-....+.+||++|.|++++++++....|...+..
T Consensus       147 rvk~eIe~~iGid~~dav~~SAKtG~gI~~iLe~Iv~~iP~P~g~~  192 (603)
T COG0481         147 RVKQEIEDIIGIDASDAVLVSAKTGIGIEDVLEAIVEKIPPPKGDP  192 (603)
T ss_pred             HHHHHHHHHhCCCcchheeEecccCCCHHHHHHHHHhhCCCCCCCC
Confidence            5566666555444456788999999999999998888777655443

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.73  E-value=1.9e-18  Score=139.82  Aligned_cols=178  Identities=24%  Similarity=0.287  Sum_probs=119.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcccc---CCCCCCcceeeccccccCccccccccccccCCCCCCCCC-C---CCCCCCe
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNV---QDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGP-G---PLEIPGL   96 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~---~~~~~~~   96 (259)
                      ..||+++|+.++|||||..+|.+-..   .+.-.+.++...|+....+..=.+.... .+......|+ +   .-..+.+
T Consensus        10 ~vNIG~vGHVdHGKtTlv~AlsGvwT~~hseElkRgitIkLGYAd~~i~kC~~c~~~-~~y~~~~~C~~cg~~~~l~R~V   88 (415)
T COG5257          10 EVNIGMVGHVDHGKTTLTKALSGVWTDRHSEELKRGITIKLGYADAKIYKCPECYRP-ECYTTEPKCPNCGAETELVRRV   88 (415)
T ss_pred             ceEeeeeeecccchhhheehhhceeeechhHHHhcCcEEEeccccCceEeCCCCCCC-cccccCCCCCCCCCCccEEEEE
Confidence            45799999999999999999987643   2333456777777666554332222111 1111111111 1   1223359


Q ss_pred             EEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCC-CCHHHHHHHHHHHhCCC-CEEEEEecccccCccccc-chhhHHHH
Q psy6316          97 LIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG-LEPQTIESINILKSKKT-PFVVALNKIDRLYNWNTM-NRRDVRDI  173 (259)
Q Consensus        97 ~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~-~~~~~~~~l~~~~~~~~-piivv~NK~D~~~~~~~~-~~~~~~~~  173 (259)
                      .|+|+|||+-.-..+.+.....|++++|+.++++ .++|+.+++-.+.-.++ .+|++-||+|+...+... ++++++++
T Consensus        89 SfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIigik~iiIvQNKIDlV~~E~AlE~y~qIk~F  168 (415)
T COG5257          89 SFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEIIGIKNIIIVQNKIDLVSRERALENYEQIKEF  168 (415)
T ss_pred             EEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhhccceEEEEecccceecHHHHHHHHHHHHHH
Confidence            9999999998877778888889999999999875 67889999988888775 588899999999543221 22333333


Q ss_pred             HhhhhccccccccccccccCcceeEEeecC
Q psy6316         174 IKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       174 ~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ++-.. .-+.+++++||..+.|++.+++.+
T Consensus       169 vkGt~-Ae~aPIIPiSA~~~~NIDal~e~i  197 (415)
T COG5257         169 VKGTV-AENAPIIPISAQHKANIDALIEAI  197 (415)
T ss_pred             hcccc-cCCCceeeehhhhccCHHHHHHHH
Confidence            32222 125689999999999997744444

>KOG0075|consensus

Probab=99.73  E-value=2.7e-18  Score=123.41  Aligned_cols=152  Identities=16%  Similarity=0.187  Sum_probs=105.0

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      .|+   +.++|-.++|||||+|.+...++.+.    +..+.|+........     .+                .+.+||
T Consensus        20 eme---l~lvGLq~sGKtt~Vn~ia~g~~~ed----miptvGfnmrk~tkg-----nv----------------tiklwD   71 (186)
T KOG0075|consen   20 EME---LSLVGLQNSGKTTLVNVIARGQYLED----MIPTVGFNMRKVTKG-----NV----------------TIKLWD   71 (186)
T ss_pred             eee---EEEEeeccCCcceEEEEEeeccchhh----hcccccceeEEeccC-----ce----------------EEEEEe
Confidence            466   99999999999999999977666543    344444444432211     11                189999


Q ss_pred             CCCCcchHHHHHhhccCCCeEEEEEeCCCCCC-HHHHHHHH----HHHhCCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316         101 TPGHESFSNLRNRGSSLCDIAILVVDIMHGLE-PQTIESIN----ILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus       101 tpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~-~~~~~~l~----~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      .||+..|..+|..+++.+++++||+|+.++.. ...+.-+.    ...-.++|+++++||.|+...   ....++..++.
T Consensus        72 ~gGq~rfrsmWerycR~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~A---L~~~~li~rmg  148 (186)
T KOG0075|consen   72 LGGQPRFRSMWERYCRGVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGA---LSKIALIERMG  148 (186)
T ss_pred             cCCCccHHHHHHHHhhcCcEEEEEeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCccc---ccHHHHHHHhC
Confidence            99999999999999999999999999987422 11222222    223357999999999999853   23344444333


Q ss_pred             hhh-ccccccccccccccCcceeEEeecC
Q psy6316         176 SQE-SSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       176 ~~~-~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ... ....+.++.+||+...+++..++.+
T Consensus       149 L~sitdREvcC~siScke~~Nid~~~~Wl  177 (186)
T KOG0075|consen  149 LSSITDREVCCFSISCKEKVNIDITLDWL  177 (186)
T ss_pred             ccccccceEEEEEEEEcCCccHHHHHHHH
Confidence            221 2235678889999999988755444

>PRK00007 elongation factor G; Reviewed

Probab=99.73  E-value=4.1e-17  Score=150.98  Aligned_cols=165  Identities=21%  Similarity=0.231  Sum_probs=102.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccc-cccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGA-TNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      .++|+++|++|+|||||+++|+...-.....+........ ...+.+..+..  .+....    ....+....++|+|||
T Consensus        10 Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~--ti~~~~----~~~~~~~~~~~liDTP   83 (693)
T PRK00007         10 YRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGI--TITSAA----TTCFWKDHRINIIDTP   83 (693)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCC--CEeccE----EEEEECCeEEEEEeCC
Confidence            4589999999999999999997421100000000000000 00000000000  000000    0011222349999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhcccc
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ  182 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~  182 (259)
                      ||.+|.......++.+|++|+|+|+..+...++...+.++...++|+++++||+|+...    ......+.+++......
T Consensus        84 G~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~~~~~~~~~~~p~iv~vNK~D~~~~----~~~~~~~~i~~~l~~~~  159 (693)
T PRK00007         84 GHVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSETVWRQADKYKVPRIAFVNKMDRTGA----DFYRVVEQIKDRLGANP  159 (693)
T ss_pred             CcHHHHHHHHHHHHHcCEEEEEEECCCCcchhhHHHHHHHHHcCCCEEEEEECCCCCCC----CHHHHHHHHHHHhCCCe
Confidence            99999888888999999999999999999999999999999999999999999998743    23333344433333222


Q ss_pred             -ccccccccccC-cceeE
Q psy6316         183 -THKTVESARKG-QEICI  198 (259)
Q Consensus       183 -~~~i~~Sa~~g-~gv~~  198 (259)
                       ...+++||..+ .|+..
T Consensus       160 ~~~~ipisa~~~f~g~~d  177 (693)
T PRK00007        160 VPIQLPIGAEDDFKGVVD  177 (693)
T ss_pred             eeEEecCccCCcceEEEE
Confidence             24568898877 34444

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.72  E-value=2e-17  Score=132.87  Aligned_cols=116  Identities=24%  Similarity=0.280  Sum_probs=88.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|||||||+++|.+..+...+..+++..+..........     .+                .+.+|||+|+
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~-----~~----------------~~~~~Dt~gq   64 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRR-----NI----------------KLQLWDTAGQ   64 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCC-----EE----------------EEEeecCCCH
Confidence            45999999999999999999999988777766655554333332211     11                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCC-HH-HHHHHHHHHhC---CCCEEEEEecccccCc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLE-PQ-TIESINILKSK---KTPFVVALNKIDRLYN  161 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~-~~-~~~~l~~~~~~---~~piivv~NK~D~~~~  161 (259)
                      +++...+..++..++++++|+|.+.... .. ...+...+...   +.|+++++||+|+...
T Consensus        65 ~~~~~~~~~y~~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~  126 (219)
T COG1100          65 EEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDE  126 (219)
T ss_pred             HHHHHHHHHHhcCCCEEEEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccc
Confidence            9999999999999999999999986322 22 23455555553   4899999999999853

>KOG0083|consensus

Probab=99.72  E-value=1.4e-18  Score=122.96  Aligned_cols=149  Identities=20%  Similarity=0.185  Sum_probs=106.3

Q ss_pred             EEeeCCCChhHHHhHHhccccCCCCCC-cceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCcch
Q psy6316          29 VLGHVDTGKTKILDKLRRTNVQDGEAG-GITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESF  107 (259)
Q Consensus        29 v~G~~~~GKStlin~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~  107 (259)
                      ++|.+++|||+|+-++-...+..+... +++.++.-.-.....     ..                ..+++|||+||++|
T Consensus         2 llgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~-----~k----------------vklqiwdtagqerf   60 (192)
T KOG0083|consen    2 LLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDD-----KK----------------VKLQIWDTAGQERF   60 (192)
T ss_pred             ccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCC-----cE----------------EEEEEeeccchHHH
Confidence            689999999999998877777654322 222222111111111     11                12999999999999


Q ss_pred             HHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHhC---CCCEEEEEecccccCcccccchhhHHHHHhhhhccccc
Q psy6316         108 SNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKSK---KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQT  183 (259)
Q Consensus       108 ~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~~---~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (259)
                      ++....+++.+|++++++|..+..+..+. .|+.++.+.   .+.+.+++||+|+.. +....    .+.-+++.+..++
T Consensus        61 rsvt~ayyrda~allllydiankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~-er~v~----~ddg~kla~~y~i  135 (192)
T KOG0083|consen   61 RSVTHAYYRDADALLLLYDIANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAH-ERAVK----RDDGEKLAEAYGI  135 (192)
T ss_pred             hhhhHhhhcccceeeeeeecccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccch-hhccc----cchHHHHHHHHCC
Confidence            99999999999999999999998887764 477777765   356778999999963 22222    2233455566678


Q ss_pred             cccccccccCcceeEEeecC
Q psy6316         184 HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       184 ~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ++.++||++|.+++..+..+
T Consensus       136 pfmetsaktg~nvd~af~~i  155 (192)
T KOG0083|consen  136 PFMETSAKTGFNVDLAFLAI  155 (192)
T ss_pred             CceeccccccccHhHHHHHH
Confidence            99999999999998755444

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.72  E-value=9e-17  Score=131.08  Aligned_cols=161  Identities=21%  Similarity=0.219  Sum_probs=101.9

Q ss_pred             hhhhhhhcCCCCcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCC
Q psy6316           7 KRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVG   86 (259)
Q Consensus         7 ~~~~~~~~~~~~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (259)
                      +.++.+...|..-++++  .|+|.|.||+|||||++.+.+.+..       ...+.+||....-     ++         
T Consensus       153 ~~r~~l~~LP~Idp~~p--TivVaG~PNVGKSSlv~~lT~AkpE-------vA~YPFTTK~i~v-----Gh---------  209 (346)
T COG1084         153 KARDHLKKLPAIDPDLP--TIVVAGYPNVGKSSLVRKLTTAKPE-------VAPYPFTTKGIHV-----GH---------  209 (346)
T ss_pred             HHHHHHhcCCCCCCCCC--eEEEecCCCCcHHHHHHHHhcCCCc-------cCCCCccccceeE-----ee---------
Confidence            66778888888766655  7999999999999999999888763       3334444433221     11         


Q ss_pred             CCCCCCCCCeEEEeCCCCcc--------hHHHHHhhc-cCCCeEEEEEeCCCCCCH---HHHHHHHHHHh-CCCCEEEEE
Q psy6316          87 GPGPLEIPGLLIIDTPGHES--------FSNLRNRGS-SLCDIAILVVDIMHGLEP---QTIESINILKS-KKTPFVVAL  153 (259)
Q Consensus        87 ~~~~~~~~~~~liDtpG~~~--------~~~~~~~~~-~~ad~~i~v~d~~~~~~~---~~~~~l~~~~~-~~~piivv~  153 (259)
                        .++....++++||||.-+        .......++ +..++++|++|++.....   ....++..++. .+.|+++|+
T Consensus       210 --fe~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~~p~v~V~  287 (346)
T COG1084         210 --FERGYLRIQVIDTPGLLDRPLEERNEIERQAILALRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFKAPIVVVI  287 (346)
T ss_pred             --eecCCceEEEecCCcccCCChHHhcHHHHHHHHHHHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcCCCeEEEE
Confidence              123333499999999221        111122233 678999999999864332   23445666665 468999999


Q ss_pred             ecccccCcccccchhhHHHHHhhhhccccccccccccccCcceeE
Q psy6316         154 NKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICI  198 (259)
Q Consensus       154 NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~  198 (259)
                      ||+|....      +...+...............+|+..+.+.+.
T Consensus       288 nK~D~~~~------e~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~  326 (346)
T COG1084         288 NKIDIADE------EKLEEIEASVLEEGGEEPLKISATKGCGLDK  326 (346)
T ss_pred             ecccccch------hHHHHHHHHHHhhccccccceeeeehhhHHH
Confidence            99998732      2233322223333334456677777766655

>PRK12739 elongation factor G; Reviewed

Probab=99.72  E-value=6.1e-17  Score=149.91  Aligned_cols=162  Identities=21%  Similarity=0.227  Sum_probs=101.8

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeec-cccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQI-GATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      +..+|+++|++|+|||||+++|+...-.....+...... .....+.+..+........      ....+...+++||||
T Consensus         7 ~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~------~~~~~~~~~i~liDT   80 (691)
T PRK12739          7 KTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAA------TTCFWKGHRINIIDT   80 (691)
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCcccee------EEEEECCEEEEEEcC
Confidence            456899999999999999999975311000000000000 0000000010000000000      001122234999999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      ||+.+|...+..+++.+|++++|+|+..+...++...+..+...++|+++++||+|+...    ......+.++......
T Consensus        81 PG~~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~~i~~~~~~~~~p~iv~iNK~D~~~~----~~~~~~~~i~~~l~~~  156 (691)
T PRK12739         81 PGHVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSETVWRQADKYGVPRIVFVNKMDRIGA----DFFRSVEQIKDRLGAN  156 (691)
T ss_pred             CCHHHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECCCCCCC----CHHHHHHHHHHHhCCC
Confidence            999999888999999999999999999999999999999999999999999999999843    2334444444433322


Q ss_pred             c-ccccccccccCc
Q psy6316         182 Q-THKTVESARKGQ  194 (259)
Q Consensus       182 ~-~~~i~~Sa~~g~  194 (259)
                      . ...+++|+..+.
T Consensus       157 ~~~~~iPis~~~~f  170 (691)
T PRK12739        157 AVPIQLPIGAEDDF  170 (691)
T ss_pred             ceeEEecccccccc
Confidence            2 234578887665

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.71  E-value=4.3e-17  Score=128.83  Aligned_cols=115  Identities=18%  Similarity=0.258  Sum_probs=73.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++|+|||||+|+|++...........+  ...++.....       +..          .....+.+|||||.
T Consensus         2 ~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~--~~~~t~~~~~-------~~~----------~~~~~l~l~DtpG~   62 (197)
T cd04104           2 LNIAVTGESGAGKSSFINALRGVGHEEEGAAPTG--VVETTMKRTP-------YPH----------PKFPNVTLWDLPGI   62 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHhccCCCCCCccccC--ccccccCcee-------eec----------CCCCCceEEeCCCC
Confidence            4699999999999999999988654221110011  0000100000       000          00123999999996


Q ss_pred             cchHH-----HHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316         105 ESFSN-----LRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus       105 ~~~~~-----~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      .....     +....+..+|++++|.+  .+++..+..++..+...+.|+++|+||+|+..
T Consensus        63 ~~~~~~~~~~l~~~~~~~~d~~l~v~~--~~~~~~d~~~~~~l~~~~~~~ilV~nK~D~~~  121 (197)
T cd04104          63 GSTAFPPDDYLEEMKFSEYDFFIIISS--TRFSSNDVKLAKAIQCMGKKFYFVRTKVDRDL  121 (197)
T ss_pred             CcccCCHHHHHHHhCccCcCEEEEEeC--CCCCHHHHHHHHHHHHhCCCEEEEEecccchh
Confidence            43211     11223578899988855  45677788888888888999999999999964

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

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.71  E-value=1.7e-16  Score=125.94  Aligned_cols=115  Identities=21%  Similarity=0.259  Sum_probs=76.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ++|+++|++|+|||||+++|....+...... .............                     -....+.+||||||
T Consensus         1 ~~vll~G~~~sGKTsL~~~l~~~~~~~t~~s-~~~~~~~~~~~~~---------------------~~~~~~~l~D~pG~   58 (203)
T cd04105           1 PTVLLLGPSDSGKTALFTKLTTGKYRSTVTS-IEPNVATFILNSE---------------------GKGKKFRLVDVPGH   58 (203)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCCCCCccCc-EeecceEEEeecC---------------------CCCceEEEEECCCC
Confidence            4699999999999999999988765433211 1111110000000                     00112999999999


Q ss_pred             cchHHHHHhhccCC-CeEEEEEeCCCCC-CHHH-HHHHHHH----H--hCCCCEEEEEecccccCc
Q psy6316         105 ESFSNLRNRGSSLC-DIAILVVDIMHGL-EPQT-IESINIL----K--SKKTPFVVALNKIDRLYN  161 (259)
Q Consensus       105 ~~~~~~~~~~~~~a-d~~i~v~d~~~~~-~~~~-~~~l~~~----~--~~~~piivv~NK~D~~~~  161 (259)
                      ..+...+..+++.+ +++|||+|+++.. ...+ .+++..+    .  ..++|+++++||+|+...
T Consensus        59 ~~~~~~~~~~~~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a  124 (203)
T cd04105          59 PKLRDKLLETLKNSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTA  124 (203)
T ss_pred             HHHHHHHHHHHhccCCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhccc
Confidence            99999988899988 9999999998752 2221 2232221    1  247999999999998753

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

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.70  E-value=5.9e-17  Score=144.67  Aligned_cols=131  Identities=28%  Similarity=0.373  Sum_probs=86.4

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeec--ccc-c--cCccccccccccccCCCCCCCCCCCCCCCCeEE
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQI--GAT-N--VPADAIRENTKHVRGPGGEVGGPGPLEIPGLLI   98 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~--~~~-~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   98 (259)
                      .++|+++|++|+|||||+++|+...-.....+.+....  ..+ .  .+.+..+...  +...    .....+....+++
T Consensus        10 ~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiS--i~~~----~~~~~~~~~~inl   83 (526)
T PRK00741         10 RRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGIS--VTSS----VMQFPYRDCLINL   83 (526)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCc--eeee----eEEEEECCEEEEE
Confidence            45899999999999999999974211101111110000  000 0  0011110000  0000    0001222334999


Q ss_pred             EeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316          99 IDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        99 iDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      ||||||.+|......+++.+|++|+|+|++++...+...++......++|+++++||+|+..
T Consensus        84 iDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~iPiiv~iNK~D~~~  145 (526)
T PRK00741         84 LDTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQTRKLMEVCRLRDTPIFTFINKLDRDG  145 (526)
T ss_pred             EECCCchhhHHHHHHHHHHCCEEEEEEecCCCCCHHHHHHHHHHHhcCCCEEEEEECCcccc
Confidence            99999999998888899999999999999998888888888888889999999999999874

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.70  E-value=9.4e-17  Score=135.87  Aligned_cols=198  Identities=22%  Similarity=0.222  Sum_probs=127.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc--cCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN--VQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +|||++.+.++|||||+..|+.+.  +....  .+. .....+...++.+  .-.+-..++.    ..|+...++|+|||
T Consensus         6 RNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e--~v~-ERvMDSnDlEkER--GITILaKnTa----v~~~~~~INIvDTP   76 (603)
T COG1217           6 RNIAIIAHVDHGKTTLVDALLKQSGTFRERE--EVA-ERVMDSNDLEKER--GITILAKNTA----VNYNGTRINIVDTP   76 (603)
T ss_pred             ceeEEEEEecCCcchHHHHHHhhcccccccc--chh-hhhcCccchhhhc--CcEEEeccce----eecCCeEEEEecCC
Confidence            489999999999999999997542  11100  000 0000111111111  1111111110    12334459999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhh---hc
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ---ES  179 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~---~~  179 (259)
                      ||.+|.-...+.++-.|++++++|+.++..+|++-.++...+.+.+.|+|+||+|..........++..+.+..+   ..
T Consensus        77 GHADFGGEVERvl~MVDgvlLlVDA~EGpMPQTrFVlkKAl~~gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~de  156 (603)
T COG1217          77 GHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALALGLKPIVVINKIDRPDARPDEVVDEVFDLFVELGATDE  156 (603)
T ss_pred             CcCCccchhhhhhhhcceEEEEEEcccCCCCchhhhHHHHHHcCCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCChh
Confidence            999999999999999999999999999999999999999999999999999999998654333334444433333   34


Q ss_pred             cccccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHH
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVD  251 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~  251 (259)
                      .+.+++++.||+.|.--..      .+.+         ...     ..-..+.+-++.+.|.-+.+.||-|.
T Consensus       157 QLdFPivYAS~~~G~a~~~------~~~~---------~~~-----m~pLfe~I~~hvp~P~~~~d~PlQ~q  208 (603)
T COG1217         157 QLDFPIVYASARNGTASLD------PEDE---------ADD-----MAPLFETILDHVPAPKGDLDEPLQMQ  208 (603)
T ss_pred             hCCCcEEEeeccCceeccC------cccc---------ccc-----hhHHHHHHHHhCCCCCCCCCCCeEEE
Confidence            5678999999998753321      0000         000     12344555566777777777777653

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.70  E-value=4.6e-17  Score=153.33  Aligned_cols=122  Identities=57%  Similarity=0.890  Sum_probs=96.6

Q ss_pred             ChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCcchHHHHHhhc
Q psy6316          36 GKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGS  115 (259)
Q Consensus        36 GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~  115 (259)
                      +||||+.+|.+.++..++.++++..+|++..+.+............     .........+.|||||||+.|..+....+
T Consensus       473 ~KTtLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~-----~~~~~~~p~i~fiDTPGhe~F~~lr~~g~  547 (1049)
T PRK14845        473 HNTTLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKKICGPLLKL-----LKAEIKIPGLLFIDTPGHEAFTSLRKRGG  547 (1049)
T ss_pred             ccccHHHHHhCCCcccccCCCceeccceEEEEeccccccccccccc-----ccccCCcCcEEEEECCCcHHHHHHHHhhc
Confidence            4999999999999999999999999999887765322111100000     00012223499999999999999888888


Q ss_pred             cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcc
Q psy6316         116 SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNW  162 (259)
Q Consensus       116 ~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~  162 (259)
                      +.+|++++|+|++++...++.+.+..+...++|+++|+||+|+...+
T Consensus       548 ~~aDivlLVVDa~~Gi~~qT~e~I~~lk~~~iPiIVViNKiDL~~~~  594 (1049)
T PRK14845        548 SLADLAVLVVDINEGFKPQTIEAINILRQYKTPFVVAANKIDLIPGW  594 (1049)
T ss_pred             ccCCEEEEEEECcccCCHhHHHHHHHHHHcCCCEEEEEECCCCcccc
Confidence            99999999999999989999999999988899999999999997543

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=99.70  E-value=1.7e-16  Score=114.72  Aligned_cols=107  Identities=22%  Similarity=0.303  Sum_probs=69.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+|+|++.+..      .......++........                .+....+.|+||||..
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~------~~~~~~~~T~~~~~~~~----------------~~~~~~~~~vDtpG~~   58 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLA------KVSNIPGTTRDPVYGQF----------------EYNNKKFILVDTPGIN   58 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSS------EESSSTTSSSSEEEEEE----------------EETTEEEEEEESSSCS
T ss_pred             CEEEECCCCCCHHHHHHHHhccccc------cccccccceeeeeeeee----------------eeceeeEEEEeCCCCc
Confidence            3999999999999999999975431      11111111111110000                0111138999999943


Q ss_pred             c---------hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEec
Q psy6316         106 S---------FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNK  155 (259)
Q Consensus       106 ~---------~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK  155 (259)
                      .         ........+..+|++++|+|+++........++..++ .++|+++|+||
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~d~ii~vv~~~~~~~~~~~~~~~~l~-~~~~~i~v~NK  116 (116)
T PF01926_consen   59 DGESQDNDGKEIRKFLEQISKSDLIIYVVDASNPITEDDKNILRELK-NKKPIILVLNK  116 (116)
T ss_dssp             SSSHHHHHHHHHHHHHHHHCTESEEEEEEETTSHSHHHHHHHHHHHH-TTSEEEEEEES
T ss_pred             ccchhhHHHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHh-cCCCEEEEEcC
Confidence            2         1112334458999999999987744455667778886 88999999998

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 ....

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.70  E-value=3.7e-17  Score=138.01  Aligned_cols=177  Identities=24%  Similarity=0.261  Sum_probs=131.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhcccc---CCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNV---QDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      .|+.+|+..+|||||+.++.+...   .+...++++.+.++...+.+..                       .+.|+|.|
T Consensus         2 ii~t~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~~d~-----------------------~~~fIDvp   58 (447)
T COG3276           2 IIGTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKLEDG-----------------------VMGFIDVP   58 (447)
T ss_pred             eEEEeeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEeccCCCC-----------------------ceEEeeCC
Confidence            489999999999999999976643   2223345666666665554322                       29999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCE-EEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPF-VVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pi-ivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      ||+++.+.+...+...|.+++|++++++...++.+++..+...+++- ++|+||+|+....   ..++..+.+......-
T Consensus        59 gh~~~i~~miag~~~~d~alLvV~~deGl~~qtgEhL~iLdllgi~~giivltk~D~~d~~---r~e~~i~~Il~~l~l~  135 (447)
T COG3276          59 GHPDFISNLLAGLGGIDYALLVVAADEGLMAQTGEHLLILDLLGIKNGIIVLTKADRVDEA---RIEQKIKQILADLSLA  135 (447)
T ss_pred             CcHHHHHHHHhhhcCCceEEEEEeCccCcchhhHHHHHHHHhcCCCceEEEEeccccccHH---HHHHHHHHHHhhcccc
Confidence            99999999999999999999999999999999999999999999875 8999999998432   1122222222222222


Q ss_pred             cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHHHHHhhcc
Q psy6316         182 QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQI  258 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~~~~  258 (259)
                      ..+++.+|+.+|+|++++-                           +.+-.+   ...+.++.+.+|+++|+++|++
T Consensus       136 ~~~i~~~s~~~g~GI~~Lk---------------------------~~l~~L---~~~~e~d~~~~fri~IDraFtV  182 (447)
T COG3276         136 NAKIFKTSAKTGRGIEELK---------------------------NELIDL---LEEIERDEQKPFRIAIDRAFTV  182 (447)
T ss_pred             cccccccccccCCCHHHHH---------------------------HHHHHh---hhhhhhccCCceEEEEeeEEEe
Confidence            4567889999999997611                           122111   1256678888999999999986

>TIGR00503 prfC peptide chain release factor 3

Probab=99.70  E-value=2e-16  Score=141.35  Aligned_cols=150  Identities=22%  Similarity=0.290  Sum_probs=92.6

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceee--ccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQ--IGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      +.++|+++|++|+|||||+++|+...-.....+.+...  ...+..+... .+...++...-  ......+....++|||
T Consensus        10 ~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~-~E~~rgisi~~--~~~~~~~~~~~inliD   86 (527)
T TIGR00503        10 KRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWME-MEKQRGISITT--SVMQFPYRDCLVNLLD   86 (527)
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCH-HHHhcCCcEEE--EEEEEeeCCeEEEEEE
Confidence            34589999999999999999986321110000111000  0000111000 00000000000  0000122333499999


Q ss_pred             CCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         101 TPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       101 tpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      |||+.+|......+++.+|++|+|+|++.+...+...++..++..++|+++++||+|+...    ...++.+.++....
T Consensus        87 TPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~~PiivviNKiD~~~~----~~~~ll~~i~~~l~  161 (527)
T TIGR00503        87 TPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRLRDTPIFTFMNKLDRDIR----DPLELLDEVENELK  161 (527)
T ss_pred             CCChhhHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEEEEEECccccCC----CHHHHHHHHHHHhC
Confidence            9999999888888899999999999999988877788888888889999999999998632    23445555555443

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.

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.69  E-value=5.7e-17  Score=129.32  Aligned_cols=166  Identities=13%  Similarity=0.188  Sum_probs=111.0

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      ..++.+|+++|.+|+|||||+|+|+..+..      ....++..+.+........                ....++|||
T Consensus        36 ~~~pvnvLi~G~TG~GKSSliNALF~~~~~------~v~~vg~~t~~~~~~~~~~----------------~~~~l~lwD   93 (296)
T COG3596          36 EKEPVNVLLMGATGAGKSSLINALFQGEVK------EVSKVGVGTDITTRLRLSY----------------DGENLVLWD   93 (296)
T ss_pred             ccCceeEEEecCCCCcHHHHHHHHHhccCc------eeeecccCCCchhhHHhhc----------------cccceEEec
Confidence            456778999999999999999999966543      2333444443332222111                111399999


Q ss_pred             CCCCcc-------hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhC--CCCEEEEEecccccCc---c---ccc
Q psy6316         101 TPGHES-------FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSK--KTPFVVALNKIDRLYN---W---NTM  165 (259)
Q Consensus       101 tpG~~~-------~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~--~~piivv~NK~D~~~~---~---~~~  165 (259)
                      |||..+       +......++...|++++++++.+.....+.+++..+.-.  +.++++++|.+|+..+   |   ...
T Consensus        94 tPG~gdg~~~D~~~r~~~~d~l~~~DLvL~l~~~~draL~~d~~f~~dVi~~~~~~~~i~~VtQ~D~a~p~~~W~~~~~~  173 (296)
T COG3596          94 TPGLGDGKDKDAEHRQLYRDYLPKLDLVLWLIKADDRALGTDEDFLRDVIILGLDKRVLFVVTQADRAEPGREWDSAGHQ  173 (296)
T ss_pred             CCCcccchhhhHHHHHHHHHHhhhccEEEEeccCCCccccCCHHHHHHHHHhccCceeEEEEehhhhhccccccccccCC
Confidence            999544       677778889999999999999988777788888777653  4899999999998753   1   111


Q ss_pred             chhhHHHHHhhhhccc-----cc-cccccccccCcceeEEeecCCCCCC
Q psy6316         166 NRRDVRDIIKSQESSV-----QT-HKTVESARKGQEICIKIEPIPGEAP  208 (259)
Q Consensus       166 ~~~~~~~~~~~~~~~~-----~~-~~i~~Sa~~g~gv~~~l~~i~~~~~  208 (259)
                      ....+.+.+++.....     .. +++.+|++.+.|+..+...++...|
T Consensus       174 p~~a~~qfi~~k~~~~~~~~q~V~pV~~~~~r~~wgl~~l~~ali~~lp  222 (296)
T COG3596         174 PSPAIKQFIEEKAEALGRLFQEVKPVVAVSGRLPWGLKELVRALITALP  222 (296)
T ss_pred             CCHHHHHHHHHHHHHHHHHHhhcCCeEEeccccCccHHHHHHHHHHhCc
Confidence            2233333333332221     12 4456778999999987666654433

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=99.68  E-value=4.2e-17  Score=118.35  Aligned_cols=111  Identities=23%  Similarity=0.306  Sum_probs=70.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCC-C-CCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQD-G-EAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      +|+|+|.+|+|||||+++|++..... . .....+..+.........                     ....+.+||++|
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------------~~~~~~~~d~~g   59 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDG---------------------DRQSLQFWDFGG   59 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETT---------------------EEEEEEEEEESS
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecC---------------------CceEEEEEecCc
Confidence            49999999999999999999887641 0 000011111100000000                     000189999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH----HHHHHHHh--CCCCEEEEEeccc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI----ESINILKS--KKTPFVVALNKID  157 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~----~~l~~~~~--~~~piivv~NK~D  157 (259)
                      ++.+...+...+..+|++++|+|+++..+....    .++..+..  .+.|+++|+||.|
T Consensus        60 ~~~~~~~~~~~~~~~d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~~~~~piilv~nK~D  119 (119)
T PF08477_consen   60 QEEFYSQHQFFLKKADAVILVYDLSDPESLEYLSQLLKWLKNIRKRDKNIPIILVGNKSD  119 (119)
T ss_dssp             SHCHHCTSHHHHHHSCEEEEEEECCGHHHHHHHHHHHHHHHHHHHHSSCSEEEEEEE-TC
T ss_pred             cceecccccchhhcCcEEEEEEcCCChHHHHHHHHHHHHHHHHHccCCCCCEEEEEeccC
Confidence            988777666678999999999999876544442    23344433  4699999999998

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=99.67  E-value=1.3e-16  Score=129.24  Aligned_cols=148  Identities=22%  Similarity=0.271  Sum_probs=96.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ..|+++|.||||||||+|+|...+..       ...+.+||..+.--     .+.+.+        +.  ++++-|.||.
T Consensus       197 advGLVG~PNAGKSTLL~als~AKpk-------Va~YaFTTL~P~iG-----~v~ydd--------f~--q~tVADiPGi  254 (366)
T KOG1489|consen  197 ADVGLVGFPNAGKSTLLNALSRAKPK-------VAHYAFTTLRPHIG-----TVNYDD--------FS--QITVADIPGI  254 (366)
T ss_pred             cccceecCCCCcHHHHHHHhhccCCc-------ccccceeeeccccc-----eeeccc--------cc--eeEeccCccc
Confidence            56999999999999999999887753       33444454444321     111111        11  2899999993


Q ss_pred             c-------chHHHHHhhccCCCeEEEEEeCCCCC---CHHHHH-HHHHHHh-----CCCCEEEEEecccccCcccccchh
Q psy6316         105 E-------SFSNLRNRGSSLCDIAILVVDIMHGL---EPQTIE-SINILKS-----KKTPFVVALNKIDRLYNWNTMNRR  168 (259)
Q Consensus       105 ~-------~~~~~~~~~~~~ad~~i~v~d~~~~~---~~~~~~-~l~~~~~-----~~~piivv~NK~D~~~~~~~~~~~  168 (259)
                      .       -........+..|+.++||+|.+.+.   -.+... ++.++..     .+.|.++|+||+|+...     . 
T Consensus       255 I~GAh~nkGlG~~FLrHiER~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~ea-----e-  328 (366)
T KOG1489|consen  255 IEGAHMNKGLGYKFLRHIERCKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEA-----E-  328 (366)
T ss_pred             cccccccCcccHHHHHHHHhhceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhH-----H-
Confidence            2       24455667888999999999998762   222222 2233322     35899999999998621     1 


Q ss_pred             hHHHHHhhhhccccc-cccccccccCcceeEEeec
Q psy6316         169 DVRDIIKSQESSVQT-HKTVESARKGQEICIKIEP  202 (259)
Q Consensus       169 ~~~~~~~~~~~~~~~-~~i~~Sa~~g~gv~~~l~~  202 (259)
                        ...+..+.+.++- .++++||++++|+.+++..
T Consensus       329 --~~~l~~L~~~lq~~~V~pvsA~~~egl~~ll~~  361 (366)
T KOG1489|consen  329 --KNLLSSLAKRLQNPHVVPVSAKSGEGLEELLNG  361 (366)
T ss_pred             --HHHHHHHHHHcCCCcEEEeeeccccchHHHHHH
Confidence              2223444444333 4889999999999875543

>KOG0076|consensus

Probab=99.67  E-value=6.5e-17  Score=119.71  Aligned_cols=155  Identities=21%  Similarity=0.150  Sum_probs=101.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccC---CCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQ---DGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ..|++.|..+||||||+.++-.....   .-....+...++.+....          .-.           +..+.|||.
T Consensus        18 y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~i----------~v~-----------~~~l~fwdl   76 (197)
T KOG0076|consen   18 YSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGTI----------EVC-----------NAPLSFWDL   76 (197)
T ss_pred             hhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeecce----------eec-----------cceeEEEEc
Confidence            34999999999999999998433221   000111232232222211          111           112999999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHH----HHHhCCCCEEEEEecccccCcccccchhhHHHHHh-
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESIN----ILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK-  175 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~----~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~-  175 (259)
                      .|++...++|..++..+|++++++|+++....++ ...++    .-...++|+++.+||.|+...-   ...++...+. 
T Consensus        77 gGQe~lrSlw~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~---~~~El~~~~~~  153 (197)
T KOG0076|consen   77 GGQESLRSLWKKYYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAM---EAAELDGVFGL  153 (197)
T ss_pred             CChHHHHHHHHHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhh---hHHHHHHHhhh
Confidence            9999999999999999999999999988533332 22222    2233589999999999987432   2333443333 


Q ss_pred             -hhhccccccccccccccCcceeEEeecC
Q psy6316         176 -SQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       176 -~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                       +......+++.++||..|+|+.+-+.++
T Consensus       154 ~e~~~~rd~~~~pvSal~gegv~egi~w~  182 (197)
T KOG0076|consen  154 AELIPRRDNPFQPVSALTGEGVKEGIEWL  182 (197)
T ss_pred             hhhcCCccCccccchhhhcccHHHHHHHH
Confidence             3334445678899999999998855443

>KOG0071|consensus

Probab=99.66  E-value=9.6e-17  Score=114.60  Aligned_cols=151  Identities=18%  Similarity=0.177  Sum_probs=102.6

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      +||   |+.+|-.++||||++..|.-.+...     ...++|++   +++       +           .|++..|++||
T Consensus        17 E~~---ilmlGLd~aGKTtiLyKLkl~~~~~-----~ipTvGFn---vet-------V-----------tykN~kfNvwd   67 (180)
T KOG0071|consen   17 EMR---ILMLGLDAAGKTTILYKLKLGQSVT-----TIPTVGFN---VET-------V-----------TYKNVKFNVWD   67 (180)
T ss_pred             cce---EEEEecccCCceehhhHHhcCCCcc-----ccccccee---EEE-------E-----------EeeeeEEeeee
Confidence            567   9999999999999999997554321     11122211   111       1           12222399999


Q ss_pred             CCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHH-HHH---HhCCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316         101 TPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESI-NIL---KSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus       101 tpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l-~~~---~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      ..|++..++.|..|+....++|||+|+.+...-.+ +.-+ ..+   .....++++..||.|+...-   ..+++.+.++
T Consensus        68 vGGqd~iRplWrhYy~gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~---~pqei~d~le  144 (180)
T KOG0071|consen   68 VGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAM---KPQEIQDKLE  144 (180)
T ss_pred             ccCchhhhHHHHhhccCCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCccccccc---CHHHHHHHhc
Confidence            99999999999999999999999999876532222 1122 222   22467899999999998543   4455555443


Q ss_pred             hh-hccccccccccccccCcceeEEeecC
Q psy6316         176 SQ-ESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       176 ~~-~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .. .....|...++||.+|.|+.+-+..+
T Consensus       145 Le~~r~~~W~vqp~~a~~gdgL~eglswl  173 (180)
T KOG0071|consen  145 LERIRDRNWYVQPSCALSGDGLKEGLSWL  173 (180)
T ss_pred             cccccCCccEeeccccccchhHHHHHHHH
Confidence            22 33446788899999999997755444

>PRK13351 elongation factor G; Reviewed

Probab=99.66  E-value=5e-16  Score=144.12  Aligned_cols=132  Identities=23%  Similarity=0.342  Sum_probs=86.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeecccc-ccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGAT-NVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      .++|+++|+.|+|||||+++|+...-.....+.+....... ..+.+..+..  .+...    .....+....++|||||
T Consensus         8 irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~--ti~~~----~~~~~~~~~~i~liDtP   81 (687)
T PRK13351          8 IRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGI--TIESA----ATSCDWDNHRINLIDTP   81 (687)
T ss_pred             ccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCC--Ccccc----eEEEEECCEEEEEEECC
Confidence            46899999999999999999975321000000000000000 0000000000  00000    00001222349999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCc
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYN  161 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~  161 (259)
                      |+.+|...+..+++.+|++++|+|++++...+....+..+...++|+++++||+|+...
T Consensus        82 G~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~iiviNK~D~~~~  140 (687)
T PRK13351         82 GHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVWRQADRYGIPRLIFINKMDRVGA  140 (687)
T ss_pred             CcHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEEEEEECCCCCCC
Confidence            99999999999999999999999999988888888888888889999999999998753

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.66  E-value=6.1e-16  Score=144.02  Aligned_cols=135  Identities=26%  Similarity=0.254  Sum_probs=85.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      .++|+++|+.++|||||+.+|+...-..... ..+........+.+..+..........-.  ....-....++|+||||
T Consensus        20 iRni~iigh~d~GKTTL~e~ll~~~g~i~~~-~~g~~~~~D~~~~E~~rgiTi~~~~~~~~--~~~~~~~~~i~liDtPG   96 (731)
T PRK07560         20 IRNIGIIAHIDHGKTTLSDNLLAGAGMISEE-LAGEQLALDFDEEEQARGITIKAANVSMV--HEYEGKEYLINLIDTPG   96 (731)
T ss_pred             ccEEEEEEeCCCCHHHHHHHHHHHcCCcchh-hcCcceecCccHHHHHhhhhhhccceEEE--EEecCCcEEEEEEcCCC
Confidence            3489999999999999999997532110000 00000000000000000000000000000  00000122389999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYN  161 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~  161 (259)
                      |.+|.......++.+|++|+|+|+..+...++...+.+....++|.|+++||+|+...
T Consensus        97 ~~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~~~~~~~~~~iv~iNK~D~~~~  154 (731)
T PRK07560         97 HVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQALRERVKPVLFINKVDRLIK  154 (731)
T ss_pred             ccChHHHHHHHHHhcCEEEEEEECCCCCCccHHHHHHHHHHcCCCeEEEEECchhhcc
Confidence            9999999999999999999999999998888999999888888899999999998743

>PTZ00416 elongation factor 2; Provisional

Probab=99.65  E-value=5.9e-16  Score=145.52  Aligned_cols=65  Identities=31%  Similarity=0.397  Sum_probs=61.8

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      .++|+|||||.+|.......++.+|++|+|+|+..+...++...+.++...++|+++++||+|+.
T Consensus        93 ~i~liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~~~~~~~~~~~~p~iv~iNK~D~~  157 (836)
T PTZ00416         93 LINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTETVLRQALQERIRPVLFINKVDRA  157 (836)
T ss_pred             EEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHHHHHHHHHHcCCCEEEEEEChhhh
Confidence            38999999999999999999999999999999999999999999999999999999999999997

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.65  E-value=1e-15  Score=142.21  Aligned_cols=80  Identities=30%  Similarity=0.390  Sum_probs=66.1

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      +++||||||+.+|......+++.+|++|+|+|+..+...++...+..+...+.|.++++||+|....+.....+++...+
T Consensus        87 ~i~liDTPG~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~~~~~~~~~p~ivviNKiD~~~~~~~~~~~~~~~~~  166 (720)
T TIGR00490        87 LINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQALKENVKPVLFINKVDRLINELKLTPQELQERF  166 (720)
T ss_pred             EEEEEeCCCccccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHHHHHHHcCCCEEEEEEChhcccchhcCCHHHHHHHH
Confidence            49999999999999888999999999999999999888888888888888889999999999997543333333444333

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.

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.65  E-value=5.6e-16  Score=145.94  Aligned_cols=65  Identities=31%  Similarity=0.461  Sum_probs=62.2

Q ss_pred             eEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316          96 LLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        96 ~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      ++|+|||||.+|.......++.+|++|+|+|+.++...++...+.++...++|+++++||+|+..
T Consensus       100 inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~~~~~~~p~i~~iNK~D~~~  164 (843)
T PLN00116        100 INLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQALGERIRPVLTVNKMDRCF  164 (843)
T ss_pred             EEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHHHHHCCCCEEEEEECCcccc
Confidence            89999999999999999999999999999999999999999999999999999999999999983

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.64  E-value=6.4e-16  Score=140.71  Aligned_cols=147  Identities=23%  Similarity=0.279  Sum_probs=97.9

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeec-cccccCc-cccccccccccCCCCCCCCCCCCCC-CCeEEE
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQI-GATNVPA-DAIRENTKHVRGPGGEVGGPGPLEI-PGLLII   99 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~li   99 (259)
                      +.+||+++|+.++|||||..+|+...=....   ++... |.++.+. +..+++...+..-..    ...+.. ..++||
T Consensus         9 ~~RNigI~aHidaGKTTltE~lL~~tG~i~k---~G~v~~g~~~~D~~e~EqeRGITI~saa~----s~~~~~~~~iNlI   81 (697)
T COG0480           9 RIRNIGIVAHIDAGKTTLTERILFYTGIISK---IGEVHDGAATMDWMEQEQERGITITSAAT----TLFWKGDYRINLI   81 (697)
T ss_pred             cceEEEEEeccCCChHHHHHHHHHHcCCcCC---CccccCCCccCCCcHHHHhcCCEEeeeee----EEEEcCceEEEEe
Confidence            4568999999999999999999633210000   01000 1011110 000111100000000    001221 249999


Q ss_pred             eCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       100 DtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      |||||.+|.......++.+|++++|+|+..+..++....|+++.+.++|.++++||+|....+.....+++...+..
T Consensus        82 DTPGHVDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~~~~vp~i~fiNKmDR~~a~~~~~~~~l~~~l~~  158 (697)
T COG0480          82 DTPGHVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQADKYGVPRILFVNKMDRLGADFYLVVEQLKERLGA  158 (697)
T ss_pred             CCCCccccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHhhcCCCeEEEEECccccccChhhhHHHHHHHhCC
Confidence            99999999999999999999999999999999999999999999999999999999999976544444444444443

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=99.64  E-value=9.7e-16  Score=123.98  Aligned_cols=82  Identities=18%  Similarity=0.198  Sum_probs=52.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+|+|.+.....       ..+..++..+......                +...++++|||||+.
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v-------~~~~~tT~~~~~g~~~----------------~~~~~i~l~DtpG~~   58 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEV-------AAYEFTTLTCVPGVLE----------------YKGAKIQLLDLPGII   58 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccc-------cCCCCccccceEEEEE----------------ECCeEEEEEECCCcc
Confidence            59999999999999999998765321       1111122111110000                111139999999964


Q ss_pred             ch-------HHHHHhhccCCCeEEEEEeCCCC
Q psy6316         106 SF-------SNLRNRGSSLCDIAILVVDIMHG  130 (259)
Q Consensus       106 ~~-------~~~~~~~~~~ad~~i~v~d~~~~  130 (259)
                      ..       .......++.+|++++|+|+++.
T Consensus        59 ~~~~~~~~~~~~~l~~~~~ad~il~V~D~t~~   90 (233)
T cd01896          59 EGAADGKGRGRQVIAVARTADLILMVLDATKP   90 (233)
T ss_pred             cccccchhHHHHHHHhhccCCEEEEEecCCcc
Confidence            32       23345678999999999998763

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.

>cd01850 CDC_Septin CDC/Septin

Probab=99.63  E-value=3.8e-15  Score=123.27  Aligned_cols=142  Identities=20%  Similarity=0.269  Sum_probs=84.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCc------ceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEE
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGG------ITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLI   98 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   98 (259)
                      .+|+++|++|+|||||+|+|++..+.......      ...+......... .......+                .+++
T Consensus         5 f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~-i~~~g~~~----------------~l~i   67 (276)
T cd01850           5 FNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAE-IEENGVKL----------------KLTV   67 (276)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEE-EEECCEEE----------------EEEE
Confidence            35999999999999999999988764332110      0000000000000 00000001                2999


Q ss_pred             EeCCCCcchHH---------------------HHH-----hhc--cCCCeEEEEEeCCC-CCCHHHHHHHHHHHhCCCCE
Q psy6316          99 IDTPGHESFSN---------------------LRN-----RGS--SLCDIAILVVDIMH-GLEPQTIESINILKSKKTPF  149 (259)
Q Consensus        99 iDtpG~~~~~~---------------------~~~-----~~~--~~ad~~i~v~d~~~-~~~~~~~~~l~~~~~~~~pi  149 (259)
                      |||||..+...                     ...     ..+  ..+|+++|+++++. +....+.+.++.+.. ++|+
T Consensus        68 iDTpGfgd~~~~~~~~~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~~l~~~D~~~lk~l~~-~v~v  146 (276)
T cd01850          68 IDTPGFGDNINNSDCWKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGHGLKPLDIEFMKRLSK-RVNI  146 (276)
T ss_pred             EecCCccccccchhhHHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCCCCHHHHHHHHHHhc-cCCE
Confidence            99999433211                     000     112  25899999999874 677778888888876 7999


Q ss_pred             EEEEecccccCcccccchhhHHHHHhhhhccccccccc
Q psy6316         150 VVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTV  187 (259)
Q Consensus       150 ivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  187 (259)
                      ++|+||+|+....   ......+.+.+.....++.++.
T Consensus       147 i~VinK~D~l~~~---e~~~~k~~i~~~l~~~~i~~~~  181 (276)
T cd01850         147 IPVIAKADTLTPE---ELKEFKQRIMEDIEEHNIKIYK  181 (276)
T ss_pred             EEEEECCCcCCHH---HHHHHHHHHHHHHHHcCCceEC
Confidence            9999999997421   2233444455555444555443

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.

>COG2262 HflX GTPases [General function prediction only]

Probab=99.63  E-value=7.6e-16  Score=129.34  Aligned_cols=149  Identities=19%  Similarity=0.265  Sum_probs=94.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      .+.|+++|-+|||||||+|+|.+....       ..+.-+.+..+.+.+....+               ...+.+.||-|
T Consensus       192 ~p~vaLvGYTNAGKSTL~N~LT~~~~~-------~~d~LFATLdpttR~~~l~~---------------g~~vlLtDTVG  249 (411)
T COG2262         192 IPLVALVGYTNAGKSTLFNALTGADVY-------VADQLFATLDPTTRRIELGD---------------GRKVLLTDTVG  249 (411)
T ss_pred             CCeEEEEeeccccHHHHHHHHhccCee-------ccccccccccCceeEEEeCC---------------CceEEEecCcc
Confidence            467999999999999999999866542       22222333333222211110               11399999999


Q ss_pred             Ccc---------hHHHHHhhccCCCeEEEEEeCCCCCCHHHH----HHHHHHHhCCCCEEEEEecccccCcccccchhhH
Q psy6316         104 HES---------FSNLRNRGSSLCDIAILVVDIMHGLEPQTI----ESINILKSKKTPFVVALNKIDRLYNWNTMNRRDV  170 (259)
Q Consensus       104 ~~~---------~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~----~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~  170 (259)
                      +.+         |.+ ...-...+|++++|+|++++......    +.+..+....+|+|+|+||+|+..+      ...
T Consensus       250 FI~~LP~~LV~AFks-TLEE~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~------~~~  322 (411)
T COG2262         250 FIRDLPHPLVEAFKS-TLEEVKEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLED------EEI  322 (411)
T ss_pred             CcccCChHHHHHHHH-HHHHhhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCc------hhh
Confidence            432         211 22234689999999999987433322    2344444467899999999998843      222


Q ss_pred             HHHHhhhhccccccccccccccCcceeEEeecCCC
Q psy6316         171 RDIIKSQESSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       171 ~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      ...+....   + ..+++||++|.|++.+...+..
T Consensus       323 ~~~~~~~~---~-~~v~iSA~~~~gl~~L~~~i~~  353 (411)
T COG2262         323 LAELERGS---P-NPVFISAKTGEGLDLLRERIIE  353 (411)
T ss_pred             hhhhhhcC---C-CeEEEEeccCcCHHHHHHHHHH
Confidence            22232222   2 6889999999999876555433

>KOG4252|consensus

Probab=99.62  E-value=1.4e-16  Score=118.43  Aligned_cols=154  Identities=14%  Similarity=0.181  Sum_probs=114.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+++++|..++||||++.+++.+-+..++..+++.++......+..     +.+                ...+|||+|
T Consensus        20 aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~-----Edv----------------r~mlWdtag   78 (246)
T KOG4252|consen   20 AIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLI-----EDV----------------RSMLWDTAG   78 (246)
T ss_pred             hEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhH-----HHH----------------HHHHHHhcc
Confidence            45699999999999999999999888877777777555332222211     111                178999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh--CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS--KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      +++|......++++|.+.++|++.++..++.. .+|.+.+..  ..+|.++|-||+|++.+.     ..-....+.+++.
T Consensus        79 qeEfDaItkAyyrgaqa~vLVFSTTDr~SFea~~~w~~kv~~e~~~IPtV~vqNKIDlveds-----~~~~~evE~lak~  153 (246)
T KOG4252|consen   79 QEEFDAITKAYYRGAQASVLVFSTTDRYSFEATLEWYNKVQKETERIPTVFVQNKIDLVEDS-----QMDKGEVEGLAKK  153 (246)
T ss_pred             chhHHHHHHHHhccccceEEEEecccHHHHHHHHHHHHHHHHHhccCCeEEeeccchhhHhh-----hcchHHHHHHHHH
Confidence            99999999999999999999999988666543 455555554  479999999999998531     2223344555566


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +..+.+.+|++...++...+.++
T Consensus       154 l~~RlyRtSvked~NV~~vF~YL  176 (246)
T KOG4252|consen  154 LHKRLYRTSVKEDFNVMHVFAYL  176 (246)
T ss_pred             hhhhhhhhhhhhhhhhHHHHHHH
Confidence            67888999999988887644433

>KOG0393|consensus

Probab=99.61  E-value=3.2e-16  Score=120.70  Aligned_cols=158  Identities=18%  Similarity=0.164  Sum_probs=108.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+++++|..++|||+|+-.+....+...+.+++-..+... ..+.    ....+                .+.+|||+|
T Consensus         4 ~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVFdnys~~-v~V~----dg~~v----------------~L~LwDTAG   62 (198)
T KOG0393|consen    4 RIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVFDNYSAN-VTVD----DGKPV----------------ELGLWDTAG   62 (198)
T ss_pred             eeEEEEECCCCcCceEEEEEeccCcCcccccCeEEccceEE-EEec----CCCEE----------------EEeeeecCC
Confidence            45699999999999999999988877766666555333322 1111    01111                189999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHH--HHHHHHHHhC--CCCEEEEEecccccCcccccch-------hhHHH
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQT--IESINILKSK--KTPFVVALNKIDRLYNWNTMNR-------RDVRD  172 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~--~~~l~~~~~~--~~piivv~NK~D~~~~~~~~~~-------~~~~~  172 (259)
                      +++|..++.-.+.++|+++++++..++.+..+  ..|+..++..  +.|+|+|++|.|+..+......       .-...
T Consensus        63 qedYDrlRplsY~~tdvfl~cfsv~~p~S~~nv~~kW~pEi~~~cp~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~  142 (198)
T KOG0393|consen   63 QEDYDRLRPLSYPQTDVFLLCFSVVSPESFENVKSKWIPEIKHHCPNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYE  142 (198)
T ss_pred             CcccccccccCCCCCCEEEEEEEcCChhhHHHHHhhhhHHHHhhCCCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHH
Confidence            99999988778899999999999988777665  3466777664  6999999999999842100000       00111


Q ss_pred             HHhhhhcccc-ccccccccccCcceeEEeec
Q psy6316         173 IIKSQESSVQ-THKTVESARKGQEICIKIEP  202 (259)
Q Consensus       173 ~~~~~~~~~~-~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ....+...++ ..++++||++..|+.+.++.
T Consensus       143 ~g~~lA~~iga~~y~EcSa~tq~~v~~vF~~  173 (198)
T KOG0393|consen  143 QGLELAKEIGAVKYLECSALTQKGVKEVFDE  173 (198)
T ss_pred             HHHHHHHHhCcceeeeehhhhhCCcHHHHHH
Confidence            1222333334 57889999999998775543

>KOG1191|consensus

Probab=99.60  E-value=1.4e-15  Score=129.84  Aligned_cols=158  Identities=18%  Similarity=0.190  Sum_probs=101.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ...|+++|+||+|||||+|+|.....      ++......++.+.-.......+.                ++.+.||+|
T Consensus       268 gl~iaIvGrPNvGKSSLlNaL~~~dr------sIVSpv~GTTRDaiea~v~~~G~----------------~v~L~DTAG  325 (531)
T KOG1191|consen  268 GLQIAIVGRPNVGKSSLLNALSREDR------SIVSPVPGTTRDAIEAQVTVNGV----------------PVRLSDTAG  325 (531)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHhcCCc------eEeCCCCCcchhhheeEeecCCe----------------EEEEEeccc
Confidence            36699999999999999999987766      46666655655544433333222                399999999


Q ss_pred             Ccc-hH--------HHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHh------------CCCCEEEEEecccccCcc
Q psy6316         104 HES-FS--------NLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKS------------KKTPFVVALNKIDRLYNW  162 (259)
Q Consensus       104 ~~~-~~--------~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~------------~~~piivv~NK~D~~~~~  162 (259)
                      ..+ -.        ......+..+|++++|+|+......++......+..            ...|++++.||.|+....
T Consensus       326 iRe~~~~~iE~~gI~rA~k~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~  405 (531)
T KOG1191|consen  326 IREESNDGIEALGIERARKRIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKI  405 (531)
T ss_pred             cccccCChhHHHhHHHHHHHHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCcc
Confidence            443 11        112345678999999999976666666555544433            126889999999998532


Q ss_pred             cccchhhHHHHHhhhhcccccccc-ccccccCcceeEEeecCCC
Q psy6316         163 NTMNRRDVRDIIKSQESSVQTHKT-VESARKGQEICIKIEPIPG  205 (259)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~i-~~Sa~~g~gv~~~l~~i~~  205 (259)
                      .......+ ..... .....+++. .+||++++|+..+...+.+
T Consensus       406 ~~~~~~~~-~~~~~-~~~~~~~i~~~vs~~tkeg~~~L~~all~  447 (531)
T KOG1191|consen  406 PEMTKIPV-VYPSA-EGRSVFPIVVEVSCTTKEGCERLSTALLN  447 (531)
T ss_pred             ccccCCce-ecccc-ccCcccceEEEeeechhhhHHHHHHHHHH
Confidence            21111111 11111 111134555 4999999999987665544

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=99.60  E-value=5.5e-15  Score=113.39  Aligned_cols=113  Identities=21%  Similarity=0.251  Sum_probs=65.4

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      .+.|+++|++|+|||+|...|..........+ +....+...             .          .-....+.++|+||
T Consensus         3 ~~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS-~e~n~~~~~-------------~----------~~~~~~~~lvD~PG   58 (181)
T PF09439_consen    3 RPTVLLVGPSGSGKTALFSQLVNGKTVPTVTS-MENNIAYNV-------------N----------NSKGKKLRLVDIPG   58 (181)
T ss_dssp             --EEEEE-STTSSHHHHHHHHHHSS---B----SSEEEECCG-------------S----------STCGTCECEEEETT
T ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCcCCeecc-ccCCceEEe-------------e----------cCCCCEEEEEECCC
Confidence            46799999999999999999988754322111 111111110             0          01111399999999


Q ss_pred             CcchHHHHHhh---ccCCCeEEEEEeCCCCCCHHH---HHHH----HHHH--hCCCCEEEEEecccccCc
Q psy6316         104 HESFSNLRNRG---SSLCDIAILVVDIMHGLEPQT---IESI----NILK--SKKTPFVVALNKIDRLYN  161 (259)
Q Consensus       104 ~~~~~~~~~~~---~~~ad~~i~v~d~~~~~~~~~---~~~l----~~~~--~~~~piivv~NK~D~~~~  161 (259)
                      |.+.+......   ...+.++|||+|++.. ...-   .+++    ....  ....|++++.||.|+..+
T Consensus        59 H~rlr~~~~~~~~~~~~~k~IIfvvDSs~~-~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A  127 (181)
T PF09439_consen   59 HPRLRSKLLDELKYLSNAKGIIFVVDSSTD-QKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTA  127 (181)
T ss_dssp             -HCCCHHHHHHHHHHGGEEEEEEEEETTTH-HHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT-
T ss_pred             cHHHHHHHHHhhhchhhCCEEEEEEeCccc-hhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCcccccc
Confidence            99887765554   7889999999998641 1111   1222    1111  246899999999999854

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.

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.59  E-value=1.1e-14  Score=115.05  Aligned_cols=113  Identities=15%  Similarity=0.155  Sum_probs=73.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+|.|++.+.........    + .+........                .....++.++||||..
T Consensus         2 ~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~----~-~T~~~~~~~~----------------~~~~~~i~viDTPG~~   60 (196)
T cd01852           2 RLVLVGKTGAGKSATGNTILGREVFESKLSAS----S-VTKTCQKESA----------------VWDGRRVNVIDTPGLF   60 (196)
T ss_pred             EEEEECCCCCCHHHHHHHhhCCCccccccCCC----C-cccccceeeE----------------EECCeEEEEEECcCCC
Confidence            59999999999999999999886532111000    1 1111111100                0111239999999944


Q ss_pred             ch-------HHHH----HhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhC-C----CCEEEEEecccccC
Q psy6316         106 SF-------SNLR----NRGSSLCDIAILVVDIMHGLEPQTIESINILKSK-K----TPFVVALNKIDRLY  160 (259)
Q Consensus       106 ~~-------~~~~----~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~-~----~piivv~NK~D~~~  160 (259)
                      +.       ....    ......+|++++|+++.. ++..+...+..+++. +    .++++++|++|...
T Consensus        61 d~~~~~~~~~~~i~~~~~~~~~g~~~illVi~~~~-~t~~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~  130 (196)
T cd01852          61 DTSVSPEQLSKEIVRCLSLSAPGPHAFLLVVPLGR-FTEEEEQAVETLQELFGEKVLDHTIVLFTRGDDLE  130 (196)
T ss_pred             CccCChHHHHHHHHHHHHhcCCCCEEEEEEEECCC-cCHHHHHHHHHHHHHhChHhHhcEEEEEECccccC
Confidence            32       1111    123467899999999977 777788887777663 2    67899999999874

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).

>PTZ00099 rab6; Provisional

Probab=99.59  E-value=1.6e-15  Score=117.48  Aligned_cols=107  Identities=21%  Similarity=0.164  Sum_probs=78.3

Q ss_pred             eEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHH
Q psy6316          96 LLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVR  171 (259)
Q Consensus        96 ~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~  171 (259)
                      +.||||||++.+..++..+++.+|++|+|+|+++..+.... .++..+..   .+.|+++|+||+|+.... ....++. 
T Consensus        31 l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~~~~~piilVgNK~DL~~~~-~v~~~e~-  108 (176)
T PTZ00099         31 LQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLR-KVTYEEG-  108 (176)
T ss_pred             EEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECccccccc-CCCHHHH-
Confidence            99999999999999999999999999999999886555443 35444433   357889999999986321 1122222 


Q ss_pred             HHHhhhhccccccccccccccCcceeEEeecCCCCC
Q psy6316         172 DIIKSQESSVQTHKTVESARKGQEICIKIEPIPGEA  207 (259)
Q Consensus       172 ~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~~  207 (259)
                         .......++.++++||++|.|+.+++..+....
T Consensus       109 ---~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l  141 (176)
T PTZ00099        109 ---MQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKL  141 (176)
T ss_pred             ---HHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence               223334456778999999999999887775443

>cd01882 BMS1 Bms1

Probab=99.58  E-value=2.8e-14  Score=114.90  Aligned_cols=144  Identities=22%  Similarity=0.258  Sum_probs=92.0

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ..+..|+++|.+|+|||||++.|.+..-..    ......+..+.           ..           ....+++++||
T Consensus        37 ~~~~~i~ivG~~~~GKstl~~~l~~~~~~~----~~~~~~g~i~i-----------~~-----------~~~~~i~~vDt   90 (225)
T cd01882          37 PPPLVVAVVGPPGVGKTTLIKSLVKNYTKQ----NISDIKGPITV-----------VT-----------GKKRRLTFIEC   90 (225)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhcccC----ccccccccEEE-----------Ee-----------cCCceEEEEeC
Confidence            335569999999999999999997642110    01111110000           00           01113999999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEE-EEEecccccCcccccchhhHHHHHhh-hhc
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFV-VALNKIDRLYNWNTMNRRDVRDIIKS-QES  179 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pii-vv~NK~D~~~~~~~~~~~~~~~~~~~-~~~  179 (259)
                      ||+.   ......++.+|++++|+|++.+...++..++..+...+.|.+ +|+||+|+.....  ..+.....++. +..
T Consensus        91 Pg~~---~~~l~~ak~aDvVllviDa~~~~~~~~~~i~~~l~~~g~p~vi~VvnK~D~~~~~~--~~~~~~~~l~~~~~~  165 (225)
T cd01882          91 PNDI---NAMIDIAKVADLVLLLIDASFGFEMETFEFLNILQVHGFPRVMGVLTHLDLFKKNK--TLRKTKKRLKHRFWT  165 (225)
T ss_pred             CchH---HHHHHHHHhcCEEEEEEecCcCCCHHHHHHHHHHHHcCCCeEEEEEeccccCCcHH--HHHHHHHHHHHHHHH
Confidence            9853   334456789999999999998888888888888888888854 5999999874211  12233333333 221


Q ss_pred             -c-ccccccccccccCcce
Q psy6316         180 -S-VQTHKTVESARKGQEI  196 (259)
Q Consensus       180 -~-~~~~~i~~Sa~~g~gv  196 (259)
                       . ...+++++||++...+
T Consensus       166 ~~~~~~ki~~iSa~~~~~~  184 (225)
T cd01882         166 EVYQGAKLFYLSGIVHGRY  184 (225)
T ss_pred             hhCCCCcEEEEeeccCCCC
Confidence             1 1357778999876433

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.

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=99.58  E-value=1.5e-15  Score=128.49  Aligned_cols=195  Identities=15%  Similarity=0.169  Sum_probs=96.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      +.+|||+|.+|+|||||||+|.|-.-.... .+.       +..+++++....+..           ....++++||.||
T Consensus        35 ~l~IaV~G~sGsGKSSfINalrGl~~~d~~-aA~-------tGv~etT~~~~~Y~~-----------p~~pnv~lWDlPG   95 (376)
T PF05049_consen   35 PLNIAVTGESGSGKSSFINALRGLGHEDEG-AAP-------TGVVETTMEPTPYPH-----------PKFPNVTLWDLPG   95 (376)
T ss_dssp             -EEEEEEESTTSSHHHHHHHHTT--TTSTT-S---------SSSHSCCTS-EEEE------------SS-TTEEEEEE--
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCCCcC-cCC-------CCCCcCCCCCeeCCC-----------CCCCCCeEEeCCC
Confidence            357999999999999999999764332111 111       111122222222211           1112499999999


Q ss_pred             Ccc--hHH---HHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEeccccc-Cc-----ccccchhhHHH
Q psy6316         104 HES--FSN---LRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRL-YN-----WNTMNRRDVRD  172 (259)
Q Consensus       104 ~~~--~~~---~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~-~~-----~~~~~~~~~~~  172 (259)
                      ...  +..   .-...+...|.+|++.+  ..++..+..+...++..++|+++|-+|+|.- ..     .....++++.+
T Consensus        96 ~gt~~f~~~~Yl~~~~~~~yD~fiii~s--~rf~~ndv~La~~i~~~gK~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~  173 (376)
T PF05049_consen   96 IGTPNFPPEEYLKEVKFYRYDFFIIISS--ERFTENDVQLAKEIQRMGKKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQ  173 (376)
T ss_dssp             GGGSS--HHHHHHHTTGGG-SEEEEEES--SS--HHHHHHHHHHHHTT-EEEEEE--HHHHHHHHHCC-STT--HHTHHH
T ss_pred             CCCCCCCHHHHHHHccccccCEEEEEeC--CCCchhhHHHHHHHHHcCCcEEEEEecccccHhhhhccCCcccCHHHHHH
Confidence            432  211   11224578998887766  5567888999999999999999999999962 11     11223334444


Q ss_pred             HHhhh----hccc---cccccccccccCcc--eeEEeecCCCCCCcccccCC-cchhhHHHHhhhhhHHHHHHHHHh
Q psy6316         173 IIKSQ----ESSV---QTHKTVESARKGQE--ICIKIEPIPGEAPKMFGRHF-DENDFLVSKISRQSIDACKDYFRD  239 (259)
Q Consensus       173 ~~~~~----~~~~---~~~~i~~Sa~~g~g--v~~~l~~i~~~~~~~~~~~~-~~~~~~~~~~~~e~~~~l~~~~~~  239 (259)
                      .+++.    ....   ..++|.+|+..-..  ...+...+..+.+......+ ...+.+..+++.++.+++++.+..
T Consensus       174 ~IR~~c~~~L~k~gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp~~Kr~~fllsLp~is~~~I~kKk~~lk~~Iw~  250 (376)
T PF05049_consen  174 EIRENCLENLQKAGVSEPQVFLVSSFDLSKYDFPKLEETLEKDLPAHKRHAFLLSLPNISEAAIEKKKESLKQKIWL  250 (376)
T ss_dssp             HHHHHHHHHHHCTT-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-GGGHHHHHHHS---SHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCcCceEEEeCCCcccCChHHHHHHHHHHhHHHHHHHHHHHhHHhhHHHHHHHHHHHHHHHHH
Confidence            43332    2221   23556788875433  33333333333333222111 233445566777788788774443

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.

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=99.58  E-value=8.7e-15  Score=123.29  Aligned_cols=70  Identities=33%  Similarity=0.517  Sum_probs=64.9

Q ss_pred             CCCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316          91 LEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        91 ~~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      |....++|.|||||++|.....+.+-.+|.+|+|+|+..++.++++.++.-++..++|++=.+||+|...
T Consensus        78 Y~~~~iNLLDTPGHeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT~KLfeVcrlR~iPI~TFiNKlDR~~  147 (528)
T COG4108          78 YADCLVNLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQTLKLFEVCRLRDIPIFTFINKLDREG  147 (528)
T ss_pred             cCCeEEeccCCCCccccchhHHHHHHhhheeeEEEecccCccHHHHHHHHHHhhcCCceEEEeecccccc
Confidence            3333499999999999999999999999999999999999999999999999999999999999999874

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.57  E-value=7.4e-15  Score=120.49  Aligned_cols=152  Identities=18%  Similarity=0.166  Sum_probs=96.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ..|+++|.||||||||++.++..+..       ..++.+||..+.--.     +...          ....|++-|.||.
T Consensus       160 ADVGLVG~PNaGKSTlls~vS~AkPK-------IadYpFTTL~PnLGv-----V~~~----------~~~sfv~ADIPGL  217 (369)
T COG0536         160 ADVGLVGLPNAGKSTLLSAVSAAKPK-------IADYPFTTLVPNLGV-----VRVD----------GGESFVVADIPGL  217 (369)
T ss_pred             cccccccCCCCcHHHHHHHHhhcCCc-------ccCCccccccCcccE-----EEec----------CCCcEEEecCccc
Confidence            35899999999999999999877653       223333333322111     1100          0113999999992


Q ss_pred             c-------chHHHHHhhccCCCeEEEEEeCCCCCC---HHHHH-HHHHHHh-----CCCCEEEEEecccccCcccccchh
Q psy6316         105 E-------SFSNLRNRGSSLCDIAILVVDIMHGLE---PQTIE-SINILKS-----KKTPFVVALNKIDRLYNWNTMNRR  168 (259)
Q Consensus       105 ~-------~~~~~~~~~~~~ad~~i~v~d~~~~~~---~~~~~-~l~~~~~-----~~~piivv~NK~D~~~~~~~~~~~  168 (259)
                      .       -........+..+.++++|+|++....   .++.. +...+..     .++|.++|+||+|+..+     .+
T Consensus       218 IEGAs~G~GLG~~FLrHIERt~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~-----~e  292 (369)
T COG0536         218 IEGASEGVGLGLRFLRHIERTRVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLD-----EE  292 (369)
T ss_pred             ccccccCCCccHHHHHHHHhhheeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcC-----HH
Confidence            2       244556678889999999999975432   22222 3344444     36899999999996642     23


Q ss_pred             hHHHHHhhhhccccccccc-cccccCcceeEEeecC
Q psy6316         169 DVRDIIKSQESSVQTHKTV-ESARKGQEICIKIEPI  203 (259)
Q Consensus       169 ~~~~~~~~~~~~~~~~~i~-~Sa~~g~gv~~~l~~i  203 (259)
                      +.....+.+.....+.... +||.++.|++.++..+
T Consensus       293 ~~~~~~~~l~~~~~~~~~~~ISa~t~~g~~~L~~~~  328 (369)
T COG0536         293 ELEELKKALAEALGWEVFYLISALTREGLDELLRAL  328 (369)
T ss_pred             HHHHHHHHHHHhcCCCcceeeehhcccCHHHHHHHH
Confidence            3444444444444555444 9999999998865444

>KOG0072|consensus

Probab=99.56  E-value=3.3e-15  Score=107.27  Aligned_cols=152  Identities=24%  Similarity=0.240  Sum_probs=100.3

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEE
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLII   99 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li   99 (259)
                      .+||   |.++|..|+||+|++.++--.+...             +.++  ...+...+           .+++-++.+|
T Consensus        17 ~e~r---ililgldGaGkttIlyrlqvgevvt-------------tkPt--igfnve~v-----------~yKNLk~~vw   67 (182)
T KOG0072|consen   17 REMR---ILILGLDGAGKTTILYRLQVGEVVT-------------TKPT--IGFNVETV-----------PYKNLKFQVW   67 (182)
T ss_pred             cceE---EEEeeccCCCeeEEEEEcccCcccc-------------cCCC--CCcCcccc-----------ccccccceee
Confidence            5778   9999999999999998884333321             1111  01111111           1233349999


Q ss_pred             eCCCCcchHHHHHhhccCCCeEEEEEeCCCC--CCHHHHHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316         100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHG--LEPQTIESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus       100 DtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~--~~~~~~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      |..|+......|..++.+.|.+|||+|.++.  .+....++...+.+   .+..+++++||.|....-   ...+....+
T Consensus        68 dLggqtSirPyWRcYy~dt~avIyVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~~---t~~E~~~~L  144 (182)
T KOG0072|consen   68 DLGGQTSIRPYWRCYYADTDAVIYVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGAL---TRSEVLKML  144 (182)
T ss_pred             EccCcccccHHHHHHhcccceEEEEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhhh---hHHHHHHHh
Confidence            9999999999999999999999999998763  33333444444443   456788999999986421   223333322


Q ss_pred             hhh-hccccccccccccccCcceeEEeecC
Q psy6316         175 KSQ-ESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       175 ~~~-~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ... .+...+.++.+||.+|+|++...+.+
T Consensus       145 ~l~~Lk~r~~~Iv~tSA~kg~Gld~~~DWL  174 (182)
T KOG0072|consen  145 GLQKLKDRIWQIVKTSAVKGEGLDPAMDWL  174 (182)
T ss_pred             ChHHHhhheeEEEeeccccccCCcHHHHHH
Confidence            211 12224788899999999998855443

>KOG0074|consensus

Probab=99.56  E-value=1.3e-14  Score=103.97  Aligned_cols=153  Identities=17%  Similarity=0.098  Sum_probs=101.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|-.|||||||+..|.+....     -+..+.|+++...+...                 .+   ++++||..|
T Consensus        17 EirilllGldnAGKTT~LKqL~sED~~-----hltpT~GFn~k~v~~~g-----------------~f---~LnvwDiGG   71 (185)
T KOG0074|consen   17 EIRILLLGLDNAGKTTFLKQLKSEDPR-----HLTPTNGFNTKKVEYDG-----------------TF---HLNVWDIGG   71 (185)
T ss_pred             eEEEEEEecCCCcchhHHHHHccCChh-----hccccCCcceEEEeecC-----------------cE---EEEEEecCC
Confidence            344999999999999999999766542     24444444444332211                 11   299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHH--HH---HHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhh-
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQT--IE---SINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ-  177 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~--~~---~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~-  177 (259)
                      +...+..|..|+...|++|||+|+++.-...+  .+   ++...+-..+|+.+..||.|++...   ..+++...+... 
T Consensus        72 qr~IRpyWsNYyenvd~lIyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdlltaa---~~eeia~klnl~~  148 (185)
T KOG0074|consen   72 QRGIRPYWSNYYENVDGLIYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTAA---KVEEIALKLNLAG  148 (185)
T ss_pred             ccccchhhhhhhhccceEEEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhhc---chHHHHHhcchhh
Confidence            99999999999999999999999876533332  11   2222233568999999999998432   222222222111 


Q ss_pred             hccccccccccccccCcceeEEeecCC
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      .....|.+-.+||.+++|+..-...+.
T Consensus       149 lrdRswhIq~csals~eg~~dg~~wv~  175 (185)
T KOG0074|consen  149 LRDRSWHIQECSALSLEGSTDGSDWVQ  175 (185)
T ss_pred             hhhceEEeeeCccccccCccCcchhhh
Confidence            122257777899999999877544443

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.52  E-value=2.2e-14  Score=116.90  Aligned_cols=84  Identities=20%  Similarity=0.233  Sum_probs=59.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ..|+++|.|++|||||++.|.+.+.       -..++.+++..+-..+.                +|+.-+++++|+||.
T Consensus        64 a~v~lVGfPsvGKStLL~~LTnt~s-------eva~y~FTTl~~VPG~l----------------~Y~ga~IQild~Pgi  120 (365)
T COG1163          64 ATVALVGFPSVGKSTLLNKLTNTKS-------EVADYPFTTLEPVPGML----------------EYKGAQIQLLDLPGI  120 (365)
T ss_pred             eEEEEEcCCCccHHHHHHHHhCCCc-------cccccCceecccccceE----------------eecCceEEEEcCccc
Confidence            5699999999999999999988765       34445555554322221                233334999999992


Q ss_pred             cc-------hHHHHHhhccCCCeEEEEEeCCCCC
Q psy6316         105 ES-------FSNLRNRGSSLCDIAILVVDIMHGL  131 (259)
Q Consensus       105 ~~-------~~~~~~~~~~~ad~~i~v~d~~~~~  131 (259)
                      ..       -.+...+.++.||++++|+|+....
T Consensus       121 i~gas~g~grG~~vlsv~R~ADlIiiVld~~~~~  154 (365)
T COG1163         121 IEGASSGRGRGRQVLSVARNADLIIIVLDVFEDP  154 (365)
T ss_pred             ccCcccCCCCcceeeeeeccCCEEEEEEecCCCh
Confidence            21       2244566789999999999997543

>PRK12740 elongation factor G; Reviewed

Probab=99.51  E-value=8.6e-14  Score=129.06  Aligned_cols=104  Identities=23%  Similarity=0.289  Sum_probs=75.8

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      .+++|||||+.+|...+..++..+|++++|+|++.+...+....+..+...++|+++++||+|+...    ...+..+.+
T Consensus        61 ~i~liDtPG~~~~~~~~~~~l~~aD~vllvvd~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~~----~~~~~~~~l  136 (668)
T PRK12740         61 KINLIDTPGHVDFTGEVERALRVLDGAVVVVCAVGGVEPQTETVWRQAEKYGVPRIIFVNKMDRAGA----DFFRVLAQL  136 (668)
T ss_pred             EEEEEECCCcHHHHHHHHHHHHHhCeEEEEEeCCCCcCHHHHHHHHHHHHcCCCEEEEEECCCCCCC----CHHHHHHHH
Confidence            4999999999998888889999999999999999988888888888888889999999999998742    223344444


Q ss_pred             hhhhccccccccccccccCcceeEEeecC
Q psy6316         175 KSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       175 ~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +..... ......+....|.++..++..+
T Consensus       137 ~~~l~~-~~~~~~~p~~~~~~~~~~id~~  164 (668)
T PRK12740        137 QEKLGA-PVVPLQLPIGEGDDFTGVVDLL  164 (668)
T ss_pred             HHHHCC-CceeEEecccCCCCceEEEECc
Confidence            433221 1111234445666666655433

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.51  E-value=4.6e-13  Score=115.82  Aligned_cols=102  Identities=17%  Similarity=0.164  Sum_probs=54.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCC--CcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEA--GGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      +|+++|.||+|||||+|+|++..+.....  .++....|....+..-............ ...++.......+.+|||||
T Consensus         3 kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~-~~~~~~~~~~~~i~i~D~aG   81 (396)
T PRK09602          3 TIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPR-NGKCIDGTRFIPVELIDVAG   81 (396)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccc-cccccCCcceeeEEEEEcCC
Confidence            59999999999999999999877643211  1222222322211100000000000000 00000011112389999999


Q ss_pred             Cc----c---hHHHHHhhccCCCeEEEEEeCC
Q psy6316         104 HE----S---FSNLRNRGSSLCDIAILVVDIM  128 (259)
Q Consensus       104 ~~----~---~~~~~~~~~~~ad~~i~v~d~~  128 (259)
                      ..    .   ........++.+|++++|+|+.
T Consensus        82 l~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         82 LVPGAHEGRGLGNQFLDDLRQADALIHVVDAS  113 (396)
T ss_pred             cCCCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence            32    1   3334445589999999999996

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.50  E-value=8.8e-14  Score=116.86  Aligned_cols=102  Identities=17%  Similarity=0.117  Sum_probs=52.8

Q ss_pred             EEEEeeCCCChhHHHhHHhccccCCCCC--CcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTNVQDGEA--GGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      |+++|.+|+|||||+|+|++........  .++....+.......-............ ...+.......++.+|||||.
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~-~~~~~~~~~~v~i~l~D~aGl   79 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPR-YGKCIDGKRYVPVELIDVAGL   79 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhccc-ccccccCcCcceEEEEECCCC
Confidence            6899999999999999999876532111  1122222222111000000000000000 000000111124999999995


Q ss_pred             ----cchH---HHHHhhccCCCeEEEEEeCCC
Q psy6316         105 ----ESFS---NLRNRGSSLCDIAILVVDIMH  129 (259)
Q Consensus       105 ----~~~~---~~~~~~~~~ad~~i~v~d~~~  129 (259)
                          ..+.   ......++.||++++|+|+..
T Consensus        80 v~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~~  111 (318)
T cd01899          80 VPGAHEGKGLGNKFLDDLRDADALIHVVDASG  111 (318)
T ss_pred             CCCccchhhHHHHHHHHHHHCCEEEEEEeCCC
Confidence                2222   234446899999999999963

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.

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=99.50  E-value=2.1e-14  Score=119.18  Aligned_cols=66  Identities=30%  Similarity=0.439  Sum_probs=61.2

Q ss_pred             eEEEeCCCCcchHHHHHhhc--cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCc
Q psy6316          96 LLIIDTPGHESFSNLRNRGS--SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYN  161 (259)
Q Consensus        96 ~~liDtpG~~~~~~~~~~~~--~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~  161 (259)
                      +.|+||.||+.|.......+  ++.|-.++++-++++.+...++++..+.....|++++++|+|+..+
T Consensus       203 VsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~tkEHLgi~~a~~lPviVvvTK~D~~~d  270 (527)
T COG5258         203 VSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKMTKEHLGIALAMELPVIVVVTKIDMVPD  270 (527)
T ss_pred             EEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchhhhHhhhhhhhhcCCEEEEEEecccCcH
Confidence            89999999999988877765  7899999999999999999999999999999999999999999854

>KOG1707|consensus

Probab=99.48  E-value=3e-13  Score=117.76  Aligned_cols=159  Identities=17%  Similarity=0.167  Sum_probs=106.9

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ++...|+++|..|+|||||+-+|+...+...    ++.-....+.+.+.+.+..                   ..+++||
T Consensus         7 ~kdVRIvliGD~G~GKtSLImSL~~eef~~~----VP~rl~~i~IPadvtPe~v-------------------pt~ivD~   63 (625)
T KOG1707|consen    7 LKDVRIVLIGDEGVGKTSLIMSLLEEEFVDA----VPRRLPRILIPADVTPENV-------------------PTSIVDT   63 (625)
T ss_pred             ccceEEEEECCCCccHHHHHHHHHhhhcccc----ccccCCccccCCccCcCcC-------------------ceEEEec
Confidence            3344599999999999999999998877543    2222233334433332221                   2899999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHH--HHHHHHHHHhC-----CCCEEEEEecccccCcccccchhhHHHHH
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQ--TIESINILKSK-----KTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~--~~~~l~~~~~~-----~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      +...+-......-+++||++.+++++++..+..  ...|+-.++..     ++|+|+|+||+|....+.......+.-.+
T Consensus        64 ss~~~~~~~l~~EirkA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~pim  143 (625)
T KOG1707|consen   64 SSDSDDRLCLRKEIRKADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEVNTLPIM  143 (625)
T ss_pred             ccccchhHHHHHHHhhcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhHHHHHHH
Confidence            987766666678899999999999988754433  34466666653     58999999999998654331111233333


Q ss_pred             hhhhccccccccccccccCcceeEEeecCCC
Q psy6316         175 KSQESSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       175 ~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      .++...  -.+|.+||++-.++.+++-...+
T Consensus       144 ~~f~Ei--EtciecSA~~~~n~~e~fYyaqK  172 (625)
T KOG1707|consen  144 IAFAEI--ETCIECSALTLANVSELFYYAQK  172 (625)
T ss_pred             HHhHHH--HHHHhhhhhhhhhhHhhhhhhhh
Confidence            333321  35788999999999986644433

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=99.46  E-value=3.7e-13  Score=107.75  Aligned_cols=146  Identities=19%  Similarity=0.200  Sum_probs=77.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|+.++||||+.+.+...... .+...++.    | ..++......               ..+-.+.+||+||+.
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p-~dT~~L~~----T-~~ve~~~v~~---------------~~~~~l~iwD~pGq~   59 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSP-RDTLRLEP----T-IDVEKSHVRF---------------LSFLPLNIWDCPGQD   59 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---G-GGGGG----------SEEEEEEEC---------------TTSCEEEEEEE-SSC
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCc-hhccccCC----c-CCceEEEEec---------------CCCcEEEEEEcCCcc
Confidence            4999999999999999988755321 11111221    1 1111111110               001129999999987


Q ss_pred             chHHH-----HHhhccCCCeEEEEEeCCCCCCHHHHHH----HHHHHh--CCCCEEEEEecccccCcc-cccchhhHHHH
Q psy6316         106 SFSNL-----RNRGSSLCDIAILVVDIMHGLEPQTIES----INILKS--KKTPFVVALNKIDRLYNW-NTMNRRDVRDI  173 (259)
Q Consensus       106 ~~~~~-----~~~~~~~ad~~i~v~d~~~~~~~~~~~~----l~~~~~--~~~piivv~NK~D~~~~~-~~~~~~~~~~~  173 (259)
                      .+...     ....++.++++|||+|+.+.....+...    +..+.+  .+..+.++++|+|+...+ .....++..+.
T Consensus        60 ~~~~~~~~~~~~~if~~v~~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~sp~~~v~vfiHK~D~l~~~~r~~~~~~~~~~  139 (232)
T PF04670_consen   60 DFMENYFNSQREEIFSNVGVLIYVFDAQSDDYDEDLAYLSDCIEALRQYSPNIKVFVFIHKMDLLSEDEREEIFRDIQQR  139 (232)
T ss_dssp             STTHTTHTCCHHHHHCTESEEEEEEETT-STCHHHHHHHHHHHHHHHHHSTT-EEEEEEE-CCCS-HHHHHHHHHHHHHH
T ss_pred             ccccccccccHHHHHhccCEEEEEEEcccccHHHHHHHHHHHHHHHHHhCCCCeEEEEEeecccCCHHHHHHHHHHHHHH
Confidence            65443     3456789999999999985444444433    333333  357788999999998532 11122223333


Q ss_pred             Hhhhhcccc---cccccccccc
Q psy6316         174 IKSQESSVQ---THKTVESARK  192 (259)
Q Consensus       174 ~~~~~~~~~---~~~i~~Sa~~  192 (259)
                      +.+.....+   +.++.+|...
T Consensus       140 i~~~~~~~~~~~~~~~~TSI~D  161 (232)
T PF04670_consen  140 IRDELEDLGIEDITFFLTSIWD  161 (232)
T ss_dssp             HHHHHHHTT-TSEEEEEE-TTS
T ss_pred             HHHHhhhccccceEEEeccCcC
Confidence            333333333   4555566655

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.46  E-value=7.9e-14  Score=117.29  Aligned_cols=126  Identities=13%  Similarity=0.084  Sum_probs=77.2

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      +++|+||+|...-..   .....+|.+++|+++..+.   +...... .......++|+||+|+....   ..+.....+
T Consensus       150 d~viieT~Gv~qs~~---~i~~~aD~vlvv~~p~~gd---~iq~~k~-gi~E~aDIiVVNKaDl~~~~---~a~~~~~el  219 (332)
T PRK09435        150 DVILVETVGVGQSET---AVAGMVDFFLLLQLPGAGD---ELQGIKK-GIMELADLIVINKADGDNKT---AARRAAAEY  219 (332)
T ss_pred             CEEEEECCCCccchh---HHHHhCCEEEEEecCCchH---HHHHHHh-hhhhhhheEEeehhcccchh---HHHHHHHHH
Confidence            499999999653222   2456799999998744332   2222111 01122348999999987432   112222223


Q ss_pred             hhhhc-------cccccccccccccCcceeEEeecCCCCCCcccccCC------cchhhHHHHhhhhhH
Q psy6316         175 KSQES-------SVQTHKTVESARKGQEICIKIEPIPGEAPKMFGRHF------DENDFLVSKISRQSI  230 (259)
Q Consensus       175 ~~~~~-------~~~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~------~~~~~~~~~~~~e~~  230 (259)
                      .....       .|..+++.+||++|.|+++++..+....+.++++..      ...++++.+++++.+
T Consensus       220 ~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~~l~~sg~l~~~r~~~~~~~v~elire~l  288 (332)
T PRK09435        220 RSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRAALTASGEFAARRREQQVDWMWEMVEEGL  288 (332)
T ss_pred             HHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHHHHHH
Confidence            32222       133467889999999999988888766666665554      244667777777766

>PRK13768 GTPase; Provisional

Probab=99.46  E-value=5.5e-14  Score=115.05  Aligned_cols=106  Identities=18%  Similarity=0.209  Sum_probs=66.8

Q ss_pred             CeEEEeCCCCcchH---HHH---HhhccC--CCeEEEEEeCCCCCCHHHHHHHHHHH-----hCCCCEEEEEecccccCc
Q psy6316          95 GLLIIDTPGHESFS---NLR---NRGSSL--CDIAILVVDIMHGLEPQTIESINILK-----SKKTPFVVALNKIDRLYN  161 (259)
Q Consensus        95 ~~~liDtpG~~~~~---~~~---~~~~~~--ad~~i~v~d~~~~~~~~~~~~l~~~~-----~~~~piivv~NK~D~~~~  161 (259)
                      ++.+|||||+.+..   ..+   ...+..  ++++++|+|++...+..+......+.     ..++|+++|+||+|+...
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~~~~~i~v~nK~D~~~~  177 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGLPQIPVLNKADLLSE  177 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHHcCCCEEEEEEhHhhcCc
Confidence            59999999965532   222   222333  89999999998766666654433332     568999999999999853


Q ss_pred             ccccchhhHHHHHhh------------------------hhccc--cccccccccccCcceeEEeecC
Q psy6316         162 WNTMNRRDVRDIIKS------------------------QESSV--QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       162 ~~~~~~~~~~~~~~~------------------------~~~~~--~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..   .+.....+..                        .....  ..+++++||++++|+++++..+
T Consensus       178 ~~---~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I  242 (253)
T PRK13768        178 EE---LERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAI  242 (253)
T ss_pred             hh---HHHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHH
Confidence            21   1222222221                        11111  2467889999999998855544

>KOG1490|consensus

Probab=99.44  E-value=5e-13  Score=114.45  Aligned_cols=167  Identities=16%  Similarity=0.170  Sum_probs=109.3

Q ss_pred             hhhhhhhhhcCCCCcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCC
Q psy6316           5 FNKRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGE   84 (259)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (259)
                      +...++.+...|..-+.+|  .++++|-||+|||||+|.+......       ...+.+++...--              
T Consensus       151 LeqVrqhl~rlPsIDp~tr--TlllcG~PNVGKSSf~~~vtradve-------vqpYaFTTksL~v--------------  207 (620)
T KOG1490|consen  151 LEQVRQHLSRLPAIDPNTR--TLLVCGYPNVGKSSFNNKVTRADDE-------VQPYAFTTKLLLV--------------  207 (620)
T ss_pred             HHHHHHHHhcCCCCCCCcC--eEEEecCCCCCcHhhcccccccccc-------cCCcccccchhhh--------------
Confidence            3456777778887777766  6999999999999999999777653       2233333332211              


Q ss_pred             CCCCCCCCCCCeEEEeCCCCcc-----hH--HH-H-HhhccCCCeEEEEEeCCCCCCHH---HHHHHHHHHh--CCCCEE
Q psy6316          85 VGGPGPLEIPGLLIIDTPGHES-----FS--NL-R-NRGSSLCDIAILVVDIMHGLEPQ---TIESINILKS--KKTPFV  150 (259)
Q Consensus        85 ~~~~~~~~~~~~~liDtpG~~~-----~~--~~-~-~~~~~~ad~~i~v~d~~~~~~~~---~~~~l~~~~~--~~~pii  150 (259)
                        ++..|..-.|+++||||..+     .+  .+ . ....+.-.+|+|++|.+......   ...++..++.  .++|.|
T Consensus       208 --GH~dykYlrwQViDTPGILD~plEdrN~IEmqsITALAHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLFaNK~~I  285 (620)
T KOG1490|consen  208 --GHLDYKYLRWQVIDTPGILDRPEEDRNIIEMQIITALAHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFANKVTI  285 (620)
T ss_pred             --hhhhhheeeeeecCCccccCcchhhhhHHHHHHHHHHHHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHhcCCceE
Confidence              12244444699999999322     11  11 1 12335667899999998654432   2344555555  489999


Q ss_pred             EEEecccccCcccccchhhHHHHHhhhhccccccccccccccCcceeE
Q psy6316         151 VALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICI  198 (259)
Q Consensus       151 vv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~  198 (259)
                      +|+||+|....+.-.  ++-.+.++......+++++.+|+.+-+|+-.
T Consensus       286 lvlNK~D~m~~edL~--~~~~~ll~~~~~~~~v~v~~tS~~~eegVm~  331 (620)
T KOG1490|consen  286 LVLNKIDAMRPEDLD--QKNQELLQTIIDDGNVKVVQTSCVQEEGVMD  331 (620)
T ss_pred             EEeecccccCccccC--HHHHHHHHHHHhccCceEEEecccchhceee
Confidence            999999998754322  2233445555555568889999999999865

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=99.43  E-value=8.7e-13  Score=101.46  Aligned_cols=64  Identities=27%  Similarity=0.426  Sum_probs=48.3

Q ss_pred             CCCeEEEeCCCCcc----hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHh-CCCCEEEEEecc
Q psy6316          93 IPGLLIIDTPGHES----FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKS-KKTPFVVALNKI  156 (259)
Q Consensus        93 ~~~~~liDtpG~~~----~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~-~~~piivv~NK~  156 (259)
                      ..++.|+||||...    ....+..+++.+|++|+|++++......+...+..... ....+++|+||+
T Consensus       100 ~~~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~~~~~i~V~nk~  168 (168)
T PF00350_consen  100 LRNLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPDKSRTIFVLNKA  168 (168)
T ss_dssp             SCSEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTTCSSEEEEEE-G
T ss_pred             ccceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCCCCeEEEEEcCC
Confidence            34599999999432    33667778899999999999998777777776665554 456689999985

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 ....

>KOG0077|consensus

Probab=99.43  E-value=1.2e-12  Score=96.57  Aligned_cols=114  Identities=18%  Similarity=0.199  Sum_probs=79.2

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      |..+++++|-.|||||||+++|-.....+.     .     .+..+....-...++                .++-+|..
T Consensus        19 K~gKllFlGLDNAGKTTLLHMLKdDrl~qh-----v-----PTlHPTSE~l~Ig~m----------------~ftt~DLG   72 (193)
T KOG0077|consen   19 KFGKLLFLGLDNAGKTTLLHMLKDDRLGQH-----V-----PTLHPTSEELSIGGM----------------TFTTFDLG   72 (193)
T ss_pred             cCceEEEEeecCCchhhHHHHHcccccccc-----C-----CCcCCChHHheecCc----------------eEEEEccc
Confidence            356799999999999999999965543211     1     111111111111222                29999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHH---HH-hCCCCEEEEEecccccCcc
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINI---LK-SKKTPFVVALNKIDRLYNW  162 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~---~~-~~~~piivv~NK~D~~~~~  162 (259)
                      ||..-...|..++..+|++++++|+.+....++ +..+..   .. -.+.|+++..||+|.....
T Consensus        73 GH~qArr~wkdyf~~v~~iv~lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a~  137 (193)
T KOG0077|consen   73 GHLQARRVWKDYFPQVDAIVYLVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYAA  137 (193)
T ss_pred             cHHHHHHHHHHHHhhhceeEeeeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCcc
Confidence            999999999999999999999999987544333 222222   22 3579999999999998654

>KOG0468|consensus

Probab=99.43  E-value=8.3e-13  Score=116.31  Aligned_cols=137  Identities=27%  Similarity=0.306  Sum_probs=90.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCC-CCCCCCCCCCCeEEEeCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGE-VGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~liDtp  102 (259)
                      ..+|+++|+-.+|||+|+..|....-...+. .......+++..+.. .++...+...... +.....-+-.-++++|||
T Consensus       128 irnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~-~~e~~lrytD~l~~E-~eRg~sIK~~p~Tl~l~D~~~KS~l~nilDTP  205 (971)
T KOG0468|consen  128 IRNVGLVGHLHHGKTALMDLLVEQTHPDFSK-NTEADLRYTDTLFYE-QERGCSIKSTPVTLVLSDSKGKSYLMNILDTP  205 (971)
T ss_pred             EEEEEEeeccccChhHHHHhhceeccccccc-cccccccccccchhh-HhcCceEeecceEEEEecCcCceeeeeeecCC
Confidence            4589999999999999999996553211100 001111111111110 0111111100000 000000111128999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcc
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNW  162 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~  162 (259)
                      ||-.|.......++.+|++++|+|+.++.+....+.+++....+.|+++|+||+|++..+
T Consensus       206 GHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlntEr~ikhaiq~~~~i~vviNKiDRLilE  265 (971)
T KOG0468|consen  206 GHVNFSDETTASLRLSDGVVLVVDVAEGVMLNTERIIKHAIQNRLPIVVVINKVDRLILE  265 (971)
T ss_pred             CcccchHHHHHHhhhcceEEEEEEcccCceeeHHHHHHHHHhccCcEEEEEehhHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999987543

>KOG1532|consensus

Probab=99.42  E-value=9.4e-14  Score=110.61  Aligned_cols=116  Identities=22%  Similarity=0.273  Sum_probs=71.8

Q ss_pred             CeEEEeCCCCcc-hHHH-----HHhhc--cCCCeEEEEEeCCCCCCHHH-----HHHHHHHHhCCCCEEEEEecccccCc
Q psy6316          95 GLLIIDTPGHES-FSNL-----RNRGS--SLCDIAILVVDIMHGLEPQT-----IESINILKSKKTPFVVALNKIDRLYN  161 (259)
Q Consensus        95 ~~~liDtpG~~~-~~~~-----~~~~~--~~ad~~i~v~d~~~~~~~~~-----~~~l~~~~~~~~piivv~NK~D~~~~  161 (259)
                      ++.++|||||.+ |.+.     ....+  ...-+++||+|......+..     +.-...+.+...|.|+++||+|..++
T Consensus       117 ~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlYAcSilyktklp~ivvfNK~Dv~d~  196 (366)
T KOG1532|consen  117 DYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLYACSILYKTKLPFIVVFNKTDVSDS  196 (366)
T ss_pred             CEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHHHHHHHHhccCCeEEEEeccccccc
Confidence            399999999654 3322     22222  35678899999765444332     22345667788999999999999865


Q ss_pred             ccccc----hhhHHHHHhhhhcc-----------------ccccccccccccCcceeEEeecCCCCCCcc
Q psy6316         162 WNTMN----RRDVRDIIKSQESS-----------------VQTHKTVESARKGQEICIKIEPIPGEAPKM  210 (259)
Q Consensus       162 ~~~~~----~~~~~~~~~~~~~~-----------------~~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~  210 (259)
                      +...+    .+...+.++.....                 .+.+.+.+|+.+|+|+++.+..+......+
T Consensus       197 ~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~ddf~~av~~~vdEy  266 (366)
T KOG1532|consen  197 EFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGFDDFFTAVDESVDEY  266 (366)
T ss_pred             HHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcHHHHHHHHHHHHHHH
Confidence            32222    22222222221000                 056788899999999999877665544443

>KOG3883|consensus

Probab=99.42  E-value=1.9e-12  Score=94.16  Aligned_cols=151  Identities=25%  Similarity=0.187  Sum_probs=98.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCC--CcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEA--GGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ..+|+++|.-++|||+++..|+..+-..+..  +++...+-..-......++                     .+.|.||
T Consensus         9 ~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiEDiY~~svet~rgarE---------------------~l~lyDT   67 (198)
T KOG3883|consen    9 VCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIEDIYVASVETDRGARE---------------------QLRLYDT   67 (198)
T ss_pred             ceEEEEECCccccHHHHHHHHHhccCCCCCccccchhhheeEeeecCCChhh---------------------eEEEeec
Confidence            3459999999999999999997665433221  2222222111111111111                     2999999


Q ss_pred             CCCcch-HHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHh-----CCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316         102 PGHESF-SNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKS-----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus       102 pG~~~~-~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~-----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      .|...+ ..+-..+++-+|++++|++..+..+.+-.+.++....     ..+|+++++||+|+..     ..+......+
T Consensus        68 aGlq~~~~eLprhy~q~aDafVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~-----p~~vd~d~A~  142 (198)
T KOG3883|consen   68 AGLQGGQQELPRHYFQFADAFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAE-----PREVDMDVAQ  142 (198)
T ss_pred             ccccCchhhhhHhHhccCceEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhccc-----chhcCHHHHH
Confidence            996555 5666678899999999999988777776666655433     3479999999999863     2233334445


Q ss_pred             hhhccccccccccccccCcceeEEe
Q psy6316         176 SQESSVQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       176 ~~~~~~~~~~i~~Sa~~g~gv~~~l  200 (259)
                      .+...-.+.-+.++|.....+-+.+
T Consensus       143 ~Wa~rEkvkl~eVta~dR~sL~epf  167 (198)
T KOG3883|consen  143 IWAKREKVKLWEVTAMDRPSLYEPF  167 (198)
T ss_pred             HHHhhhheeEEEEEeccchhhhhHH
Confidence            5555445666677777665554433

>smart00053 DYNc Dynamin, GTPase

Probab=99.41  E-value=7.8e-12  Score=100.77  Aligned_cols=66  Identities=15%  Similarity=0.169  Sum_probs=52.3

Q ss_pred             CeEEEeCCCCcc-------------hHHHHHhhcc-CCCeEEEEEeCCCCCCHHH-HHHHHHHHhCCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHES-------------FSNLRNRGSS-LCDIAILVVDIMHGLEPQT-IESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~-------------~~~~~~~~~~-~ad~~i~v~d~~~~~~~~~-~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      +++|+||||...             ...+...+++ ..+++++|+|++.++..++ .++.+.+...+.|+++|+||+|..
T Consensus       126 ~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~~~~rti~ViTK~D~~  205 (240)
T smart00053      126 NLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDPQGERTIGVITKLDLM  205 (240)
T ss_pred             ceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHHcCCcEEEEEECCCCC
Confidence            599999999531             2233445666 5679999999988777766 688888888999999999999997


Q ss_pred             C
Q psy6316         160 Y  160 (259)
Q Consensus       160 ~  160 (259)
                      .
T Consensus       206 ~  206 (240)
T smart00053      206 D  206 (240)
T ss_pred             C
Confidence            4

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.40  E-value=3.8e-12  Score=107.93  Aligned_cols=150  Identities=17%  Similarity=0.180  Sum_probs=87.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCC----C-----cceeec-c---ccccCccccccccccccCCCCCCCCCCCCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEA----G-----GITQQI-G---ATNVPADAIRENTKHVRGPGGEVGGPGPLE   92 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~----~-----~~~~~~-~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (259)
                      .|+++|+.++|||||+|++.+.-+.++-.    .     .++... |   .|+.+. ........+...+        -.
T Consensus        19 yIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePk-fvP~kAvEI~~~~--------~~   89 (492)
T TIGR02836        19 YIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPK-FVPNEAVEININE--------GT   89 (492)
T ss_pred             EEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCc-cccCcceEEeccC--------CC
Confidence            49999999999999999999883222111    0     022222 2   222222 2111111111111        11


Q ss_pred             CCCeEEEeCCCCcc--------hHH-----------------H----HHhhcc-CCCeEEEEE-eCC------CCCCHHH
Q psy6316          93 IPGLLIIDTPGHES--------FSN-----------------L----RNRGSS-LCDIAILVV-DIM------HGLEPQT  135 (259)
Q Consensus        93 ~~~~~liDtpG~~~--------~~~-----------------~----~~~~~~-~ad~~i~v~-d~~------~~~~~~~  135 (259)
                      ..++.++||+|...        -..                 .    ....++ .+|+.|+|. |.+      +.....+
T Consensus        90 ~~~VrlIDcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aE  169 (492)
T TIGR02836        90 KFKVRLVDCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAE  169 (492)
T ss_pred             cccEEEEECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHH
Confidence            12399999999321        111                 0    223445 899999999 765      3455667


Q ss_pred             HHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccccccccccccc
Q psy6316         136 IESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESAR  191 (259)
Q Consensus       136 ~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~  191 (259)
                      .+++..+++.++|+++++||+|-...       +.......+...++.+++++||.
T Consensus       170 e~~i~eLk~~~kPfiivlN~~dp~~~-------et~~l~~~l~eky~vpvl~v~c~  218 (492)
T TIGR02836       170 ERVIEELKELNKPFIILLNSTHPYHP-------ETEALRQELEEKYDVPVLAMDVE  218 (492)
T ss_pred             HHHHHHHHhcCCCEEEEEECcCCCCc-------hhHHHHHHHHHHhCCceEEEEHH
Confidence            88999999999999999999994321       12222223334445666777774

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.

>KOG0463|consensus

Probab=99.40  E-value=9.6e-13  Score=109.23  Aligned_cols=152  Identities=16%  Similarity=0.198  Sum_probs=108.8

Q ss_pred             eEEEeCCCCcchHHHHHhhc--cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHH
Q psy6316          96 LLIIDTPGHESFSNLRNRGS--SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDI  173 (259)
Q Consensus        96 ~~liDtpG~~~~~~~~~~~~--~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~  173 (259)
                      ++|||.+||+.|.+.....+  +..|...+++.++.++....++++......++|+++|++|+|+...   ...++..+.
T Consensus       221 iTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaGIiGmTKEHLgLALaL~VPVfvVVTKIDMCPA---NiLqEtmKl  297 (641)
T KOG0463|consen  221 ITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAGIIGMTKEHLGLALALHVPVFVVVTKIDMCPA---NILQETMKL  297 (641)
T ss_pred             EEEEeccchhhhhheeeeccccCCCCceEEEecccccceeccHHhhhhhhhhcCcEEEEEEeeccCcH---HHHHHHHHH
Confidence            89999999999988766655  5789999999999998888999999999999999999999999732   244556666


Q ss_pred             HhhhhccccccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCc----hhhHHH
Q psy6316         174 IKSQESSVQTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQK----TDWQLM  249 (259)
Q Consensus       174 ~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~----~~~~~~  249 (259)
                      +.++.+.-+++.+++-.++...+...-.....+..+        .-|.++.+..+.++.|+.++....-.    -..|.-
T Consensus       298 l~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~C--------PIFQvSNVtG~NL~LLkmFLNlls~R~~~~E~~PAe  369 (641)
T KOG0463|consen  298 LTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVC--------PIFQVSNVTGTNLPLLKMFLNLLSLRRQLNENDPAE  369 (641)
T ss_pred             HHHHhcCCCcccCcEEEecccceEEeeccCcccccc--------ceEEeccccCCChHHHHHHHhhcCcccccccCCCcc
Confidence            777777777888877776666554433333333322        34556777777888887755432211    123455


Q ss_pred             HHHHHhhcc
Q psy6316         250 VDLKKVFQI  258 (259)
Q Consensus       250 ~~i~~~~~~  258 (259)
                      +.|+|+|.+
T Consensus       370 FQIDD~Y~V  378 (641)
T KOG0463|consen  370 FQIDDIYWV  378 (641)
T ss_pred             eeecceEec
Confidence            777887764

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=99.40  E-value=1.5e-13  Score=96.53  Aligned_cols=135  Identities=17%  Similarity=0.146  Sum_probs=89.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC--
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG--  103 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG--  103 (259)
                      +++++|..|+|||||.++|.|........-.+.                                +  .+=-.+||||  
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~~lykKTQAve--------------------------------~--~d~~~IDTPGEy   48 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGNDTLYKKTQAVE--------------------------------F--NDKGDIDTPGEY   48 (148)
T ss_pred             eeEEecccccCchhHHHHhhcchhhhcccceee--------------------------------c--cCccccCCchhh
Confidence            599999999999999999977654211100000                                0  0123689999  


Q ss_pred             --CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhc-c
Q psy6316         104 --HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES-S  180 (259)
Q Consensus       104 --~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~-~  180 (259)
                        |..+.+.+....+.+|++++|-.++++.+.-.-.   ++....+|+|-+++|+|+..+      .++ ...+++.. .
T Consensus        49 ~~~~~~Y~aL~tt~~dadvi~~v~~and~~s~f~p~---f~~~~~k~vIgvVTK~DLaed------~dI-~~~~~~L~ea  118 (148)
T COG4917          49 FEHPRWYHALITTLQDADVIIYVHAANDPESRFPPG---FLDIGVKKVIGVVTKADLAED------ADI-SLVKRWLREA  118 (148)
T ss_pred             hhhhHHHHHHHHHhhccceeeeeecccCccccCCcc---cccccccceEEEEecccccch------HhH-HHHHHHHHHc
Confidence              5556666667779999999999998764432221   223345779999999999832      222 22333322 2


Q ss_pred             ccccccccccccCcceeEEeecCC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ..-++|.+|+.+..|+++++..+.
T Consensus       119 Ga~~IF~~s~~d~~gv~~l~~~L~  142 (148)
T COG4917         119 GAEPIFETSAVDNQGVEELVDYLA  142 (148)
T ss_pred             CCcceEEEeccCcccHHHHHHHHH
Confidence            235777899999999988665543

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=99.40  E-value=4.4e-12  Score=103.25  Aligned_cols=116  Identities=15%  Similarity=0.147  Sum_probs=70.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      +.+|+++|.+|+|||||+|+|++.......      .....+........                ......++||||||
T Consensus        31 ~~~IllvG~tGvGKSSliNaLlg~~~~~v~------~~~~~T~~~~~~~~----------------~~~g~~i~vIDTPG   88 (249)
T cd01853          31 SLTILVLGKTGVGKSSTINSIFGERKAATS------AFQSETLRVREVSG----------------TVDGFKLNIIDTPG   88 (249)
T ss_pred             CeEEEEECCCCCcHHHHHHHHhCCCCcccC------CCCCceEEEEEEEE----------------EECCeEEEEEECCC
Confidence            355999999999999999999987643211      01001111100000                00111399999999


Q ss_pred             CcchH--H-H-------HHhhc--cCCCeEEEEEeCCC-CCCHHHHHHHHHHHh-CC----CCEEEEEecccccCc
Q psy6316         104 HESFS--N-L-------RNRGS--SLCDIAILVVDIMH-GLEPQTIESINILKS-KK----TPFVVALNKIDRLYN  161 (259)
Q Consensus       104 ~~~~~--~-~-------~~~~~--~~ad~~i~v~d~~~-~~~~~~~~~l~~~~~-~~----~piivv~NK~D~~~~  161 (259)
                      ..+..  . .       ...++  ...|+++||...+. .....+...++.+.+ .+    .++++|+||+|...+
T Consensus        89 l~~~~~~~~~~~~~~~~I~~~l~~~~idvIL~V~rlD~~r~~~~d~~llk~I~e~fG~~i~~~~ivV~T~~d~~~p  164 (249)
T cd01853          89 LLESVMDQRVNRKILSSIKRYLKKKTPDVVLYVDRLDMYRRDYLDLPLLRAITDSFGPSIWRNAIVVLTHAASSPP  164 (249)
T ss_pred             cCcchhhHHHHHHHHHHHHHHHhccCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhChhhHhCEEEEEeCCccCCC
Confidence            55431  0 0       11233  26789999976653 455666677777665 23    579999999998753

This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.

>KOG0448|consensus

Probab=99.40  E-value=1.9e-12  Score=114.55  Aligned_cols=103  Identities=18%  Similarity=0.187  Sum_probs=72.0

Q ss_pred             CCCCCCCeEEEeCCC---CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCccccc
Q psy6316          89 GPLEIPGLLIIDTPG---HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTM  165 (259)
Q Consensus        89 ~~~~~~~~~liDtpG---~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~  165 (259)
                      +.+..++++++|.||   ......+....+..+|++|||+++.+..+..++.++....+....+.++.||+|...++.+ 
T Consensus       201 csLLrnDivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~sek~Ff~~vs~~KpniFIlnnkwDasase~e-  279 (749)
T KOG0448|consen  201 CSLLRNDIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSEKQFFHKVSEEKPNIFILNNKWDASASEPE-  279 (749)
T ss_pred             chhhhccceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHHHHHHHHhhccCCcEEEEechhhhhcccHH-
Confidence            456666899999999   3446666777889999999999999988888899988887773335566778998765322 


Q ss_pred             chhhHHHHHhhhhc----ccccccccccccc
Q psy6316         166 NRRDVRDIIKSQES----SVQTHKTVESARK  192 (259)
Q Consensus       166 ~~~~~~~~~~~~~~----~~~~~~i~~Sa~~  192 (259)
                      ..+.+...+.++..    .-.-.+++|||+.
T Consensus       280 c~e~V~~Qi~eL~v~~~~eA~DrvfFVS~~e  310 (749)
T KOG0448|consen  280 CKEDVLKQIHELSVVTEKEAADRVFFVSAKE  310 (749)
T ss_pred             HHHHHHHHHHhcCcccHhhhcCeeEEEeccc
Confidence            33444444333321    1134677899764

>KOG0096|consensus

Probab=99.39  E-value=4e-13  Score=101.13  Aligned_cols=150  Identities=17%  Similarity=0.169  Sum_probs=108.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +++++|..|.||||++++.+...++.++..+++...-.+......     +.+.                |..|||.|++
T Consensus        12 klvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~-----g~ir----------------f~~wdtagqE   70 (216)
T KOG0096|consen   12 KLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNR-----GQIR----------------FNVWDTAGQE   70 (216)
T ss_pred             EEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeeccc-----CcEE----------------EEeeecccce
Confidence            399999999999999999999999887777666554322222111     1122                9999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHH-HHH-H-hCCCCEEEEEecccccCcccccchhhHHHHHhhhhcccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESI-NIL-K-SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ  182 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l-~~~-~-~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~  182 (259)
                      .+......++-+..++++++|.++..+......| +-+ + ..++|+++++||.|....       ........+....+
T Consensus        71 k~gglrdgyyI~~qcAiimFdVtsr~t~~n~~rwhrd~~rv~~NiPiv~cGNKvDi~~r-------~~k~k~v~~~rkkn  143 (216)
T KOG0096|consen   71 KKGGLRDGYYIQGQCAIIMFDVTSRFTYKNVPRWHRDLVRVRENIPIVLCGNKVDIKAR-------KVKAKPVSFHRKKN  143 (216)
T ss_pred             eecccccccEEecceeEEEeeeeehhhhhcchHHHHHHHHHhcCCCeeeeccceecccc-------ccccccceeeeccc
Confidence            9999888888888999999999987776654433 222 2 245899999999997531       11222223334446


Q ss_pred             ccccccccccCcceeEEeecC
Q psy6316         183 THKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       183 ~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +..+.+||+++.+.+.-+.++
T Consensus       144 l~y~~iSaksn~NfekPFl~L  164 (216)
T KOG0096|consen  144 LQYYEISAKSNYNFERPFLWL  164 (216)
T ss_pred             ceeEEeecccccccccchHHH
Confidence            788899999999998855544

>KOG0459|consensus

Probab=99.39  E-value=1.6e-13  Score=114.51  Aligned_cols=148  Identities=21%  Similarity=0.310  Sum_probs=109.9

Q ss_pred             CCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCC-------CHHHHHHHHHHHhCCC-CEEEEEecccccC-cc
Q psy6316          92 EIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGL-------EPQTIESINILKSKKT-PFVVALNKIDRLY-NW  162 (259)
Q Consensus        92 ~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~-------~~~~~~~l~~~~~~~~-piivv~NK~D~~~-~~  162 (259)
                      ..+++++.|+|||..|...+...+.+||+.++|+.+..+.       ..+.+++....+..++ ..|+++||+|-.. .|
T Consensus       155 e~~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt~gv~~lVv~vNKMddPtvnW  234 (501)
T KOG0459|consen  155 ENKRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPTVNW  234 (501)
T ss_pred             cceeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHhhccceEEEEEEeccCCccCc
Confidence            3445999999999999999999999999999999986532       2366777777777664 5788999999775 46


Q ss_pred             cccchhhHHHHHhhhhccc------cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHH
Q psy6316         163 NTMNRRDVRDIIKSQESSV------QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDY  236 (259)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~------~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~  236 (259)
                      +....++....+..+...+      ...++++|..+|.++.+...   ...+|+++..+              +.-+++ 
T Consensus       235 s~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~~---s~cpwy~gp~f--------------l~~ld~-  296 (501)
T KOG0459|consen  235 SNERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRTD---SVCPWYKGPIF--------------LEYLDE-  296 (501)
T ss_pred             chhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhccc---ccCCcccCCcc--------------ceehhc-
Confidence            6666666776666665533      23567899999999988554   45666655432              112333 


Q ss_pred             HHhhcCchhhHHHHHHHHhhc
Q psy6316         237 FRDDLQKTDWQLMVDLKKVFQ  257 (259)
Q Consensus       237 ~~~~~~~~~~~~~~~i~~~~~  257 (259)
                      ++...+..+.|++|+|-+-|+
T Consensus       297 l~~~~R~~~GP~~~pI~~Kyk  317 (501)
T KOG0459|consen  297 LPHLERILNGPIRCPVANKYK  317 (501)
T ss_pred             cCcccccCCCCEEeehhhhcc
Confidence            677889999999999988775

>KOG0466|consensus

Probab=99.36  E-value=2e-13  Score=110.33  Aligned_cols=189  Identities=19%  Similarity=0.226  Sum_probs=121.8

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccc---cCCCCCCcceeeccccccCccccccc------cccccCCCCCCCCCCC---
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTN---VQDGEAGGITQQIGATNVPADAIREN------TKHVRGPGGEVGGPGP---   90 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~---   90 (259)
                      ..-+|+-+|+..+||||++.++.+-.   |...-.+.++...++.+.....-.+.      .....+-..+..++++   
T Consensus        37 ATiNIGTIGHVAHGKSTvVkAiSGv~TvrFK~ELERNITIKLGYANAKIYkc~~~kCprP~cy~s~gS~k~d~~~c~~~g  116 (466)
T KOG0466|consen   37 ATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKCDDPKCPRPGCYRSFGSSKEDRPPCDRPG  116 (466)
T ss_pred             eeeeecceeccccCcceeeeeeccceEEEehhhhhcceeEEeccccceEEecCCCCCCCcchhhccCCCCCCCCCcccCC
Confidence            35679999999999999999998764   44444455666666555443222110      0000111111112221   


Q ss_pred             -----CCCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCC-CCHHHHHHHHHHHhCC-CCEEEEEecccccCccc
Q psy6316          91 -----LEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG-LEPQTIESINILKSKK-TPFVVALNKIDRLYNWN  163 (259)
Q Consensus        91 -----~~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~-~~~~~~~~l~~~~~~~-~piivv~NK~D~~~~~~  163 (259)
                           -..+++.|+|||||+-.-..+.......|++++++-++++ .++++.+++..+.... +.++++-||+|+...+.
T Consensus       117 ~~~~~klvRHVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLaaveiM~LkhiiilQNKiDli~e~~  196 (466)
T KOG0466|consen  117 CEGKMKLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAAVEIMKLKHIIILQNKIDLIKESQ  196 (466)
T ss_pred             CCCceEEEEEEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHHHHHHhhhceEEEEechhhhhhHHH
Confidence                 1223589999999987766666677788999999988754 5677888887777655 56788999999986432


Q ss_pred             ccchhhHHHHHhhhhccccccccccccccCcceeEEeecCCCCCCccc
Q psy6316         164 TMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIEPIPGEAPKMF  211 (259)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~  211 (259)
                      ..+..+..+.+-.-...-+.+++++||.-+++++.+.+++.+..|...
T Consensus       197 A~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPvPv  244 (466)
T KOG0466|consen  197 ALEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPVPV  244 (466)
T ss_pred             HHHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCCCc
Confidence            222222222222222233678999999999999998888877766543

>KOG0465|consensus

Probab=99.34  E-value=1.1e-12  Score=114.54  Aligned_cols=130  Identities=28%  Similarity=0.351  Sum_probs=96.1

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcccc-----CC-------------CCCCcceeeccccccCccccccccccccCCCCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNV-----QD-------------GEAGGITQQIGATNVPADAIRENTKHVRGPGGE   84 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~-----~~-------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (259)
                      +..+|+++-+-.+||||+.++++.-.-     .+             ...++++.+.+++...                 
T Consensus        38 k~RNIgi~AhidsgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~rgITiqSAAt~~~-----------------  100 (721)
T KOG0465|consen   38 KIRNIGISAHIDAGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQRGITIQSAATYFT-----------------  100 (721)
T ss_pred             hhcccceEEEEecCCceeeheeeeecceeeeccccccCceeeehHHHHHhcCceeeeceeeee-----------------
Confidence            456899999999999999999863211     00             0011222222222221                 


Q ss_pred             CCCCCCCCCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccc
Q psy6316          85 VGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNT  164 (259)
Q Consensus        85 ~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~  164 (259)
                            +....+++||||||.+|.-....+++..|++|+|+|+..+...+....++++++.++|.|-.+||+|..+....
T Consensus       101 ------w~~~~iNiIDTPGHvDFT~EVeRALrVlDGaVlvl~aV~GVqsQt~tV~rQ~~ry~vP~i~FiNKmDRmGa~~~  174 (721)
T KOG0465|consen  101 ------WRDYRINIIDTPGHVDFTFEVERALRVLDGAVLVLDAVAGVESQTETVWRQMKRYNVPRICFINKMDRMGASPF  174 (721)
T ss_pred             ------eccceeEEecCCCceeEEEEehhhhhhccCeEEEEEcccceehhhHHHHHHHHhcCCCeEEEEehhhhcCCChH
Confidence                  22224999999999999999999999999999999999999999999999999999999999999999976543


Q ss_pred             cchhhHHHHHh
Q psy6316         165 MNRRDVRDIIK  175 (259)
Q Consensus       165 ~~~~~~~~~~~  175 (259)
                      ...+.+...+.
T Consensus       175 ~~l~~i~~kl~  185 (721)
T KOG0465|consen  175 RTLNQIRTKLN  185 (721)
T ss_pred             HHHHHHHhhcC
Confidence            33444444443

>KOG1673|consensus

Probab=99.34  E-value=5.4e-13  Score=97.18  Aligned_cols=156  Identities=13%  Similarity=0.138  Sum_probs=110.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      +.+|.++|++..|||||+-...+....+.+..+.    |.+...      +...+.+.+..           +.+||..|
T Consensus        20 slkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~----GvN~md------kt~~i~~t~Is-----------fSIwdlgG   78 (205)
T KOG1673|consen   20 SLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTL----GVNFMD------KTVSIRGTDIS-----------FSIWDLGG   78 (205)
T ss_pred             EEEEEeecccccCceeeehhhhcchhHHHHHHHh----Ccccee------eEEEecceEEE-----------EEEEecCC
Confidence            4569999999999999999998877653322222    222211      11111111111           99999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHhCCCC--EEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKSKKTP--FVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~~~~p--iivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ++++..+..-++.++-+++|++|.++..+... .+|.++.+..+..  -|+|++|.|..-.-..+-...+.....++++.
T Consensus        79 ~~~~~n~lPiac~dsvaIlFmFDLt~r~TLnSi~~WY~QAr~~NktAiPilvGTKyD~fi~lp~e~Q~~I~~qar~YAk~  158 (205)
T KOG1673|consen   79 QREFINMLPIACKDSVAILFMFDLTRRSTLNSIKEWYRQARGLNKTAIPILVGTKYDLFIDLPPELQETISRQARKYAKV  158 (205)
T ss_pred             cHhhhccCceeecCcEEEEEEEecCchHHHHHHHHHHHHHhccCCccceEEeccchHhhhcCCHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999998766544 5678888876532  25789999976543333344555566667777


Q ss_pred             ccccccccccccCcceeEEe
Q psy6316         181 VQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l  200 (259)
                      .+...+++|+...-++.+.+
T Consensus       159 mnAsL~F~Sts~sINv~KIF  178 (205)
T KOG1673|consen  159 MNASLFFCSTSHSINVQKIF  178 (205)
T ss_pred             hCCcEEEeeccccccHHHHH
Confidence            78888999999998887744

>KOG2486|consensus

Probab=99.33  E-value=6.5e-12  Score=100.47  Aligned_cols=159  Identities=13%  Similarity=0.122  Sum_probs=100.9

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +.+.+++.|.+|+|||||+|-++..+........          ....+    ..+.+.         .-+..+.++|.|
T Consensus       135 ~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~----------K~g~T----q~in~f---------~v~~~~~~vDlP  191 (320)
T KOG2486|consen  135 KRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKS----------KNGKT----QAINHF---------HVGKSWYEVDLP  191 (320)
T ss_pred             CCceeeeecCCcccHHHHHhhhhhhhhhhhhcCC----------CCccc----eeeeee---------eccceEEEEecC
Confidence            3577999999999999999999877653221110          01111    011100         011139999999


Q ss_pred             C----------CcchHHHHHhhc---cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCccc---ccc
Q psy6316         103 G----------HESFSNLRNRGS---SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWN---TMN  166 (259)
Q Consensus       103 G----------~~~~~~~~~~~~---~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~---~~~  166 (259)
                      |          -.++......|+   +.-=.+.+++|++.++...+...+..+.+.++|+.+|+||||....-.   ...
T Consensus       192 G~~~a~y~~~~~~d~~~~t~~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~ge~~VP~t~vfTK~DK~k~~~~~~kKp  271 (320)
T KOG2486|consen  192 GYGRAGYGFELPADWDKFTKSYLLERENLVRVFLLVDASVPIQPTDNPEIAWLGENNVPMTSVFTKCDKQKKVKRTGKKP  271 (320)
T ss_pred             CcccccCCccCcchHhHhHHHHHHhhhhhheeeeeeeccCCCCCCChHHHHHHhhcCCCeEEeeehhhhhhhccccccCc
Confidence            9          223555555555   233456778899999999999999999999999999999999875321   001


Q ss_pred             hhhHHHHHhhhhc---cccccccccccccCcceeEEeecCC
Q psy6316         167 RRDVRDIIKSQES---SVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       167 ~~~~~~~~~~~~~---~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ...+...++.+..   ....+++.+|+.++.|++.++-.+.
T Consensus       272 ~~~i~~~f~~l~~~~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~  312 (320)
T KOG2486|consen  272 GLNIKINFQGLIRGVFLVDLPWIYVSSVTSLGRDLLLLHIA  312 (320)
T ss_pred             cccceeehhhccccceeccCCceeeecccccCceeeeeehh
Confidence            1111111222211   1134567799999999999776553

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=99.31  E-value=2e-11  Score=101.05  Aligned_cols=116  Identities=15%  Similarity=0.114  Sum_probs=68.8

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      ...+|+++|.+|+||||++|+|++........      ....+.........                .....+.+||||
T Consensus        37 ~~~rIllvGktGVGKSSliNsIlG~~v~~vs~------f~s~t~~~~~~~~~----------------~~G~~l~VIDTP   94 (313)
T TIGR00991        37 SSLTILVMGKGGVGKSSTVNSIIGERIATVSA------FQSEGLRPMMVSRT----------------RAGFTLNIIDTP   94 (313)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccC------CCCcceeEEEEEEE----------------ECCeEEEEEECC
Confidence            34569999999999999999999886532110      00000000000000                001139999999


Q ss_pred             CCcchHHH---HHhhc------cCCCeEEEEEeCCC-CCCHHHHHHHHHHHhC-----CCCEEEEEecccccC
Q psy6316         103 GHESFSNL---RNRGS------SLCDIAILVVDIMH-GLEPQTIESINILKSK-----KTPFVVALNKIDRLY  160 (259)
Q Consensus       103 G~~~~~~~---~~~~~------~~ad~~i~v~d~~~-~~~~~~~~~l~~~~~~-----~~piivv~NK~D~~~  160 (259)
                      |..+....   ....+      ...|+++||...+. ..+..+...++.+...     -.++|+++|++|...
T Consensus        95 GL~d~~~~~e~~~~~ik~~l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~  167 (313)
T TIGR00991        95 GLIEGGYINDQAVNIIKRFLLGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSP  167 (313)
T ss_pred             CCCchHHHHHHHHHHHHHHhhcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCC
Confidence            96543211   11111      26999999965542 3555566666666542     257899999999763

>KOG1954|consensus

Probab=99.31  E-value=2.3e-11  Score=100.84  Aligned_cols=138  Identities=20%  Similarity=0.221  Sum_probs=84.1

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeec-------cccccCccccc------cccccccCCCC-----
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQI-------GATNVPADAIR------ENTKHVRGPGG-----   83 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~------~~~~~~~~~~~-----   83 (259)
                      ...|.|.++|..+.||||+++.|+...+..-..+..+.+.       |.+......+.      ..+.+...++.     
T Consensus        56 d~KPmill~GqyStGKTtfi~yLle~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnR  135 (532)
T KOG1954|consen   56 DAKPMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNR  135 (532)
T ss_pred             ccCceEEEEeccccchhHHHHHHHhCCCCccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHHHHHH
Confidence            3468899999999999999999998876422211111000       00000000000      00000000000     


Q ss_pred             --CCCCCCCCCCCCeEEEeCCCCc-----------chHHHHHhhccCCCeEEEEEeCCC-CCCHHHHHHHHHHHhCCCCE
Q psy6316          84 --EVGGPGPLEIPGLLIIDTPGHE-----------SFSNLRNRGSSLCDIAILVVDIMH-GLEPQTIESINILKSKKTPF  149 (259)
Q Consensus        84 --~~~~~~~~~~~~~~liDtpG~~-----------~~~~~~~~~~~~ad~~i~v~d~~~-~~~~~~~~~l~~~~~~~~pi  149 (259)
                        | +.-.+.-...++|+||||.-           +|.....-++..+|.+++++|+.. .++....+.+.+++...-.+
T Consensus       136 f~c-sqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~Edki  214 (532)
T KOG1954|consen  136 FMC-SQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGHEDKI  214 (532)
T ss_pred             HHH-hcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCCccee
Confidence              0 00001112249999999932           355556667789999999999975 46667788999999988899


Q ss_pred             EEEEecccccC
Q psy6316         150 VVALNKIDRLY  160 (259)
Q Consensus       150 ivv~NK~D~~~  160 (259)
                      -||+||+|.+.
T Consensus       215 RVVLNKADqVd  225 (532)
T KOG1954|consen  215 RVVLNKADQVD  225 (532)
T ss_pred             EEEeccccccC
Confidence            99999999984

>KOG0464|consensus

Probab=99.31  E-value=1.1e-12  Score=110.17  Aligned_cols=149  Identities=21%  Similarity=0.218  Sum_probs=98.8

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeec-c-ccccCccccccccccccCCCCCCCCCCCCCCCCeE
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQI-G-ATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLL   97 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (259)
                      +--+.++|+++.+.++||||...+++.-.   ++....+.-. | ..+......+++...+.    ..+...+++...++
T Consensus        33 ~~akirnigiiahidagktttterily~a---g~~~s~g~vddgdtvtdfla~erergitiq----saav~fdwkg~rin  105 (753)
T KOG0464|consen   33 AIAKIRNIGIIAHIDAGKTTTTERILYLA---GAIHSAGDVDDGDTVTDFLAIERERGITIQ----SAAVNFDWKGHRIN  105 (753)
T ss_pred             chhhhhcceeEEEecCCCchhHHHHHHHh---hhhhcccccCCCchHHHHHHHHHhcCceee----eeeeecccccceEe
Confidence            33445689999999999999999985321   0000000000 0 00000001111111110    01122345555699


Q ss_pred             EEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316          98 IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus        98 liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      ++|||||.+|.-...+.++..|+++.|+|++.+...+....|++..+.++|-+..+||+|+.....+...+.+.+.+.
T Consensus       106 lidtpghvdf~leverclrvldgavav~dasagve~qtltvwrqadk~~ip~~~finkmdk~~anfe~avdsi~ekl~  183 (753)
T KOG0464|consen  106 LIDTPGHVDFRLEVERCLRVLDGAVAVFDASAGVEAQTLTVWRQADKFKIPAHCFINKMDKLAANFENAVDSIEEKLG  183 (753)
T ss_pred             eecCCCcceEEEEHHHHHHHhcCeEEEEeccCCcccceeeeehhccccCCchhhhhhhhhhhhhhhhhHHHHHHHHhC
Confidence            999999999999999999999999999999999999999999999999999999999999986543333444444443

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=99.31  E-value=1.9e-11  Score=97.59  Aligned_cols=114  Identities=16%  Similarity=0.195  Sum_probs=67.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+||||++|.|++..........-+     .+...........                ...+.++||||..
T Consensus         2 ~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~-----~t~~~~~~~~~~~----------------g~~v~VIDTPGl~   60 (212)
T PF04548_consen    2 RILLLGKTGSGKSSLGNSILGKEVFKSGSSAKS-----VTQECQKYSGEVD----------------GRQVTVIDTPGLF   60 (212)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS-------SS-EEEEEEET----------------TEEEEEEE--SSE
T ss_pred             EEEEECCCCCCHHHHHHHHhcccceeeccccCC-----cccccceeeeeec----------------ceEEEEEeCCCCC
Confidence            599999999999999999998876332211111     1111111111111                1139999999932


Q ss_pred             c-------hHHHHH----hhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhC-C----CCEEEEEecccccCc
Q psy6316         106 S-------FSNLRN----RGSSLCDIAILVVDIMHGLEPQTIESINILKSK-K----TPFVVALNKIDRLYN  161 (259)
Q Consensus       106 ~-------~~~~~~----~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~-~----~piivv~NK~D~~~~  161 (259)
                      +       ......    ....+.|++|+|+... .++..+...+..+... +    ..++||++.+|....
T Consensus        61 d~~~~~~~~~~~i~~~l~~~~~g~ha~llVi~~~-r~t~~~~~~l~~l~~~FG~~~~k~~ivvfT~~d~~~~  131 (212)
T PF04548_consen   61 DSDGSDEEIIREIKRCLSLCSPGPHAFLLVIPLG-RFTEEDREVLELLQEIFGEEIWKHTIVVFTHADELED  131 (212)
T ss_dssp             ETTEEHHHHHHHHHHHHHHTTT-ESEEEEEEETT-B-SHHHHHHHHHHHHHHCGGGGGGEEEEEEEGGGGTT
T ss_pred             CCcccHHHHHHHHHHHHHhccCCCeEEEEEEecC-cchHHHHHHHHHHHHHccHHHHhHhhHHhhhcccccc
Confidence            2       111111    1245799999999987 7787787777766542 2    458999999998753

The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=99.31  E-value=2.5e-12  Score=104.09  Aligned_cols=106  Identities=20%  Similarity=0.271  Sum_probs=54.4

Q ss_pred             CeEEEeCCCCcchHHHHHhhc--------cCCCeEEEEEeCCCCCCHHHHH-----HHHHHHhCCCCEEEEEecccccCc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGS--------SLCDIAILVVDIMHGLEPQTIE-----SINILKSKKTPFVVALNKIDRLYN  161 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~--------~~ad~~i~v~d~~~~~~~~~~~-----~l~~~~~~~~piivv~NK~D~~~~  161 (259)
                      .+.++|||||.++...+...-        ...-++++++|+....++...-     .+..+.+.+.|.|.|+||+|+...
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~~lP~vnvlsK~Dl~~~  171 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRLELPHVNVLSKIDLLSK  171 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHHTSEEEEEE--GGGS-H
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhhCCCCEEEeeeccCcccc
Confidence            399999999887554444322        3456899999987554433321     123344578999999999999852


Q ss_pred             ccccc-----------------hhhHHHHHhhhhcccc-c-cccccccccCcceeEEe
Q psy6316         162 WNTMN-----------------RRDVRDIIKSQESSVQ-T-HKTVESARKGQEICIKI  200 (259)
Q Consensus       162 ~~~~~-----------------~~~~~~~~~~~~~~~~-~-~~i~~Sa~~g~gv~~~l  200 (259)
                      .....                 .......+.+...... . +++++|+.+++|+..++
T Consensus       172 ~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~  229 (238)
T PF03029_consen  172 YLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELL  229 (238)
T ss_dssp             HHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHH
T ss_pred             hhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHH
Confidence            10000                 1122222333333332 3 67789999999987644

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>KOG0467|consensus

Probab=99.30  E-value=9.5e-12  Score=111.25  Aligned_cols=125  Identities=28%  Similarity=0.361  Sum_probs=87.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeecccccc-----CccccccccccccCCCCCCCCCCCCCCCCeEE
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV-----PADAIRENTKHVRGPGGEVGGPGPLEIPGLLI   98 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   98 (259)
                      ..+|+++.+.++|||||+..|+..+-      .+....+..-.     +-+.++........+-   .-+..+   .+++
T Consensus         9 irn~~~vahvdhgktsladsl~asng------vis~rlagkirfld~redeq~rgitmkss~is---~~~~~~---~~nl   76 (887)
T KOG0467|consen    9 IRNICLVAHVDHGKTSLADSLVASNG------VISSRLAGKIRFLDTREDEQTRGITMKSSAIS---LLHKDY---LINL   76 (887)
T ss_pred             eeEEEEEEEecCCccchHHHHHhhcc------Eechhhccceeeccccchhhhhceeeeccccc---cccCce---EEEE
Confidence            45899999999999999999975542      11111111111     1111111110000000   000122   2999


Q ss_pred             EeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316          99 IDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        99 iDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      ||+|||-+|.....++.+-+|++++++|+.++...++...+++.-..+...++|+||+|.+.
T Consensus        77 idspghvdf~sevssas~l~d~alvlvdvvegv~~qt~~vlrq~~~~~~~~~lvinkidrl~  138 (887)
T KOG0467|consen   77 IDSPGHVDFSSEVSSASRLSDGALVLVDVVEGVCSQTYAVLRQAWIEGLKPILVINKIDRLI  138 (887)
T ss_pred             ecCCCccchhhhhhhhhhhcCCcEEEEeeccccchhHHHHHHHHHHccCceEEEEehhhhHH
Confidence            99999999999999999999999999999999999999999999888999999999999553

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=99.25  E-value=3e-11  Score=100.05  Aligned_cols=118  Identities=21%  Similarity=0.349  Sum_probs=66.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCc------ceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEE
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGG------ITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLI   98 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   98 (259)
                      .+|.|+|.+|+|||||+|.|++..........      ............. ..+....+                .++|
T Consensus         5 fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~-l~e~~~~l----------------~Lti   67 (281)
T PF00735_consen    5 FNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVE-LEENGVKL----------------NLTI   67 (281)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEE-EEETCEEE----------------EEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEE-eccCCcce----------------EEEE
Confidence            45999999999999999999987654332100      0000000000000 00111111                2999


Q ss_pred             EeCCCCcch------------------HHHHHh---------hccCCCeEEEEEeCCC-CCCHHHHHHHHHHHhCCCCEE
Q psy6316          99 IDTPGHESF------------------SNLRNR---------GSSLCDIAILVVDIMH-GLEPQTIESINILKSKKTPFV  150 (259)
Q Consensus        99 iDtpG~~~~------------------~~~~~~---------~~~~ad~~i~v~d~~~-~~~~~~~~~l~~~~~~~~pii  150 (259)
                      +||||..+.                  ...+..         .-...|++||+++++. ++.+.+.+.++.+... +++|
T Consensus        68 iDTpGfGd~i~n~~~~~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~L~~~Di~~mk~Ls~~-vNvI  146 (281)
T PF00735_consen   68 IDTPGFGDNIDNSDCWEPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHGLKPLDIEFMKRLSKR-VNVI  146 (281)
T ss_dssp             EEEC-CSSSSTHCHHHHHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSSS-HHHHHHHHHHTTT-SEEE
T ss_pred             EeCCCccccccchhhhHHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCccchHHHHHHHHHhccc-ccEE
Confidence            999993321                  100000         0124899999999874 6778888888888766 7789


Q ss_pred             EEEecccccC
Q psy6316         151 VALNKIDRLY  160 (259)
Q Consensus       151 vv~NK~D~~~  160 (259)
                      .|+.|+|...
T Consensus       147 PvIaKaD~lt  156 (281)
T PF00735_consen  147 PVIAKADTLT  156 (281)
T ss_dssp             EEESTGGGS-
T ss_pred             eEEecccccC
Confidence            9999999984

Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.25  E-value=7.5e-11  Score=100.11  Aligned_cols=95  Identities=16%  Similarity=0.259  Sum_probs=52.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCC--CcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEA--GGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      +|+++|.||+|||||+|+|++........  .++....|....+..+.. ......       .|......++.++|+||
T Consensus         4 ~vgIVG~PNvGKSTLfnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~-~l~~~~-------~p~~~~~a~i~lvD~pG   75 (364)
T PRK09601          4 KCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLD-KLAEIV-------KPKKIVPATIEFVDIAG   75 (364)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCeecccccccccceEEEEEeccccch-hhHHhc-------CCccccCceEEEEECCC
Confidence            49999999999999999998876432211  112222222221111000 000000       00011111399999999


Q ss_pred             Ccc-------hHHHHHhhccCCCeEEEEEeCC
Q psy6316         104 HES-------FSNLRNRGSSLCDIAILVVDIM  128 (259)
Q Consensus       104 ~~~-------~~~~~~~~~~~ad~~i~v~d~~  128 (259)
                      ...       ........++.+|++++|+|+.
T Consensus        76 L~~~a~~g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         76 LVKGASKGEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             CCCCCChHHHHHHHHHHHHHhCCEEEEEEeCC
Confidence            321       2334445678999999999984

>PTZ00258 GTP-binding protein; Provisional

Probab=99.24  E-value=1.2e-10  Score=100.03  Aligned_cols=96  Identities=19%  Similarity=0.158  Sum_probs=53.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCC--cceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAG--GITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      .+|+++|.||+|||||+|+|.+........+  ++....+....+-.+.. .....  .     .+......++.++|||
T Consensus        22 ~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~-~l~~~--~-----~~~~~~~aqi~lvDtp   93 (390)
T PTZ00258         22 LKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFD-WLCKH--F-----KPKSIVPAQLDITDIA   93 (390)
T ss_pred             cEEEEECCCCCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhh-HHHHH--c-----CCcccCCCCeEEEECC
Confidence            4499999999999999999987765322211  11112222111100000 00000  0     0001111139999999


Q ss_pred             CCc-------chHHHHHhhccCCCeEEEEEeCC
Q psy6316         103 GHE-------SFSNLRNRGSSLCDIAILVVDIM  128 (259)
Q Consensus       103 G~~-------~~~~~~~~~~~~ad~~i~v~d~~  128 (259)
                      |..       .........++.+|++++|+|+.
T Consensus        94 GLv~ga~~g~gLg~~fL~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258         94 GLVKGASEGEGLGNAFLSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             CcCcCCcchhHHHHHHHHHHHHCCEEEEEEeCC
Confidence            932       13334455678999999999984

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=99.23  E-value=8.1e-12  Score=99.45  Aligned_cols=99  Identities=13%  Similarity=0.126  Sum_probs=59.0

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      ++.+++|.|.....   ..+....+..+.|+|+.++....    .......+.|.++++||+|+.... ........+.+
T Consensus       104 d~IiIEt~G~l~~~---~~~~~~~~~~i~Vvd~~~~d~~~----~~~~~~~~~a~iiv~NK~Dl~~~~-~~~~~~~~~~l  175 (207)
T TIGR00073       104 DLLFIENVGNLVCP---ADFDLGEHMRVVLLSVTEGDDKP----LKYPGMFKEADLIVINKADLAEAV-GFDVEKMKADA  175 (207)
T ss_pred             CEEEEecCCCcCCC---cccccccCeEEEEEecCcccchh----hhhHhHHhhCCEEEEEHHHccccc-hhhHHHHHHHH
Confidence            59999999921111   11122456667889987643321    122233457889999999997421 11122333334


Q ss_pred             hhhhccccccccccccccCcceeEEeecC
Q psy6316         175 KSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       175 ~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ++..  ...+++++||++|.|++.+++.+
T Consensus       176 ~~~~--~~~~i~~~Sa~~g~gv~~l~~~i  202 (207)
T TIGR00073       176 KKIN--PEAEIILMSLKTGEGLDEWLEFL  202 (207)
T ss_pred             HHhC--CCCCEEEEECCCCCCHHHHHHHH
Confidence            3332  24678899999999998866554

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=99.22  E-value=7.1e-12  Score=102.98  Aligned_cols=186  Identities=16%  Similarity=0.121  Sum_probs=90.0

Q ss_pred             hhhhhhhcCCCCcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCC
Q psy6316           7 KRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVG   86 (259)
Q Consensus         7 ~~~~~~~~~~~~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (259)
                      ++....+.+.+.........|.|+|.+|+|||||++.+++.-........+..+.+... .....+........++....
T Consensus        87 ~n~~~a~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~~~~~VI~gD~~t~~-Da~rI~~~g~pvvqi~tG~~  165 (290)
T PRK10463         87 KNNRLAERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKDSVPCAVIEGDQQTVN-DAARIRATGTPAIQVNTGKG  165 (290)
T ss_pred             HhHHHHHHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhccCCCEEEECCCcCcHH-HHHHHHhcCCcEEEecCCCC
Confidence            33333334444344445667999999999999999998765322211111222222111 11111111000000111001


Q ss_pred             CC------------CCCCCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEe
Q psy6316          87 GP------------GPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALN  154 (259)
Q Consensus        87 ~~------------~~~~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~N  154 (259)
                      |+            ......++.|+++-|.......  .-+ ..+.-+.++++..+...    .++.......+-++|+|
T Consensus       166 Chl~a~mv~~Al~~L~~~~~d~liIEnvGnLvcPa~--fdl-ge~~~v~vlsV~eg~dk----plKyp~~f~~ADIVVLN  238 (290)
T PRK10463        166 CHLDAQMIADAAPRLPLDDNGILFIENVGNLVCPAS--FDL-GEKHKVAVLSVTEGEDK----PLKYPHMFAAASLMLLN  238 (290)
T ss_pred             CcCcHHHHHHHHHHHhhcCCcEEEEECCCCccCCCc--cch-hhceeEEEEECcccccc----chhccchhhcCcEEEEE
Confidence            11            0111123777777773110000  001 12334567777655321    11222334567899999


Q ss_pred             cccccCcccccchhhHHHHHhhhhccccccccccccccCcceeEEeecC
Q psy6316         155 KIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       155 K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      |+|+... .....+...+.++....  ..+++++||++|+|++.++.++
T Consensus       239 KiDLl~~-~~~dle~~~~~lr~lnp--~a~I~~vSA~tGeGld~L~~~L  284 (290)
T PRK10463        239 KVDLLPY-LNFDVEKCIACAREVNP--EIEIILISATSGEGMDQWLNWL  284 (290)
T ss_pred             hHHcCcc-cHHHHHHHHHHHHhhCC--CCcEEEEECCCCCCHHHHHHHH
Confidence            9999731 11122333333433332  4678899999999998866544

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.21  E-value=3.3e-11  Score=101.23  Aligned_cols=107  Identities=16%  Similarity=0.067  Sum_probs=62.6

Q ss_pred             CCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccc-hhhHH
Q psy6316          93 IPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMN-RRDVR  171 (259)
Q Consensus        93 ~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~-~~~~~  171 (259)
                      ..+++|+||||....   ....+..+|.++++.....+   .+......- -..+|.++++||+|+........ .....
T Consensus       126 g~D~viidT~G~~~~---e~~i~~~aD~i~vv~~~~~~---~el~~~~~~-l~~~~~ivv~NK~Dl~~~~~~~~~~~~~~  198 (300)
T TIGR00750       126 GYDVIIVETVGVGQS---EVDIANMADTFVVVTIPGTG---DDLQGIKAG-LMEIADIYVVNKADGEGATNVTIARLMLA  198 (300)
T ss_pred             CCCEEEEeCCCCchh---hhHHHHhhceEEEEecCCcc---HHHHHHHHH-HhhhccEEEEEcccccchhHHHHHHHHHH
Confidence            345999999995422   22356778999988664432   232222211 13678899999999974321000 00000


Q ss_pred             HHHhhhhc---cccccccccccccCcceeEEeecCCCC
Q psy6316         172 DIIKSQES---SVQTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       172 ~~~~~~~~---~~~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      ..+..+..   .+..+++++||++|.|+++++..+...
T Consensus       199 ~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~  236 (300)
T TIGR00750       199 LALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEH  236 (300)
T ss_pred             HHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHH
Confidence            11122211   233457899999999999987777554

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.

>cd01900 YchF YchF subfamily

Probab=99.21  E-value=8.4e-11  Score=96.69  Aligned_cols=94  Identities=16%  Similarity=0.270  Sum_probs=51.4

Q ss_pred             EEEEeeCCCChhHHHhHHhccccCCCCCC--cceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTNVQDGEAG--GITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      |+++|.||+|||||+|+|++........+  ++....+....+..+.. ......  +     |......++.++|+||.
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~-~l~~~~--~-----~~k~~~~~i~lvD~pGl   72 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGIVPVPDERLD-KLAEIV--K-----PKKIVPATIEFVDIAGL   72 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCccccccccchhceeeeEEeccchhh-hHHHHh--C-----CceeeeeEEEEEECCCc
Confidence            58999999999999999998876322111  11222222211110000 000000  0     00000112999999993


Q ss_pred             c-------chHHHHHhhccCCCeEEEEEeCC
Q psy6316         105 E-------SFSNLRNRGSSLCDIAILVVDIM  128 (259)
Q Consensus       105 ~-------~~~~~~~~~~~~ad~~i~v~d~~  128 (259)
                      .       .........++.+|++++|+|+.
T Consensus        73 ~~~a~~~~glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          73 VKGASKGEGLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             CCCCchhhHHHHHHHHHHHhCCEEEEEEeCc
Confidence            2       13334455678999999999974

YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=99.21  E-value=1e-10  Score=97.95  Aligned_cols=98  Identities=19%  Similarity=0.271  Sum_probs=63.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccC--CCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQ--DGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      .+++++|.||+|||||.|++......  +....+|.+..|....+..+-........       |+.....-.+.|+|.+
T Consensus         3 l~~GIVGlPNVGKSTlFnAlT~~~a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~-------c~~k~~~~~ve~vDIA   75 (372)
T COG0012           3 LKIGIVGLPNVGKSTLFNALTKAGAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVK-------CPPKIRPAPVEFVDIA   75 (372)
T ss_pred             ceeEEecCCCCcHHHHHHHHHcCCccccCCCcccccCCeeEEecCchHHHHHHHhcC-------CCCcEEeeeeEEEEec
Confidence            35999999999999999999877753  22334555555555444322111110011       1111222239999999


Q ss_pred             C-------CcchHHHHHhhccCCCeEEEEEeCCC
Q psy6316         103 G-------HESFSNLRNRGSSLCDIAILVVDIMH  129 (259)
Q Consensus       103 G-------~~~~~~~~~~~~~~ad~~i~v~d~~~  129 (259)
                      |       -+..+......++.+|+++.|+|+..
T Consensus        76 GLV~GAs~GeGLGNkFL~~IRevdaI~hVVr~f~  109 (372)
T COG0012          76 GLVKGASKGEGLGNKFLDNIREVDAIIHVVRCFG  109 (372)
T ss_pred             ccCCCcccCCCcchHHHHhhhhcCeEEEEEEecC
Confidence            9       33466777788999999999999863

>KOG1143|consensus

Probab=99.20  E-value=2.5e-11  Score=100.81  Aligned_cols=138  Identities=24%  Similarity=0.304  Sum_probs=88.6

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCccee--------eccccccCc-c--ccccccccccCCCCCCC-C
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQ--------QIGATNVPA-D--AIRENTKHVRGPGGEVG-G   87 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~--------~~~~~~~~~-~--~~~~~~~~~~~~~~~~~-~   87 (259)
                      .+.|   ++++|..++|||||+.-|.......+..++-..        ..|.+.... +  ........+.+-+.-.+ .
T Consensus       166 ievR---vAVlGg~D~GKSTLlGVLTQgeLDnG~GrARln~FRh~HEiqsGrTSsis~evlGFd~~g~vVNY~~~~taEE  242 (591)
T KOG1143|consen  166 IEVR---VAVLGGCDVGKSTLLGVLTQGELDNGNGRARLNIFRHPHEIQSGRTSSISNEVLGFDNRGKVVNYAQNMTAEE  242 (591)
T ss_pred             eEEE---EEEecCcccCcceeeeeeecccccCCCCeeeeehhcchhhhccCcccccchhcccccccccccchhhcccHHH
Confidence            3455   999999999999999999877665554422110        001000000 0  00000000000000000 0


Q ss_pred             CCCCCCCCeEEEeCCCCcchHHHHHhhcc--CCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316          88 PGPLEIPGLLIIDTPGHESFSNLRNRGSS--LCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        88 ~~~~~~~~~~liDtpG~~~~~~~~~~~~~--~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      .++-...-++|+|.+||..|.+.....+.  -.|.+++|+.+..++.....+++..+...++|+.++++|+|+..
T Consensus       243 i~e~SSKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~tTrEHLgl~~AL~iPfFvlvtK~Dl~~  317 (591)
T KOG1143|consen  243 IVEKSSKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWTTREHLGLIAALNIPFFVLVTKMDLVD  317 (591)
T ss_pred             HHhhhcceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCccccHHHHHHHHHhCCCeEEEEEeecccc
Confidence            00000112999999999999887776664  47999999999999999999999999999999999999999984

>KOG0090|consensus

Probab=99.19  E-value=1.5e-10  Score=89.27  Aligned_cols=111  Identities=23%  Similarity=0.318  Sum_probs=71.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      +.|.++|..++|||+|.-.|..+....    +.+      ...+.     .......           ...++++|.|||
T Consensus        39 ~~Vll~Gl~dSGKT~LF~qL~~gs~~~----Tvt------Siepn-----~a~~r~g-----------s~~~~LVD~PGH   92 (238)
T KOG0090|consen   39 NAVLLVGLSDSGKTSLFTQLITGSHRG----TVT------SIEPN-----EATYRLG-----------SENVTLVDLPGH   92 (238)
T ss_pred             CcEEEEecCCCCceeeeeehhcCCccC----eee------eeccc-----eeeEeec-----------CcceEEEeCCCc
Confidence            349999999999999999997663321    111      11110     0001101           112799999999


Q ss_pred             cchHHHHHhhcc---CCCeEEEEEeCCCCCCH--HHHHHH-HHHH-----hCCCCEEEEEecccccCc
Q psy6316         105 ESFSNLRNRGSS---LCDIAILVVDIMHGLEP--QTIESI-NILK-----SKKTPFVVALNKIDRLYN  161 (259)
Q Consensus       105 ~~~~~~~~~~~~---~ad~~i~v~d~~~~~~~--~~~~~l-~~~~-----~~~~piivv~NK~D~~~~  161 (259)
                      .+.+.....++.   .+-++|||+|+......  .-.+++ ..+.     ....|++++.||.|+...
T Consensus        93 ~rlR~kl~e~~~~~~~akaiVFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tA  160 (238)
T KOG0090|consen   93 SRLRRKLLEYLKHNYSAKAIVFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTA  160 (238)
T ss_pred             HHHHHHHHHHccccccceeEEEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhc
Confidence            999888888876   79999999997642111  112222 2222     235789999999999854

>TIGR00101 ureG urease accessory protein UreG

Probab=99.17  E-value=6.9e-11  Score=93.26  Aligned_cols=101  Identities=15%  Similarity=0.136  Sum_probs=61.4

Q ss_pred             CCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHH
Q psy6316          94 PGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDI  173 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~  173 (259)
                      .++++++|.|..-.... .  ...+|.+|.|+|++++...... .   .......-++++||+|+... .....+...+.
T Consensus        92 ~D~iiIEt~G~~l~~~~-~--~~l~~~~i~vvD~~~~~~~~~~-~---~~qi~~ad~~~~~k~d~~~~-~~~~~~~~~~~  163 (199)
T TIGR00101        92 LEMVFIESGGDNLSATF-S--PELADLTIFVIDVAAGDKIPRK-G---GPGITRSDLLVINKIDLAPM-VGADLGVMERD  163 (199)
T ss_pred             CCEEEEECCCCCccccc-c--hhhhCcEEEEEEcchhhhhhhh-h---HhHhhhccEEEEEhhhcccc-ccccHHHHHHH
Confidence            45899999993211111 1  1236889999999875442211 1   11122334899999999731 11234444555


Q ss_pred             HhhhhccccccccccccccCcceeEEeecCC
Q psy6316         174 IKSQESSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       174 ~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ++.+.  ...+++++||++|+|+++++..+.
T Consensus       164 ~~~~~--~~~~i~~~Sa~~g~gi~el~~~i~  192 (199)
T TIGR00101       164 AKKMR--GEKPFIFTNLKTKEGLDTVIDWIE  192 (199)
T ss_pred             HHHhC--CCCCEEEEECCCCCCHHHHHHHHH
Confidence            55553  257888999999999988665543

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.

>KOG4423|consensus

Probab=99.13  E-value=3.7e-12  Score=95.70  Aligned_cols=150  Identities=21%  Similarity=0.201  Sum_probs=103.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .++.|+|.-++|||+++.+.+...+...+..+++.+....-...+..                    ...++.+||..||
T Consensus        26 ~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~--------------------t~vRlqLwdIagQ   85 (229)
T KOG4423|consen   26 FKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDK--------------------TIVRLQLWDIAGQ   85 (229)
T ss_pred             hhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChH--------------------HHHHHHHhcchhh
Confidence            45999999999999999999988887766666766554332222111                    0012889999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHH-HHh-------CCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI-LKS-------KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~-~~~-------~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      ++|+.+..-+++.+++..+|+|++++.++....-+.+ +..       .-.|+++..||||..+..    ..+.-..+..
T Consensus        86 erfg~mtrVyykea~~~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a----~~~~~~~~d~  161 (229)
T KOG4423|consen   86 ERFGNMTRVYYKEAHGAFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSA----KNEATRQFDN  161 (229)
T ss_pred             hhhcceEEEEecCCcceEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHh----hhhhHHHHHH
Confidence            9999999999999999999999998776654333222 211       236789999999986431    1221223334


Q ss_pred             hhccccc-cccccccccCcceeE
Q psy6316         177 QESSVQT-HKTVESARKGQEICI  198 (259)
Q Consensus       177 ~~~~~~~-~~i~~Sa~~g~gv~~  198 (259)
                      +.+..++ ..+.+|++.+.++++
T Consensus       162 f~kengf~gwtets~Kenkni~E  184 (229)
T KOG4423|consen  162 FKKENGFEGWTETSAKENKNIPE  184 (229)
T ss_pred             HHhccCccceeeeccccccChhH
Confidence            4444343 466899998888876

>KOG0410|consensus

Probab=99.12  E-value=9.5e-11  Score=95.75  Aligned_cols=139  Identities=21%  Similarity=0.266  Sum_probs=85.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      .+.|+++|.+|||||||+++|.+.....+.       .-+.+.++  +.... ..        +++.    .+.+.||-|
T Consensus       178 ~pviavVGYTNaGKsTLikaLT~Aal~p~d-------rLFATLDp--T~h~a-~L--------psg~----~vlltDTvG  235 (410)
T KOG0410|consen  178 SPVIAVVGYTNAGKSTLIKALTKAALYPND-------RLFATLDP--TLHSA-HL--------PSGN----FVLLTDTVG  235 (410)
T ss_pred             CceEEEEeecCccHHHHHHHHHhhhcCccc-------hhheeccc--hhhhc-cC--------CCCc----EEEEeechh
Confidence            578999999999999999999865543221       11111111  11100 00        0001    289999999


Q ss_pred             Ccc---------hHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHhCCCC-------EEEEEecccccCcccccc
Q psy6316         104 HES---------FSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKSKKTP-------FVVALNKIDRLYNWNTMN  166 (259)
Q Consensus       104 ~~~---------~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~~~~p-------iivv~NK~D~~~~~~~~~  166 (259)
                      +..         |.. .......+|+++.|.|.+.+.-....+ .+.-++..++|       ++=|-||.|....+..  
T Consensus       236 FisdLP~~LvaAF~A-TLeeVaeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~~e--  312 (410)
T KOG0410|consen  236 FISDLPIQLVAAFQA-TLEEVAEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDEVE--  312 (410)
T ss_pred             hhhhCcHHHHHHHHH-HHHHHhhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccccCc--
Confidence            432         211 122346799999999999876655544 56667776664       4557788887532211  


Q ss_pred             hhhHHHHHhhhhccccccccccccccCcceeEEe
Q psy6316         167 RRDVRDIIKSQESSVQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l  200 (259)
                                   .-..-.+++||++|.|+++++
T Consensus       313 -------------~E~n~~v~isaltgdgl~el~  333 (410)
T KOG0410|consen  313 -------------EEKNLDVGISALTGDGLEELL  333 (410)
T ss_pred             -------------cccCCccccccccCccHHHHH
Confidence                         111236789999999997644

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=99.12  E-value=1e-11  Score=99.41  Aligned_cols=101  Identities=24%  Similarity=0.191  Sum_probs=60.1

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH--HHHHHHHHhCCCCEEEEEecccccCcccccchhhHHH
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT--IESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~--~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      +++|+.|.|....   -......+|.+++|+-+..+..-|.  .-++.      +.-++|+||+|.....  ....++..
T Consensus       123 D~IiiETVGvGQs---E~~I~~~aD~~v~v~~Pg~GD~iQ~~KaGimE------iaDi~vVNKaD~~gA~--~~~~~l~~  191 (266)
T PF03308_consen  123 DVIIIETVGVGQS---EVDIADMADTVVLVLVPGLGDEIQAIKAGIME------IADIFVVNKADRPGAD--RTVRDLRS  191 (266)
T ss_dssp             SEEEEEEESSSTH---HHHHHTTSSEEEEEEESSTCCCCCTB-TTHHH------H-SEEEEE--SHHHHH--HHHHHHHH
T ss_pred             CEEEEeCCCCCcc---HHHHHHhcCeEEEEecCCCccHHHHHhhhhhh------hccEEEEeCCChHHHH--HHHHHHHH
Confidence            3999999994432   2234578999999999876544332  11222      2458999999976421  12333333


Q ss_pred             HHhhh---hccccccccccccccCcceeEEeecCCCC
Q psy6316         173 IIKSQ---ESSVQTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       173 ~~~~~---~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      .+...   ...|..+++.+||.+|.|++++.+.+...
T Consensus       192 ~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~  228 (266)
T PF03308_consen  192 MLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEH  228 (266)
T ss_dssp             HHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHH
T ss_pred             HHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            33322   23345677899999999999976655443

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.

>KOG3886|consensus

Probab=99.11  E-value=1.9e-10  Score=89.78  Aligned_cols=147  Identities=12%  Similarity=0.118  Sum_probs=81.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+||||+=..+...... -.....+.++..........    +.+                -+.+||+.|+
T Consensus         5 kKvlLMGrsGsGKsSmrsiiF~ny~a-~D~~rlg~tidveHsh~Rfl----Gnl----------------~LnlwDcGgq   63 (295)
T KOG3886|consen    5 KKVLLMGRSGSGKSSMRSIIFANYIA-RDTRRLGATIDVEHSHVRFL----GNL----------------VLNLWDCGGQ   63 (295)
T ss_pred             ceEEEeccCCCCccccchhhhhhhhh-hhhhccCCcceeeehhhhhh----hhh----------------eeehhccCCc
Confidence            67999999999999975555422111 11111222221111111000    111                1889999999


Q ss_pred             cchHHHHHh-----hccCCCeEEEEEeCCCCCCHHHHHHHHH----HHhC--CCCEEEEEecccccCccc-ccchhhHHH
Q psy6316         105 ESFSNLRNR-----GSSLCDIAILVVDIMHGLEPQTIESINI----LKSK--KTPFVVALNKIDRLYNWN-TMNRRDVRD  172 (259)
Q Consensus       105 ~~~~~~~~~-----~~~~ad~~i~v~d~~~~~~~~~~~~l~~----~~~~--~~piivv~NK~D~~~~~~-~~~~~~~~~  172 (259)
                      +.+-+....     .++..+++++|+|++......+....+.    +...  ..++...++|+|+..... +...+....
T Consensus        64 e~fmen~~~~q~d~iF~nV~vli~vFDves~e~~~D~~~yqk~Le~ll~~SP~AkiF~l~hKmDLv~~d~r~~if~~r~~  143 (295)
T KOG3886|consen   64 EEFMENYLSSQEDNIFRNVQVLIYVFDVESREMEKDFHYYQKCLEALLQNSPEAKIFCLLHKMDLVQEDARELIFQRRKE  143 (295)
T ss_pred             HHHHHHHHhhcchhhheeheeeeeeeeccchhhhhhHHHHHHHHHHHHhcCCcceEEEEEeechhcccchHHHHHHHHHH
Confidence            876655443     4678999999999987655555544333    2222  355778899999984321 111111222


Q ss_pred             HHhhhhcccccccccccccc
Q psy6316         173 IIKSQESSVQTHKTVESARK  192 (259)
Q Consensus       173 ~~~~~~~~~~~~~i~~Sa~~  192 (259)
                      .+..+...+++.++++|...
T Consensus       144 ~l~~~s~~~~~~~f~TsiwD  163 (295)
T KOG3886|consen  144 DLRRLSRPLECKCFPTSIWD  163 (295)
T ss_pred             HHHHhcccccccccccchhh
Confidence            23333344455566666553

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=99.11  E-value=6.6e-10  Score=92.65  Aligned_cols=146  Identities=18%  Similarity=0.257  Sum_probs=82.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCC-cceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAG-GITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      .+|.++|++|.|||||+|.|++.....+... .........+.........   +.   .      +-..-.++++||||
T Consensus        24 f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~---l~---e------~~~~~~l~vIDtpG   91 (373)
T COG5019          24 FTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAE---LE---E------DGFHLNLTVIDTPG   91 (373)
T ss_pred             eEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeee---ee---c------CCeEEEEEEeccCC
Confidence            5599999999999999999998854332100 0000000000000000000   00   0      00001299999999


Q ss_pred             CcchH---HH-----------HHhhc--------------cCCCeEEEEEeCC-CCCCHHHHHHHHHHHhCCCCEEEEEe
Q psy6316         104 HESFS---NL-----------RNRGS--------------SLCDIAILVVDIM-HGLEPQTIESINILKSKKTPFVVALN  154 (259)
Q Consensus       104 ~~~~~---~~-----------~~~~~--------------~~ad~~i~v~d~~-~~~~~~~~~~l~~~~~~~~piivv~N  154 (259)
                      ..++.   ..           ...++              ..+|++||++.++ ++..+.+.+.++.+... +.+|-|+.
T Consensus        92 fGD~idNs~~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh~l~~~DIe~Mk~ls~~-vNlIPVI~  170 (373)
T COG5019          92 FGDFIDNSKCWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGHGLKPLDIEAMKRLSKR-VNLIPVIA  170 (373)
T ss_pred             ccccccccccHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCCCCCHHHHHHHHHHhcc-cCeeeeee
Confidence            43211   01           11111              2489999999987 46888888888877765 66788899


Q ss_pred             cccccCcccccchhhHHHHHhhhhcccccccc
Q psy6316         155 KIDRLYNWNTMNRRDVRDIIKSQESSVQTHKT  186 (259)
Q Consensus       155 K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  186 (259)
                      |+|....   .+....++.+.+.....++++|
T Consensus       171 KaD~lT~---~El~~~K~~I~~~i~~~nI~vf  199 (373)
T COG5019         171 KADTLTD---DELAEFKERIREDLEQYNIPVF  199 (373)
T ss_pred             ccccCCH---HHHHHHHHHHHHHHHHhCCcee
Confidence            9999843   2344444455544444444444

>KOG0469|consensus

Probab=99.10  E-value=1.7e-10  Score=99.17  Aligned_cols=150  Identities=24%  Similarity=0.337  Sum_probs=101.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcccc----------------CCCCCCcceeeccccccCccccccccccccCCCCCCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNV----------------QDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGP   88 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (259)
                      +++.++.+.++|||||...|....-                .....+.++.........++-..+....+...+..    
T Consensus        20 RNmSVIAHVDHGKSTLTDsLV~kAgIis~akaGe~Rf~DtRkDEQeR~iTIKStAISl~~e~~~~dl~~~k~~~d~----   95 (842)
T KOG0469|consen   20 RNMSVIAHVDHGKSTLTDSLVQKAGIISAAKAGETRFTDTRKDEQERGITIKSTAISLFFEMSDDDLKFIKQEGDG----   95 (842)
T ss_pred             ccceEEEEecCCcchhhHHHHHhhceeeecccCCccccccccchhhcceEeeeeeeeehhhhhHhHHHHhcCCCCC----
Confidence            3688999999999999999964321                01111223322222222222211111111111100    


Q ss_pred             CCCCCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchh
Q psy6316          89 GPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRR  168 (259)
Q Consensus        89 ~~~~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~  168 (259)
                      ..++   +++||.|||.+|.+....+++..|++++|+|+-++.--++...+.+....++.-++++||+|..--+-+...+
T Consensus        96 ~~FL---iNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTETVLrQA~~ERIkPvlv~NK~DRAlLELq~~~E  172 (842)
T KOG0469|consen   96 NGFL---INLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIAERIKPVLVMNKMDRALLELQLSQE  172 (842)
T ss_pred             ccee---EEeccCCCcccchhhhhheeEeccCcEEEEEccCceEechHHHHHHHHHhhccceEEeehhhHHHHhhcCCHH
Confidence            1233   8999999999999999999999999999999999887788888888887777778889999987656666677


Q ss_pred             hHHHHHhhhhccc
Q psy6316         169 DVRDIIKSQESSV  181 (259)
Q Consensus       169 ~~~~~~~~~~~~~  181 (259)
                      ++.+.+++.....
T Consensus       173 eLyqtf~R~VE~v  185 (842)
T KOG0469|consen  173 ELYQTFQRIVENV  185 (842)
T ss_pred             HHHHHHHHHHhcc
Confidence            7777777665543

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=99.08  E-value=3.7e-11  Score=91.80  Aligned_cols=167  Identities=19%  Similarity=0.149  Sum_probs=89.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCcccccc-ccccccCCCCCCCCCC--------------
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRE-NTKHVRGPGGEVGGPG--------------   89 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~--------------   89 (259)
                      ..|.+.|++|+|||+|+.+++..-..+.....+..+.. +..+.+.... ....+.+..+...||.              
T Consensus        14 ~~i~v~Gp~GSGKTaLie~~~~~L~~~~~~aVI~~Di~-t~~Da~~l~~~~g~~i~~v~TG~~CH~da~m~~~ai~~l~~   92 (202)
T COG0378          14 LRIGVGGPPGSGKTALIEKTLRALKDEYKIAVITGDIY-TKEDADRLRKLPGEPIIGVETGKGCHLDASMNLEAIEELVL   92 (202)
T ss_pred             EEEEecCCCCcCHHHHHHHHHHHHHhhCCeEEEeceee-chhhHHHHHhCCCCeeEEeccCCccCCcHHHHHHHHHHHhh
Confidence            46999999999999999998765433322222222222 1111111111 1111222222222210              


Q ss_pred             CCCCCCeEEEeCCCCcchHHHHHhhccCCC-eEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchh
Q psy6316          90 PLEIPGLLIIDTPGHESFSNLRNRGSSLCD-IAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRR  168 (259)
Q Consensus        90 ~~~~~~~~liDtpG~~~~~~~~~~~~~~ad-~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~  168 (259)
                      .+..-++.|+...|--  .  ........| .-|+|+|++.+..-..+-.   .-.. ..-++|+||.|+... -....+
T Consensus        93 ~~~~~Dll~iEs~GNL--~--~~~sp~L~d~~~v~VidvteGe~~P~K~g---P~i~-~aDllVInK~DLa~~-v~~dle  163 (202)
T COG0378          93 DFPDLDLLFIESVGNL--V--CPFSPDLGDHLRVVVIDVTEGEDIPRKGG---PGIF-KADLLVINKTDLAPY-VGADLE  163 (202)
T ss_pred             cCCcCCEEEEecCcce--e--cccCcchhhceEEEEEECCCCCCCcccCC---Ccee-EeeEEEEehHHhHHH-hCccHH
Confidence            1111258888888811  1  112223344 8899999988644221100   0000 135899999999842 222234


Q ss_pred             hHHHHHhhhhccccccccccccccCcceeEEeecC
Q psy6316         169 DVRDIIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       169 ~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ...+..++...  +.+++++|+++|+|+++++..+
T Consensus       164 vm~~da~~~np--~~~ii~~n~ktg~G~~~~~~~i  196 (202)
T COG0378         164 VMARDAKEVNP--EAPIIFTNLKTGEGLDEWLRFI  196 (202)
T ss_pred             HHHHHHHHhCC--CCCEEEEeCCCCcCHHHHHHHH
Confidence            44455555544  4788999999999998865544

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=99.04  E-value=5.9e-10  Score=90.57  Aligned_cols=103  Identities=18%  Similarity=0.189  Sum_probs=63.4

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      ++.|+.|-|.....   ......+|.+++|+=+.-+...|-...    ....+.-|+|+||+|....  .....++...+
T Consensus       145 DvIIVETVGvGQse---v~I~~~aDt~~~v~~pg~GD~~Q~iK~----GimEiaDi~vINKaD~~~A--~~a~r~l~~al  215 (323)
T COG1703         145 DVIIVETVGVGQSE---VDIANMADTFLVVMIPGAGDDLQGIKA----GIMEIADIIVINKADRKGA--EKAARELRSAL  215 (323)
T ss_pred             CEEEEEecCCCcch---hHHhhhcceEEEEecCCCCcHHHHHHh----hhhhhhheeeEeccChhhH--HHHHHHHHHHH
Confidence            49999999944322   234467899999987765533332210    1122445899999996532  22233344444


Q ss_pred             hhhh-----ccccccccccccccCcceeEEeecCCCC
Q psy6316         175 KSQE-----SSVQTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       175 ~~~~-----~~~~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      +...     ..|..+++.+||.+|+|++++...+...
T Consensus       216 ~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h  252 (323)
T COG1703         216 DLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDH  252 (323)
T ss_pred             HhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHH
Confidence            4332     3345577889999999999977766443

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=99.02  E-value=2e-09  Score=96.53  Aligned_cols=114  Identities=18%  Similarity=0.127  Sum_probs=67.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+||||++|.|++.........     ...++.... ..   ...             ....+.||||||.
T Consensus       119 lrIvLVGKTGVGKSSLINSILGekvf~vss~-----~~~TTr~~e-i~---~~i-------------dG~~L~VIDTPGL  176 (763)
T TIGR00993       119 LNILVLGKSGVGKSATINSIFGEVKFSTDAF-----GMGTTSVQE-IE---GLV-------------QGVKIRVIDTPGL  176 (763)
T ss_pred             eEEEEECCCCCCHHHHHHHHhccccccccCC-----CCCceEEEE-EE---EEE-------------CCceEEEEECCCC
Confidence            4699999999999999999998864321100     011111100 00   000             0113999999994


Q ss_pred             cch------HHH----HHhhcc--CCCeEEEEEeCCCCCC-HHHHHHHHHHHh-CC----CCEEEEEecccccC
Q psy6316         105 ESF------SNL----RNRGSS--LCDIAILVVDIMHGLE-PQTIESINILKS-KK----TPFVVALNKIDRLY  160 (259)
Q Consensus       105 ~~~------~~~----~~~~~~--~ad~~i~v~d~~~~~~-~~~~~~l~~~~~-~~----~piivv~NK~D~~~  160 (259)
                      .+.      ...    ...++.  .+|++|+|...+.... ..+...++.+.. .+    ..+|||+|.+|...
T Consensus       177 ~dt~~dq~~neeILk~Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lp  250 (763)
T TIGR00993       177 KSSASDQSKNEKILSSVKKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAP  250 (763)
T ss_pred             CccccchHHHHHHHHHHHHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCC
Confidence            432      111    112333  5899999987653222 245556666554 22    46899999999985

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.

>KOG2655|consensus

Probab=99.00  E-value=2.6e-09  Score=89.77  Aligned_cols=123  Identities=20%  Similarity=0.272  Sum_probs=72.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .++.++|++|.|||||+|.|+...+..+............+..+...+.... -.+.        .+   .++++||||.
T Consensus        22 ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~ie-e~g~--------~l---~LtvidtPGf   89 (366)
T KOG2655|consen   22 FTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIE-ENGV--------KL---NLTVIDTPGF   89 (366)
T ss_pred             eEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeec-CCCe--------EE---eeEEeccCCC
Confidence            5699999999999999999988755433111000000001111111110000 0000        01   2999999993


Q ss_pred             cchH--------------HHHHhh-----------c--cCCCeEEEEEeCCC-CCCHHHHHHHHHHHhCCCCEEEEEecc
Q psy6316         105 ESFS--------------NLRNRG-----------S--SLCDIAILVVDIMH-GLEPQTIESINILKSKKTPFVVALNKI  156 (259)
Q Consensus       105 ~~~~--------------~~~~~~-----------~--~~ad~~i~v~d~~~-~~~~~~~~~l~~~~~~~~piivv~NK~  156 (259)
                      .+..              .....+           +  ..+|+++|.+.++. ++.+.+.++++.+... +.+|-|+.|+
T Consensus        90 GD~vdns~~w~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~ghgL~p~Di~~Mk~l~~~-vNiIPVI~Ka  168 (366)
T KOG2655|consen   90 GDAVDNSNCWRPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGHGLKPLDIEFMKKLSKK-VNLIPVIAKA  168 (366)
T ss_pred             cccccccccchhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCCCCcHhhHHHHHHHhcc-ccccceeecc
Confidence            3211              111111           1  25899999999875 5888888888777654 6778889999


Q ss_pred             cccC
Q psy6316         157 DRLY  160 (259)
Q Consensus       157 D~~~  160 (259)
                      |...
T Consensus       169 D~lT  172 (366)
T KOG2655|consen  169 DTLT  172 (366)
T ss_pred             ccCC
Confidence            9884

>KOG1547|consensus

Probab=98.97  E-value=3.1e-09  Score=83.55  Aligned_cols=141  Identities=20%  Similarity=0.245  Sum_probs=80.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCccee-ecccccc---CccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQ-QIGATNV---PADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~-~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      .+|.++|.+|.|||||+|.|+..+........... .+.-++.   ......+.....                +++++|
T Consensus        47 FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVkl----------------kltviD  110 (336)
T KOG1547|consen   47 FNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKL----------------KLTVID  110 (336)
T ss_pred             eEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEE----------------EEEEec
Confidence            57999999999999999999877654321111100 1100000   000111111111                299999


Q ss_pred             CCCCcchH--------------HHHHhhc--------------cCCCeEEEEEeCCC-CCCHHHHHHHHHHHhCCCCEEE
Q psy6316         101 TPGHESFS--------------NLRNRGS--------------SLCDIAILVVDIMH-GLEPQTIESINILKSKKTPFVV  151 (259)
Q Consensus       101 tpG~~~~~--------------~~~~~~~--------------~~ad~~i~v~d~~~-~~~~~~~~~l~~~~~~~~piiv  151 (259)
                      |||..+..              .....++              ..+++++|.+.++. .+.+-+.++++.+.+. +.+|-
T Consensus       111 TPGfGDqInN~ncWePI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptGhsLrplDieflkrLt~v-vNvvP  189 (336)
T KOG1547|consen  111 TPGFGDQINNDNCWEPIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTGHSLRPLDIEFLKRLTEV-VNVVP  189 (336)
T ss_pred             CCCcccccCccchhHHHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCCCccCcccHHHHHHHhhh-heeee
Confidence            99933211              1111111              14789999999874 5667788888777654 55777


Q ss_pred             EEecccccCcccccchhhHHHHHhhhhccccccc
Q psy6316         152 ALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHK  185 (259)
Q Consensus       152 v~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  185 (259)
                      |+-|+|.+..+   ++.+.++.++......++.+
T Consensus       190 VIakaDtlTle---Er~~FkqrI~~el~~~~i~v  220 (336)
T KOG1547|consen  190 VIAKADTLTLE---ERSAFKQRIRKELEKHGIDV  220 (336)
T ss_pred             eEeecccccHH---HHHHHHHHHHHHHHhcCccc
Confidence            89999988432   34455555555444433333

>KOG1486|consensus

Probab=98.89  E-value=1.5e-09  Score=85.89  Aligned_cols=83  Identities=18%  Similarity=0.265  Sum_probs=52.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ..|+++|.|++|||||+..+....-.       ...+.+++...-     .+.+           .|+.-.+++.|.||.
T Consensus        63 aRValIGfPSVGKStlLs~iT~T~Se-------aA~yeFTTLtcI-----pGvi-----------~y~ga~IQllDLPGI  119 (364)
T KOG1486|consen   63 ARVALIGFPSVGKSTLLSKITSTHSE-------AASYEFTTLTCI-----PGVI-----------HYNGANIQLLDLPGI  119 (364)
T ss_pred             eEEEEecCCCccHHHHHHHhhcchhh-------hhceeeeEEEee-----cceE-----------EecCceEEEecCccc
Confidence            45999999999999999999755431       222222222210     0111           222223999999993


Q ss_pred             cc-------hHHHHHhhccCCCeEEEEEeCCCC
Q psy6316         105 ES-------FSNLRNRGSSLCDIAILVVDIMHG  130 (259)
Q Consensus       105 ~~-------~~~~~~~~~~~ad~~i~v~d~~~~  130 (259)
                      ..       -.....+..+.||++++|+|++.+
T Consensus       120 ieGAsqgkGRGRQviavArtaDlilMvLDatk~  152 (364)
T KOG1486|consen  120 IEGASQGKGRGRQVIAVARTADLILMVLDATKS  152 (364)
T ss_pred             ccccccCCCCCceEEEEeecccEEEEEecCCcc
Confidence            32       122334566889999999999864

>cd01859 MJ1464 MJ1464

Probab=98.89  E-value=1.8e-09  Score=82.06  Aligned_cols=91  Identities=18%  Similarity=0.090  Sum_probs=63.3

Q ss_pred             hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhcccccccc
Q psy6316         107 FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKT  186 (259)
Q Consensus       107 ~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  186 (259)
                      +..++...++.+|++++|+|++++....+..+...+...++|+++|+||+|+...      ..... ........+.+++
T Consensus         2 ~~~~~~~i~~~aD~vl~V~D~~~~~~~~~~~l~~~~~~~~~p~iiv~NK~Dl~~~------~~~~~-~~~~~~~~~~~~~   74 (156)
T cd01859           2 WKRLVRRIIKESDVVLEVLDARDPELTRSRKLERYVLELGKKLLIVLNKADLVPK------EVLEK-WKSIKESEGIPVV   74 (156)
T ss_pred             HHHHHHHHHhhCCEEEEEeeCCCCcccCCHHHHHHHHhCCCcEEEEEEhHHhCCH------HHHHH-HHHHHHhCCCcEE
Confidence            3456667778899999999998766555555655666678999999999998631      11111 1122222345778


Q ss_pred             ccccccCcceeEEeecCC
Q psy6316         187 VESARKGQEICIKIEPIP  204 (259)
Q Consensus       187 ~~Sa~~g~gv~~~l~~i~  204 (259)
                      ++||++|.|+++++..+.
T Consensus        75 ~iSa~~~~gi~~L~~~l~   92 (156)
T cd01859          75 YVSAKERLGTKILRRTIK   92 (156)
T ss_pred             EEEccccccHHHHHHHHH
Confidence            999999999988665554

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.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.88  E-value=3.1e-09  Score=86.62  Aligned_cols=102  Identities=14%  Similarity=0.159  Sum_probs=71.1

Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCC-CHHHHH-HHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhcccc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGL-EPQTIE-SINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ  182 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~-~~~~~~-~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~  182 (259)
                      +++..+...++..+|.+++|+|++++. +..... ++..+...++|+++|+||+|+...     .....+..+.+ ...+
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~~~i~~vIV~NK~DL~~~-----~~~~~~~~~~~-~~~g   97 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEAQNIEPIIVLNKIDLLDD-----EDMEKEQLDIY-RNIG   97 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEECcccCCC-----HHHHHHHHHHH-HHCC
Confidence            566666777889999999999998654 554433 555666678999999999999632     11111223333 2356


Q ss_pred             ccccccccccCcceeEEeecCCCCCCcccc
Q psy6316         183 THKTVESARKGQEICIKIEPIPGEAPKMFG  212 (259)
Q Consensus       183 ~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~  212 (259)
                      .+++.+||++|.|+++++..+......+.+
T Consensus        98 ~~v~~~SAktg~gi~eLf~~l~~~~~~~~G  127 (245)
T TIGR00157        98 YQVLMTSSKNQDGLKELIEALQNRISVFAG  127 (245)
T ss_pred             CeEEEEecCCchhHHHHHhhhcCCEEEEEC
Confidence            788899999999999988777654444433

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

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=98.84  E-value=1.2e-08  Score=89.15  Aligned_cols=108  Identities=26%  Similarity=0.388  Sum_probs=77.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ..|+++|+||+|||||+..|.......    ++....|..+.....                      .+.++|+.||. 
T Consensus        70 fIvavvGPpGtGKsTLirSlVrr~tk~----ti~~i~GPiTvvsgK----------------------~RRiTflEcp~-  122 (1077)
T COG5192          70 FIVAVVGPPGTGKSTLIRSLVRRFTKQ----TIDEIRGPITVVSGK----------------------TRRITFLECPS-  122 (1077)
T ss_pred             eEEEeecCCCCChhHHHHHHHHHHHHh----hhhccCCceEEeecc----------------------eeEEEEEeChH-
Confidence            447799999999999999997653321    122222222222111                      11399999994 


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEE-EEEecccccCc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFV-VALNKIDRLYN  161 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pii-vv~NK~D~~~~  161 (259)
                       +. ..+......||++++++|+.-++.-.+.+++..+...+.|-+ -|++..|+...
T Consensus       123 -Dl-~~miDvaKIaDLVlLlIdgnfGfEMETmEFLnil~~HGmPrvlgV~ThlDlfk~  178 (1077)
T COG5192         123 -DL-HQMIDVAKIADLVLLLIDGNFGFEMETMEFLNILISHGMPRVLGVVTHLDLFKN  178 (1077)
T ss_pred             -HH-HHHHhHHHhhheeEEEeccccCceehHHHHHHHHhhcCCCceEEEEeecccccC
Confidence             22 345566789999999999998888889999999999999855 58999999863

>cd01858 NGP_1 NGP-1

Probab=98.80  E-value=5.1e-09  Score=79.63  Aligned_cols=85  Identities=16%  Similarity=0.078  Sum_probs=59.8

Q ss_pred             hhccCCCeEEEEEeCCCCCCHHHHHHHHHHHh--CCCCEEEEEecccccCcccccchhhHHHHHhhhhcccccccccccc
Q psy6316         113 RGSSLCDIAILVVDIMHGLEPQTIESINILKS--KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESA  190 (259)
Q Consensus       113 ~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa  190 (259)
                      ..+..+|++++|+|++.+....+..+...+..  .++|+++|+||+|+..      .++....+..+...+.+..+++||
T Consensus         4 ~~l~~aD~il~VvD~~~p~~~~~~~i~~~l~~~~~~~p~ilVlNKiDl~~------~~~~~~~~~~~~~~~~~~~~~iSa   77 (157)
T cd01858           4 KVIDSSDVVIQVLDARDPMGTRCKHVEEYLKKEKPHKHLIFVLNKCDLVP------TWVTARWVKILSKEYPTIAFHASI   77 (157)
T ss_pred             HhhhhCCEEEEEEECCCCccccCHHHHHHHHhccCCCCEEEEEEchhcCC------HHHHHHHHHHHhcCCcEEEEEeec
Confidence            56789999999999988765555555555554  3489999999999973      233334444444433444578999


Q ss_pred             ccCcceeEEeecC
Q psy6316         191 RKGQEICIKIEPI  203 (259)
Q Consensus       191 ~~g~gv~~~l~~i  203 (259)
                      +++.|++.++..+
T Consensus        78 ~~~~~~~~L~~~l   90 (157)
T cd01858          78 NNPFGKGSLIQLL   90 (157)
T ss_pred             cccccHHHHHHHH
Confidence            9999998755554

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>cd01858 NGP_1 NGP-1

Probab=98.73  E-value=1.4e-08  Score=77.21  Aligned_cols=25  Identities=32%  Similarity=0.531  Sum_probs=22.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ..|+++|.+|+|||||+|+|.+...
T Consensus       103 ~~v~~~G~~nvGKStliN~l~~~~~  127 (157)
T cd01858         103 ISVGFIGYPNVGKSSIINTLRSKKV  127 (157)
T ss_pred             eEEEEEeCCCCChHHHHHHHhcCCc
Confidence            4599999999999999999987654

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.

>cd00066 G-alpha G protein alpha subunit

Probab=98.72  E-value=3.2e-08  Score=83.74  Aligned_cols=65  Identities=17%  Similarity=0.145  Sum_probs=49.7

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCC-----------CHHHHHHHHHHHh----CCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGL-----------EPQTIESINILKS----KKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~-----------~~~~~~~l~~~~~----~~~piivv~NK~D~~  159 (259)
                      .+.+||++|+...+..|..++..+++++||+|.++-.           ....+..+..+-.    .+.|+++++||.|+.
T Consensus       162 ~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D~f  241 (317)
T cd00066         162 KFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKKDLF  241 (317)
T ss_pred             EEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccChHHH
Confidence            4889999999999999999999999999999987531           1111222333322    468999999999986

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.71  E-value=4.3e-08  Score=73.14  Aligned_cols=78  Identities=19%  Similarity=0.066  Sum_probs=56.5

Q ss_pred             HHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhC--CCCEEEEEecccccCcccccchhhHHHHHhhhhcccccccccc
Q psy6316         111 RNRGSSLCDIAILVVDIMHGLEPQTIESINILKSK--KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVE  188 (259)
Q Consensus       111 ~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~--~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (259)
                      ....+..+|++++|+|++++....+..+...+...  ++|+++|+||+|+..      .+... .+.+.....+..++++
T Consensus         5 ~~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~~~~k~~iivlNK~DL~~------~~~~~-~~~~~~~~~~~~ii~i   77 (141)
T cd01857           5 LWRVVERSDIVVQIVDARNPLLFRPPDLERYVKEVDPRKKNILLLNKADLLT------EEQRK-AWAEYFKKEGIVVVFF   77 (141)
T ss_pred             HHHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhccCCCcEEEEEechhcCC------HHHHH-HHHHHHHhcCCeEEEE
Confidence            44677899999999999887776666666766665  899999999999863      22222 2223333334678899


Q ss_pred             ccccCcc
Q psy6316         189 SARKGQE  195 (259)
Q Consensus       189 Sa~~g~g  195 (259)
                      ||.++.+
T Consensus        78 Sa~~~~~   84 (141)
T cd01857          78 SALKENA   84 (141)
T ss_pred             EecCCCc
Confidence            9999887

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.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.68  E-value=2e-08  Score=76.21  Aligned_cols=79  Identities=24%  Similarity=0.234  Sum_probs=54.8

Q ss_pred             CeEEEEEeCCCCCCHHHHHHH-HHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccccccccccccccCccee
Q psy6316         119 DIAILVVDIMHGLEPQTIESI-NILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEIC  197 (259)
Q Consensus       119 d~~i~v~d~~~~~~~~~~~~l-~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~  197 (259)
                      |++++|+|++++....+..+. ..+...++|+++|+||+|+..      .++....+..+.......++++||++|.|++
T Consensus         1 Dvvl~VvD~~~p~~~~~~~i~~~~~~~~~~p~IiVlNK~Dl~~------~~~~~~~~~~~~~~~~~~ii~vSa~~~~gi~   74 (155)
T cd01849           1 DVILEVLDARDPLGTRSPDIERVLIKEKGKKLILVLNKADLVP------KEVLRKWLAYLRHSYPTIPFKISATNGQGIE   74 (155)
T ss_pred             CEEEEEEeccCCccccCHHHHHHHHhcCCCCEEEEEechhcCC------HHHHHHHHHHHHhhCCceEEEEeccCCcChh
Confidence            789999999876555444444 456667899999999999963      2223333333333334567899999999998


Q ss_pred             EEeecC
Q psy6316         198 IKIEPI  203 (259)
Q Consensus       198 ~~l~~i  203 (259)
                      .+...+
T Consensus        75 ~L~~~i   80 (155)
T cd01849          75 KKESAF   80 (155)
T ss_pred             hHHHHH
Confidence            876654

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.

>cd01855 YqeH YqeH

Probab=98.68  E-value=1.5e-08  Score=79.53  Aligned_cols=98  Identities=21%  Similarity=0.174  Sum_probs=61.8

Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHh-hhhcccc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK-SQESSVQ  182 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~-~~~~~~~  182 (259)
                      ...+...+..+++.+|++++|+|+++........+  .....++|+++|+||+|+...+.  .......... ......+
T Consensus        21 ~~~~~~~l~~~~~~ad~il~VvD~~~~~~~~~~~l--~~~~~~~~~ilV~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~   96 (190)
T cd01855          21 EDFILNLLSSISPKKALVVHVVDIFDFPGSLIPRL--RLFGGNNPVILVGNKIDLLPKDK--NLVRIKNWLRAKAAAGLG   96 (190)
T ss_pred             HHHHHHHHHhcccCCcEEEEEEECccCCCccchhH--HHhcCCCcEEEEEEchhcCCCCC--CHHHHHHHHHHHHHhhcC
Confidence            33357788889999999999999987543333333  12235689999999999874211  1111211110 0001111


Q ss_pred             ---ccccccccccCcceeEEeecCCC
Q psy6316         183 ---THKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       183 ---~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                         ..++++||++|.|+++++..+..
T Consensus        97 ~~~~~i~~vSA~~~~gi~eL~~~l~~  122 (190)
T cd01855          97 LKPKDVILISAKKGWGVEELINAIKK  122 (190)
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHH
Confidence               25788999999999987766644

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.

>KOG3905|consensus

Probab=98.67  E-value=1.4e-07  Score=77.47  Aligned_cols=59  Identities=12%  Similarity=0.090  Sum_probs=41.3

Q ss_pred             CCCCEEEEEecccccC------cccccchhhHHHHHhhhhccccccccccccccCcceeEEeecC
Q psy6316         145 KKTPFVVALNKIDRLY------NWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       145 ~~~piivv~NK~D~~~------~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .++|++||++|||.+.      .......+-+...++++.-.++...|++|++...|++.+..+|
T Consensus       221 lGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidllyKYi  285 (473)
T KOG3905|consen  221 LGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLLYKYI  285 (473)
T ss_pred             CCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHHHHHH
Confidence            4689999999999852      1122233345556666666778888999999999988654444

>smart00275 G_alpha G protein alpha subunit

Probab=98.67  E-value=1.1e-07  Score=81.29  Aligned_cols=64  Identities=17%  Similarity=0.167  Sum_probs=49.6

Q ss_pred             eEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCC-----------CHHHHHHHHHHHh----CCCCEEEEEeccccc
Q psy6316          96 LLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGL-----------EPQTIESINILKS----KKTPFVVALNKIDRL  159 (259)
Q Consensus        96 ~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~-----------~~~~~~~l~~~~~----~~~piivv~NK~D~~  159 (259)
                      +.+||.+|+...++.|..++..+++++||+|.++-.           .......+..+-.    .+.|+++++||.|+.
T Consensus       186 ~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D~~  264 (342)
T smart00275      186 FRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNKIDLF  264 (342)
T ss_pred             EEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEecHHhH
Confidence            789999999999999999999999999999987521           1112233333332    368999999999987

Subunit of G proteins that contains the guanine nucleotide binding site

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.66  E-value=8.6e-08  Score=83.37  Aligned_cols=64  Identities=20%  Similarity=0.154  Sum_probs=41.2

Q ss_pred             CCeEEEeCCCCcchHHHHHh----h--ccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEeccccc
Q psy6316          94 PGLLIIDTPGHESFSNLRNR----G--SSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~~----~--~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      .+++|+||||.......+..    .  ....|.+++|+|++.+..  .......+.+.-.+.-+|+||.|..
T Consensus       183 ~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~--a~~~a~~F~~~~~~~g~IlTKlD~~  252 (429)
T TIGR01425       183 FDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQA--AEAQAKAFKDSVDVGSVIITKLDGH  252 (429)
T ss_pred             CCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChh--HHHHHHHHHhccCCcEEEEECccCC
Confidence            35999999995433222221    1  235788999999876533  3444455554444567889999976

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.65  E-value=1.6e-07  Score=79.25  Aligned_cols=92  Identities=18%  Similarity=0.120  Sum_probs=51.1

Q ss_pred             CCeEEEeCCCCcchHHH----HHh---h-----ccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCc
Q psy6316          94 PGLLIIDTPGHESFSNL----RNR---G-----SSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYN  161 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~----~~~---~-----~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~  161 (259)
                      .+++|+||||.......    +..   .     -...+..++|+|++.+..  .........+.-.+.-+|+||.|....
T Consensus       197 ~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~--~~~~a~~f~~~~~~~giIlTKlD~t~~  274 (318)
T PRK10416        197 IDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQN--ALSQAKAFHEAVGLTGIILTKLDGTAK  274 (318)
T ss_pred             CCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChH--HHHHHHHHHhhCCCCEEEEECCCCCCC
Confidence            35999999995432211    111   1     135788999999986432  222233333222345688999996531


Q ss_pred             ccccchhhHHHHHhhhhccccccccccccccCcceeE
Q psy6316         162 WNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICI  198 (259)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~  198 (259)
                           .-.+.......    +.++.+++  .|++++.
T Consensus       275 -----~G~~l~~~~~~----~~Pi~~v~--~Gq~~~D  300 (318)
T PRK10416        275 -----GGVVFAIADEL----GIPIKFIG--VGEGIDD  300 (318)
T ss_pred             -----ccHHHHHHHHH----CCCEEEEe--CCCChhh
Confidence                 22333333222    46666666  6777644

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.65  E-value=4e-08  Score=75.69  Aligned_cols=25  Identities=28%  Similarity=0.597  Sum_probs=22.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ..++++|.||+|||||+|+|.+...
T Consensus       118 ~~~~~vG~pnvGKSslin~l~~~~~  142 (172)
T cd04178         118 ITVGVVGFPNVGKSSLINSLKRSRA  142 (172)
T ss_pred             cEEEEEcCCCCCHHHHHHHHhCccc
Confidence            4599999999999999999998654

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

>PRK00098 GTPase RsgA; Reviewed

Probab=98.64  E-value=3.8e-08  Score=82.61  Aligned_cols=86  Identities=17%  Similarity=0.156  Sum_probs=59.4

Q ss_pred             ccCCCeEEEEEeCCCCCC-HHH-HHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhcccccccccccccc
Q psy6316         115 SSLCDIAILVVDIMHGLE-PQT-IESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARK  192 (259)
Q Consensus       115 ~~~ad~~i~v~d~~~~~~-~~~-~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~  192 (259)
                      +..+|++++|+|++++.. ... .+++..+...++|+++|+||+|+...     ...... ........+++++++||++
T Consensus        78 aaniD~vllV~d~~~p~~~~~~idr~L~~~~~~~ip~iIVlNK~DL~~~-----~~~~~~-~~~~~~~~g~~v~~vSA~~  151 (298)
T PRK00098         78 AANVDQAVLVFAAKEPDFSTDLLDRFLVLAEANGIKPIIVLNKIDLLDD-----LEEARE-LLALYRAIGYDVLELSAKE  151 (298)
T ss_pred             eecCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEhHHcCCC-----HHHHHH-HHHHHHHCCCeEEEEeCCC
Confidence            488999999999976533 222 34566667788999999999998621     122222 2223334467888999999


Q ss_pred             CcceeEEeecCCCC
Q psy6316         193 GQEICIKIEPIPGE  206 (259)
Q Consensus       193 g~gv~~~l~~i~~~  206 (259)
                      |.|++.++..+...
T Consensus       152 g~gi~~L~~~l~gk  165 (298)
T PRK00098        152 GEGLDELKPLLAGK  165 (298)
T ss_pred             CccHHHHHhhccCc
Confidence            99998877666543

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.63  E-value=2.9e-07  Score=70.01  Aligned_cols=61  Identities=23%  Similarity=0.205  Sum_probs=36.5

Q ss_pred             CeEEEeCCCCcchHHHHHh--------hccCCCeEEEEEeCCCCCCHH--HHHHHHHHHhCCCCEEEEEecccc
Q psy6316          95 GLLIIDTPGHESFSNLRNR--------GSSLCDIAILVVDIMHGLEPQ--TIESINILKSKKTPFVVALNKIDR  158 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~--------~~~~ad~~i~v~d~~~~~~~~--~~~~l~~~~~~~~piivv~NK~D~  158 (259)
                      ++.|+||||..+-......        ..-..|.+++++|+.......  ......++...   -++++||+|+
T Consensus        88 d~I~IEt~G~~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~a---d~ivlnk~dl  158 (158)
T cd03112          88 DRIVIETTGLADPGPVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQTEAQSQIAFA---DRILLNKTDL  158 (158)
T ss_pred             CEEEEECCCcCCHHHHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccHHHHHHHHHC---CEEEEecccC
Confidence            5899999995433332221        234689999999986532211  11123333333   3678999995

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.61  E-value=2.6e-07  Score=76.39  Aligned_cols=92  Identities=17%  Similarity=0.115  Sum_probs=51.7

Q ss_pred             CCeEEEeCCCCcchHHHHH-------hhc-----cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCc
Q psy6316          94 PGLLIIDTPGHESFSNLRN-------RGS-----SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYN  161 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~-------~~~-----~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~  161 (259)
                      .+++|+||||.........       ...     ..+|.+++|+|++.  ............+.-...-+++||+|....
T Consensus       155 ~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~--~~~~~~~~~~f~~~~~~~g~IlTKlDe~~~  232 (272)
T TIGR00064       155 IDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATT--GQNALEQAKVFNEAVGLTGIILTKLDGTAK  232 (272)
T ss_pred             CCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCC--CHHHHHHHHHHHhhCCCCEEEEEccCCCCC
Confidence            3599999999554332222       111     24899999999975  333444333333322345688999998632


Q ss_pred             ccccchhhHHHHHhhhhccccccccccccccCcceeE
Q psy6316         162 WNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICI  198 (259)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~  198 (259)
                           .-.........    +.++.+++  .|++++.
T Consensus       233 -----~G~~l~~~~~~----~~Pi~~~~--~Gq~~~d  258 (272)
T TIGR00064       233 -----GGIILSIAYEL----KLPIKFIG--VGEKIDD  258 (272)
T ss_pred             -----ccHHHHHHHHH----CcCEEEEe--CCCChHh
Confidence                 22233333322    35555555  6666543

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.

>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=98.61  E-value=1.9e-08  Score=75.89  Aligned_cols=27  Identities=19%  Similarity=0.446  Sum_probs=23.5

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ++...++++|++|||||||+|+|.+..
T Consensus        33 l~~k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   33 LKGKTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             HTTSEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            344679999999999999999998874

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.

>cd01855 YqeH YqeH

Probab=98.57  E-value=6.1e-08  Score=76.09  Aligned_cols=25  Identities=24%  Similarity=0.484  Sum_probs=22.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ..++++|.+|+|||||+|+|.+...
T Consensus       128 ~~~~~~G~~nvGKStliN~l~~~~~  152 (190)
T cd01855         128 GDVYVVGATNVGKSTLINALLKKDN  152 (190)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHHhcc
Confidence            4699999999999999999987654

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.56  E-value=7.4e-08  Score=71.86  Aligned_cols=24  Identities=17%  Similarity=0.389  Sum_probs=22.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhcccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      +++++|.+|+|||||+|+|++...
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~  108 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKK  108 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCc
Confidence            699999999999999999987764

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=98.56  E-value=3.3e-07  Score=77.70  Aligned_cols=92  Identities=18%  Similarity=0.104  Sum_probs=51.8

Q ss_pred             CCeEEEeCCCCcchHHHH----Hhh--ccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccch
Q psy6316          94 PGLLIIDTPGHESFSNLR----NRG--SSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNR  167 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~----~~~--~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~  167 (259)
                      .+++|+||||........    ...  ....|.+++|+|++.+.  ...+....+...-..--+++||.|....     .
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~--d~~~~a~~f~~~~~~~giIlTKlD~~~~-----~  295 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGN--DAVEQAREFNEAVGIDGVILTKVDADAK-----G  295 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccch--hHHHHHHHHHhcCCCCEEEEeeecCCCC-----c
Confidence            359999999954322211    111  23578999999997642  3333344443322234677999998632     2


Q ss_pred             hhHHHHHhhhhccccccccccccccCcceeE
Q psy6316         168 RDVRDIIKSQESSVQTHKTVESARKGQEICI  198 (259)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~  198 (259)
                      -........    .+.++.+++  .|++++.
T Consensus       296 G~~ls~~~~----~~~Pi~~i~--~Gq~v~D  320 (336)
T PRK14974        296 GAALSIAYV----IGKPILFLG--VGQGYDD  320 (336)
T ss_pred             cHHHHHHHH----HCcCEEEEe--CCCChhh
Confidence            223333322    245666665  6777744

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=98.54  E-value=2.7e-07  Score=81.47  Aligned_cols=158  Identities=16%  Similarity=0.213  Sum_probs=93.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+|+|..++|||||+.+|.+..-   ...+.+-.|.+....-+.   .                -....+.+|-..|
T Consensus        25 ~k~vlvlG~~~~GKttli~~L~~~e~---~~~~~aLeYty~~v~d~~---~----------------dd~~rl~vw~L~g   82 (472)
T PF05783_consen   25 EKSVLVLGDKGSGKTTLIARLQGIED---PKKGLALEYTYLDVKDED---R----------------DDLARLNVWELDG   82 (472)
T ss_pred             CceEEEEeCCCCchHHHHHHhhccCC---CCCCcccceEEEeeccCc---C----------------CcCceeeEEEcCC
Confidence            45799999999999999999965431   122222222222111100   0                0011278888877


Q ss_pred             CcchHHHHHhhcc----CCCeEEEEEeCCCCCCHHH--HHH-------------------------HHHHHh--------
Q psy6316         104 HESFSNLRNRGSS----LCDIAILVVDIMHGLEPQT--IES-------------------------INILKS--------  144 (259)
Q Consensus       104 ~~~~~~~~~~~~~----~ad~~i~v~d~~~~~~~~~--~~~-------------------------l~~~~~--------  144 (259)
                      ...+..+....+.    .--++|+|+|.+.++...+  ..|                         ...+++        
T Consensus        83 ~~~~~~LLk~~lt~~~l~~t~vvIvlDlS~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~  162 (472)
T PF05783_consen   83 DPSHSDLLKFALTPENLPNTLVVIVLDLSKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSS  162 (472)
T ss_pred             CcchHhHhcccCCcccccceEEEEEecCCChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccc
Confidence            5556666555443    2256888899988743211  000                         011100        


Q ss_pred             --------------------------------CCCCEEEEEecccccCc------ccccchhhHHHHHhhhhcccccccc
Q psy6316         145 --------------------------------KKTPFVVALNKIDRLYN------WNTMNRRDVRDIIKSQESSVQTHKT  186 (259)
Q Consensus       145 --------------------------------~~~piivv~NK~D~~~~------~~~~~~~~~~~~~~~~~~~~~~~~i  186 (259)
                                                      .++|++||++|+|....      +.+...+-+.+.++.+.-.++...|
T Consensus       163 ~~~s~~~~~~~~~~~~~~~~~lpl~~g~l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~  242 (472)
T PF05783_consen  163 DSGSPNRRSPSSSSSDDESVLLPLGEGVLTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLI  242 (472)
T ss_pred             cccCcccccccccccccccccCCCCCcccccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEE
Confidence                                            24799999999997641      2222334456666777777788889


Q ss_pred             ccccccCcceeEEeecC
Q psy6316         187 VESARKGQEICIKIEPI  203 (259)
Q Consensus       187 ~~Sa~~g~gv~~~l~~i  203 (259)
                      ++|++...+++.+.+++
T Consensus       243 yts~~~~~n~~~L~~yi  259 (472)
T PF05783_consen  243 YTSVKEEKNLDLLYKYI  259 (472)
T ss_pred             EeeccccccHHHHHHHH
Confidence            99999988887644433

The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=98.54  E-value=1.9e-07  Score=73.45  Aligned_cols=63  Identities=21%  Similarity=0.160  Sum_probs=37.6

Q ss_pred             CeEEEeCCCCcchHHHH----Hhhc--cCCCeEEEEEeCCCCCCHHHHHHHHHHHh-CCCCEEEEEecccccC
Q psy6316          95 GLLIIDTPGHESFSNLR----NRGS--SLCDIAILVVDIMHGLEPQTIESINILKS-KKTPFVVALNKIDRLY  160 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~----~~~~--~~ad~~i~v~d~~~~~~~~~~~~l~~~~~-~~~piivv~NK~D~~~  160 (259)
                      +++|+||||........    ....  ...+-+++|++++.+.  .+...+....+ .+.. =++++|.|...
T Consensus        85 D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~--~~~~~~~~~~~~~~~~-~lIlTKlDet~  154 (196)
T PF00448_consen   85 DLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQ--EDLEQALAFYEAFGID-GLILTKLDETA  154 (196)
T ss_dssp             SEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGG--HHHHHHHHHHHHSSTC-EEEEESTTSSS
T ss_pred             CEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccCh--HHHHHHHHHhhcccCc-eEEEEeecCCC
Confidence            49999999955433221    1111  2578899999998743  33333333333 3433 45699999874

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>PRK12289 GTPase RsgA; Reviewed

Probab=98.53  E-value=1.7e-07  Score=80.06  Aligned_cols=89  Identities=15%  Similarity=0.110  Sum_probs=62.4

Q ss_pred             HhhccCCCeEEEEEeCCCCC-CHHH-HHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccccccccccc
Q psy6316         112 NRGSSLCDIAILVVDIMHGL-EPQT-IESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVES  189 (259)
Q Consensus       112 ~~~~~~ad~~i~v~d~~~~~-~~~~-~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~S  189 (259)
                      ...+..+|.+++|+|+.++. .... .+++......++|+++|+||+|+..      ..+...... ....+++.++++|
T Consensus        84 R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~~~ip~ILVlNK~DLv~------~~~~~~~~~-~~~~~g~~v~~iS  156 (352)
T PRK12289         84 RPPVANADQILLVFALAEPPLDPWQLSRFLVKAESTGLEIVLCLNKADLVS------PTEQQQWQD-RLQQWGYQPLFIS  156 (352)
T ss_pred             chhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEchhcCC------hHHHHHHHH-HHHhcCCeEEEEE
Confidence            34578999999999997643 3322 3455555667899999999999973      222222222 2234567889999


Q ss_pred             cccCcceeEEeecCCCCC
Q psy6316         190 ARKGQEICIKIEPIPGEA  207 (259)
Q Consensus       190 a~~g~gv~~~l~~i~~~~  207 (259)
                      |++|.|++.++..+....
T Consensus       157 A~tg~GI~eL~~~L~~ki  174 (352)
T PRK12289        157 VETGIGLEALLEQLRNKI  174 (352)
T ss_pred             cCCCCCHHHHhhhhccce
Confidence            999999998877776544

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=98.49  E-value=5.9e-07  Score=72.32  Aligned_cols=24  Identities=38%  Similarity=0.562  Sum_probs=22.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...|+|+|++++|||||+|.|++.
T Consensus         7 v~vvsv~G~~~sGKS~llN~l~~~   30 (224)
T cd01851           7 VAVVSVFGPQSSGKSFLLNHLFGT   30 (224)
T ss_pred             EEEEEEECCCCCCHHHHHHHHhCC
Confidence            456999999999999999999987

Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein

>cd01856 YlqF YlqF

Probab=98.48  E-value=8.9e-08  Score=73.85  Aligned_cols=94  Identities=21%  Similarity=0.211  Sum_probs=60.2

Q ss_pred             CCC-cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         102 PGH-ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       102 pG~-~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ||| ..........+..+|++++|+|++.+....+..++..+  .++|+++|+||+|+...      ......++. ...
T Consensus         3 ~~~~~~~~~~~~~~i~~aD~il~v~D~~~~~~~~~~~i~~~~--~~k~~ilVlNK~Dl~~~------~~~~~~~~~-~~~   73 (171)
T cd01856           3 PGHMAKALRQIKEKLKLVDLVIEVRDARIPLSSRNPLLEKIL--GNKPRIIVLNKADLADP------KKTKKWLKY-FES   73 (171)
T ss_pred             chHHHHHHHHHHHHHhhCCEEEEEeeccCccCcCChhhHhHh--cCCCEEEEEehhhcCCh------HHHHHHHHH-HHh
Confidence            452 23444556778999999999999876554444444433  35799999999998631      112122121 122


Q ss_pred             ccccccccccccCcceeEEeecCC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ....++.+||+++.|++.+...+.
T Consensus        74 ~~~~vi~iSa~~~~gi~~L~~~l~   97 (171)
T cd01856          74 KGEKVLFVNAKSGKGVKKLLKAAK   97 (171)
T ss_pred             cCCeEEEEECCCcccHHHHHHHHH
Confidence            234578899999999988655443

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.

>cd03114 ArgK-like The function of this protein family is unkown

Probab=98.47  E-value=1e-06  Score=66.21  Aligned_cols=57  Identities=18%  Similarity=0.110  Sum_probs=38.3

Q ss_pred             CCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEeccc
Q psy6316          94 PGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKID  157 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D  157 (259)
                      .++.|+||||..   ......+..+|.+++|..++.    .+..-+........--++++||.|
T Consensus        92 ~D~iiIDtaG~~---~~~~~~~~~Ad~~ivv~tpe~----~D~y~~~k~~~~~~~~~~~~~k~~  148 (148)
T cd03114          92 FDVIIVETVGVG---QSEVDIASMADTTVVVMAPGA----GDDIQAIKAGIMEIADIVVVNKAD  148 (148)
T ss_pred             CCEEEEECCccC---hhhhhHHHhCCEEEEEECCCc----hhHHHHhhhhHhhhcCEEEEeCCC
Confidence            459999999954   223458899999999998762    222222222334445588999998

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.47  E-value=1.3e-07  Score=78.69  Aligned_cols=92  Identities=22%  Similarity=0.202  Sum_probs=60.1

Q ss_pred             CCC-cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         102 PGH-ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       102 pG~-~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ||| ..........+..+|++++|+|+..+.+..+..+...+  .++|+++|+||+|+..      ........+.+ ..
T Consensus         5 pgHm~k~~~~~~~~l~~aDvVl~V~Dar~p~~~~~~~i~~~l--~~kp~IiVlNK~DL~~------~~~~~~~~~~~-~~   75 (276)
T TIGR03596         5 PGHMAKARREIKEKLKLVDVVIEVLDARIPLSSRNPMIDEIR--GNKPRLIVLNKADLAD------PAVTKQWLKYF-EE   75 (276)
T ss_pred             hHHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCCCChhHHHHH--CCCCEEEEEEccccCC------HHHHHHHHHHH-HH
Confidence            553 22334456678899999999999877665554454444  3689999999999863      12222222222 11


Q ss_pred             ccccccccccccCcceeEEeec
Q psy6316         181 VQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      .+..++++||+++.|+..++..
T Consensus        76 ~~~~vi~iSa~~~~gi~~L~~~   97 (276)
T TIGR03596        76 KGIKALAINAKKGKGVKKIIKA   97 (276)
T ss_pred             cCCeEEEEECCCcccHHHHHHH
Confidence            2356789999999999775433

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.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.47  E-value=2.4e-07  Score=70.20  Aligned_cols=26  Identities=23%  Similarity=0.369  Sum_probs=22.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ...++++|.+|+|||||+|+|.+...
T Consensus       100 ~~~~~~~G~~~~GKstlin~l~~~~~  125 (155)
T cd01849         100 SITVGVIGYPNVGKSSVINALLNKLK  125 (155)
T ss_pred             CcEEEEEccCCCCHHHHHHHHHcccc
Confidence            35599999999999999999987654

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.

>KOG3887|consensus

Probab=98.46  E-value=7.8e-07  Score=70.32  Aligned_cols=135  Identities=16%  Similarity=0.162  Sum_probs=71.0

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEE
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLII   99 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li   99 (259)
                      ..|+ |.|.++|...+||||+-.-.... ..+++..-+..+...+..          ++.+           ..-++.+|
T Consensus        24 ~~~k-p~ilLMG~rRsGKsSI~KVVFhk-MsPneTlflESTski~~d----------~is~-----------sfinf~v~   80 (347)
T KOG3887|consen   24 SGMK-PRILLMGLRRSGKSSIQKVVFHK-MSPNETLFLESTSKITRD----------HISN-----------SFINFQVW   80 (347)
T ss_pred             CCCC-ceEEEEeecccCcchhhheeeec-cCCCceeEeeccCcccHh----------hhhh-----------hhcceEEe
Confidence            3466 44999999999999976655433 322221111111111100          1110           01129999


Q ss_pred             eCCCCcchH-H--HHHhhccCCCeEEEEEeCCCCCCHHHHHHHHH-HHh----CCCCEEEEEecccccCcc-cccchhhH
Q psy6316         100 DTPGHESFS-N--LRNRGSSLCDIAILVVDIMHGLEPQTIESINI-LKS----KKTPFVVALNKIDRLYNW-NTMNRRDV  170 (259)
Q Consensus       100 DtpG~~~~~-~--~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~-~~~----~~~piivv~NK~D~~~~~-~~~~~~~~  170 (259)
                      |.|||-.+- .  .....++++.+++||+|+.+.....-.++... .+.    .++.+=+.+.|.|-+..+ ......++
T Consensus        81 dfPGQ~~~Fd~s~D~e~iF~~~gALifvIDaQddy~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd~kietqrdI  160 (347)
T KOG3887|consen   81 DFPGQMDFFDPSFDYEMIFRGVGALIFVIDAQDDYMEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDDFKIETQRDI  160 (347)
T ss_pred             ecCCccccCCCccCHHHHHhccCeEEEEEechHHHHHHHHHHHHHhhheeecCCCceEEEEEEeccCCchhhhhhhHHHH
Confidence            999965422 1  13345689999999999866322221111111 111    245667889999987532 22233344


Q ss_pred             HHHHhhh
Q psy6316         171 RDIIKSQ  177 (259)
Q Consensus       171 ~~~~~~~  177 (259)
                      .++.++.
T Consensus       161 ~qr~~d~  167 (347)
T KOG3887|consen  161 HQRTNDE  167 (347)
T ss_pred             HHHhhHH
Confidence            4444433

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.46  E-value=8.1e-08  Score=82.71  Aligned_cols=116  Identities=19%  Similarity=0.202  Sum_probs=61.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+++++|.+|+|||||+|+|++.........+.+ ....++......       . .+           ..+.++||||.
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s-~~pgtT~~~~~~-------~-~~-----------~~~~l~DtPG~  214 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTS-PFPGTTLDLIEI-------P-LD-----------DGHSLYDTPGI  214 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeec-CCCCeEeeEEEE-------E-eC-----------CCCEEEECCCC
Confidence            3699999999999999999987543111100111 111111111100       0 01           12789999995


Q ss_pred             cchHHH---HH----hh---ccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316         105 ESFSNL---RN----RG---SSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus       105 ~~~~~~---~~----~~---~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      .....+   ..    ..   -.......+.++............+..+...+..+.+.+++.+...
T Consensus       215 ~~~~~~~~~l~~~~l~~~~~~~~i~~~~~~l~~~q~~~~ggl~~~d~~~~~~~~~~~~~~~~~~~h  280 (360)
T TIGR03597       215 INSHQMAHYLDKKDLKYITPKKEIKPKTYQLNPNQTLFLGGLARFDYLKGEKTSFTFYVSNELNIH  280 (360)
T ss_pred             CChhHhhhhcCHHHHhhcCCCCccCceEEEeCCCCEEEEceEEEEEEecCCceEEEEEccCCceeE
Confidence            432211   11    01   1346777888887654433333333334334455667777777654

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.

>TIGR00092 GTP-binding protein YchF

Probab=98.45  E-value=4.9e-07  Score=77.09  Aligned_cols=95  Identities=15%  Similarity=0.094  Sum_probs=55.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhcccc-CCCC--CCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNV-QDGE--AGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~-~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +++++|.||+|||||+|+|.+... ....  ..++....+....+..+... ......       |.......+.++|.|
T Consensus         4 k~GivGlPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~-L~~~~~-------~~~~~~a~i~~~Dia   75 (368)
T TIGR00092         4 SGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDL-LAIYIK-------PEKVPPTTTEFVDIA   75 (368)
T ss_pred             eEEEECCCCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHH-HHHHhC-------CcCcCCceEEEEecc
Confidence            499999999999999999988865 3221  11222333322222111000 000000       000111128999999


Q ss_pred             CCc-------chHHHHHhhccCCCeEEEEEeCC
Q psy6316         103 GHE-------SFSNLRNRGSSLCDIAILVVDIM  128 (259)
Q Consensus       103 G~~-------~~~~~~~~~~~~ad~~i~v~d~~  128 (259)
                      |..       ..+......++.+|++++|+++.
T Consensus        76 Glv~gAs~g~Glgn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        76 GLVGGASKGEGLGNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             ccccchhcccCcchHHHHHHHhCCEEEEEEeCC
Confidence            932       24456677889999999999985

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.44  E-value=3.2e-07  Score=76.67  Aligned_cols=90  Identities=16%  Similarity=0.168  Sum_probs=61.7

Q ss_pred             ccCCCeEEEEEeCCCCC-CHHHH-HHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhcccccccccccccc
Q psy6316         115 SSLCDIAILVVDIMHGL-EPQTI-ESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARK  192 (259)
Q Consensus       115 ~~~ad~~i~v~d~~~~~-~~~~~-~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~  192 (259)
                      +..+|.+++|+|+.++. +.... .++..+...++|+++|+||+|+...      .+... ........+.+++++||++
T Consensus        76 ~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~~~ip~iIVlNK~DL~~~------~~~~~-~~~~~~~~g~~v~~vSA~~  148 (287)
T cd01854          76 AANVDQLVIVVSLNEPFFNPRLLDRYLVAAEAAGIEPVIVLTKADLLDD------EEEEL-ELVEALALGYPVLAVSAKT  148 (287)
T ss_pred             EEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHHcCCCEEEEEEHHHCCCh------HHHHH-HHHHHHhCCCeEEEEECCC
Confidence            68899999999998775 54433 3566667788999999999999632      11111 1222223467888999999


Q ss_pred             CcceeEEeecCCCCCCccc
Q psy6316         193 GQEICIKIEPIPGEAPKMF  211 (259)
Q Consensus       193 g~gv~~~l~~i~~~~~~~~  211 (259)
                      |.|++.+...+......+.
T Consensus       149 g~gi~~L~~~L~~k~~~~~  167 (287)
T cd01854         149 GEGLDELREYLKGKTSVLV  167 (287)
T ss_pred             CccHHHHHhhhccceEEEE
Confidence            9999887666654333333

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.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.44  E-value=5.5e-07  Score=77.23  Aligned_cols=25  Identities=24%  Similarity=0.389  Sum_probs=21.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ...++++|++|+||||++.+|....
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~  161 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARC  161 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4579999999999999999997653

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=98.44  E-value=5.6e-07  Score=71.01  Aligned_cols=63  Identities=25%  Similarity=0.256  Sum_probs=44.6

Q ss_pred             CCeEEEeCC-CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCC-CCEEEEEeccccc
Q psy6316          94 PGLLIIDTP-GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKK-TPFVVALNKIDRL  159 (259)
Q Consensus        94 ~~~~liDtp-G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~-~piivv~NK~D~~  159 (259)
                      .+++++||- |.+.|.   ....+.+|.+|.|+|++........++-+...+.+ +++.+|+||+|..
T Consensus       134 ~e~VivDtEAGiEHfg---Rg~~~~vD~vivVvDpS~~sl~taeri~~L~~elg~k~i~~V~NKv~e~  198 (255)
T COG3640         134 YEVVIVDTEAGIEHFG---RGTIEGVDLVIVVVDPSYKSLRTAERIKELAEELGIKRIFVVLNKVDEE  198 (255)
T ss_pred             CcEEEEecccchhhhc---cccccCCCEEEEEeCCcHHHHHHHHHHHHHHHHhCCceEEEEEeeccch
Confidence            347888884 454444   24567899999999987644444445555566678 8899999999963

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.43  E-value=2.9e-07  Score=77.99  Aligned_cols=25  Identities=28%  Similarity=0.470  Sum_probs=22.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ..++++|-||+|||||||+|.+...
T Consensus       133 ~~v~vvG~PNVGKSslIN~L~~k~~  157 (322)
T COG1161         133 IRVGVVGYPNVGKSTLINRLLGKKV  157 (322)
T ss_pred             eEEEEEcCCCCcHHHHHHHHhcccc
Confidence            4599999999999999999998876

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.42  E-value=2.7e-07  Score=77.11  Aligned_cols=26  Identities=19%  Similarity=0.480  Sum_probs=23.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ..+++++|.||+|||||+|+|.+.+.
T Consensus       121 ~~~~~~~G~pnvGKSsliN~l~~~~~  146 (287)
T PRK09563        121 AIRAMIIGIPNVGKSTLINRLAGKKI  146 (287)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCc
Confidence            34699999999999999999998765

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.41  E-value=3.3e-07  Score=76.16  Aligned_cols=26  Identities=19%  Similarity=0.445  Sum_probs=22.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ..+++++|.||+|||||+|+|.+...
T Consensus       118 ~~~~~~vG~~nvGKSslin~l~~~~~  143 (276)
T TIGR03596       118 PIRAMIVGIPNVGKSTLINRLAGKKV  143 (276)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCc
Confidence            35699999999999999999987654

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.

>KOG1487|consensus

Probab=98.40  E-value=1.7e-07  Score=74.72  Aligned_cols=82  Identities=18%  Similarity=0.232  Sum_probs=51.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      ++.++|.|++||||++..|.+..-.       ...+..++...-....                .|....+.+.|.||..
T Consensus        61 ~vg~vgFPSvGksTl~~~l~g~~s~-------vasyefttl~~vpG~~----------------~y~gaKiqlldlpgii  117 (358)
T KOG1487|consen   61 RVGFVGFPSVGKSTLLSKLTGTFSE-------VAAYEFTTLTTVPGVI----------------RYKGAKIQLLDLPGII  117 (358)
T ss_pred             eeeEEecCccchhhhhhhhcCCCCc-------cccccceeEEEecceE----------------eccccceeeecCcchh
Confidence            5999999999999999999766431       2222222221111111                1222239999999943


Q ss_pred             c-------hHHHHHhhccCCCeEEEEEeCCCC
Q psy6316         106 S-------FSNLRNRGSSLCDIAILVVDIMHG  130 (259)
Q Consensus       106 ~-------~~~~~~~~~~~ad~~i~v~d~~~~  130 (259)
                      +       -.+......+.|.++++|+|+-.+
T Consensus       118 egakdgkgrg~qviavartcnli~~vld~~kp  149 (358)
T KOG1487|consen  118 EGAKDGKGRGKQVIAVARTCNLIFIVLDVLKP  149 (358)
T ss_pred             cccccCCCCccEEEEEeecccEEEEEeeccCc
Confidence            2       223344566889999999998654

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.37  E-value=3.5e-07  Score=78.81  Aligned_cols=97  Identities=24%  Similarity=0.260  Sum_probs=65.9

Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccccc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQT  183 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (259)
                      .++|..+...+...++++++|+|+.+.......++...+  .+.|+++|+||+|+....  ...+...+.+.+.....++
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~~s~~~~l~~~~--~~~piilV~NK~DLl~k~--~~~~~~~~~l~~~~k~~g~  125 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFEGSLIPELKRFV--GGNPVLLVGNKIDLLPKS--VNLSKIKEWMKKRAKELGL  125 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCCCCccHHHHHHh--CCCCEEEEEEchhhCCCC--CCHHHHHHHHHHHHHHcCC
Confidence            456888888888899999999999765443333333222  268999999999997421  1233444444444444444


Q ss_pred             ---cccccccccCcceeEEeecCC
Q psy6316         184 ---HKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       184 ---~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                         .++.+||++|.|+++++..+.
T Consensus       126 ~~~~i~~vSAk~g~gv~eL~~~l~  149 (360)
T TIGR03597       126 KPVDIILVSAKKGNGIDELLDKIK  149 (360)
T ss_pred             CcCcEEEecCCCCCCHHHHHHHHH
Confidence               467899999999998776663

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.

>PRK12288 GTPase RsgA; Reviewed

Probab=98.37  E-value=3.8e-07  Score=77.91  Aligned_cols=25  Identities=20%  Similarity=0.368  Sum_probs=22.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ..++|+|.+|||||||+|+|++...
T Consensus       206 ki~~~vG~sgVGKSTLiN~Ll~~~~  230 (347)
T PRK12288        206 RISIFVGQSGVGKSSLINALLPEAE  230 (347)
T ss_pred             CCEEEECCCCCCHHHHHHHhccccc
Confidence            3589999999999999999987654

>cd01856 YlqF YlqF

Probab=98.36  E-value=5e-07  Score=69.67  Aligned_cols=25  Identities=28%  Similarity=0.533  Sum_probs=22.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      .+++++|.+|+|||||+|+|.+..+
T Consensus       116 ~~~~~~G~~~vGKstlin~l~~~~~  140 (171)
T cd01856         116 IRAMVVGIPNVGKSTLINRLRGKKV  140 (171)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCc
Confidence            4699999999999999999997665

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.

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=98.35  E-value=7.8e-07  Score=64.32  Aligned_cols=110  Identities=13%  Similarity=0.055  Sum_probs=64.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|..|+|||+|+.++....+.....  + .+.+                                           
T Consensus         2 kvv~~G~~gvGKt~l~~~~~~~~~~~~~~--~-~t~~-------------------------------------------   35 (124)
T smart00010        2 KVVGIGDSGVGKVGKSARFVQFPFDYVPT--V-FTIG-------------------------------------------   35 (124)
T ss_pred             EEEEECCCChhHHHHHHHHhcCCccccCc--e-ehhh-------------------------------------------
Confidence            59999999999999999996554421110  0 0000                                           


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ  182 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~  182 (259)
                       +........+.++.++.|.+.+...+.... +...+..   ...|.+++.||.|+....      ..       .....
T Consensus        36 -~~~~~~~~~~s~~~~~~v~~~~~~~s~~~~-~~~~i~~~~k~dl~~~~~~nk~dl~~~~------~~-------~~~~~  100 (124)
T smart00010       36 -IDVYDPTSYESFDVVLQCWRVDDRDSADNK-NVPEVLVGNKSDLPILVGGNRDVLEEER------QV-------ATEEG  100 (124)
T ss_pred             -hhhccccccCCCCEEEEEEEccCHHHHHHH-hHHHHHhcCCCCCcEEEEeechhhHhhC------cC-------CHHHH
Confidence             112223456778899888887765443322 3333332   346788899999974210      11       01111


Q ss_pred             ccccccccccCcce
Q psy6316         183 THKTVESARKGQEI  196 (259)
Q Consensus       183 ~~~i~~Sa~~g~gv  196 (259)
                      ..++.+|+++|.|+
T Consensus       101 ~~~~~~s~~~~~~~  114 (124)
T smart00010      101 LEFAETSAKTPEEG  114 (124)
T ss_pred             HHHHHHhCCCcchh
Confidence            24556788888887

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

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.35  E-value=1.8e-06  Score=73.94  Aligned_cols=64  Identities=19%  Similarity=0.129  Sum_probs=38.3

Q ss_pred             CeEEEeCCCCcchHH----HHHhhc--cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316          95 GLLIIDTPGHESFSN----LRNRGS--SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        95 ~~~liDtpG~~~~~~----~~~~~~--~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      +++|+||||......    .+...+  ...+.+++|+|++.. .......+..+...+. -=++++|.|...
T Consensus       322 DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk-~~d~~~i~~~F~~~~i-dglI~TKLDET~  391 (436)
T PRK11889        322 DYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMK-SKDMIEIITNFKDIHI-DGIVFTKFDETA  391 (436)
T ss_pred             CEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccC-hHHHHHHHHHhcCCCC-CEEEEEcccCCC
Confidence            599999999543221    122222  346778999998642 1222445555555333 346799999874

>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=98.32  E-value=9.8e-07  Score=68.49  Aligned_cols=64  Identities=28%  Similarity=0.224  Sum_probs=36.1

Q ss_pred             CCeEEEeCCCCcchHHHH--H---hhccCCCeEEEEEeCCCCCCHHH--HHHHHHHHhCCCCEEEEEecccccC
Q psy6316          94 PGLLIIDTPGHESFSNLR--N---RGSSLCDIAILVVDIMHGLEPQT--IESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~--~---~~~~~ad~~i~v~d~~~~~~~~~--~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      .++.|+.+.|........  .   ...-..+.++.|+|+..-.....  ..+..++   ..--++++||+|+..
T Consensus        85 ~d~IiIE~sG~a~p~~l~~~~~~~~~~~~~~~iI~vVDa~~~~~~~~~~~~~~~Qi---~~ADvIvlnK~D~~~  155 (178)
T PF02492_consen   85 PDRIIIETSGLADPAPLILQDPPLKEDFRLDSIITVVDATNFDELENIPELLREQI---AFADVIVLNKIDLVS  155 (178)
T ss_dssp             -SEEEEEEECSSGGGGHHHHSHHHHHHESESEEEEEEEGTTHGGHTTHCHHHHHHH---CT-SEEEEE-GGGHH
T ss_pred             cCEEEECCccccccchhhhccccccccccccceeEEeccccccccccchhhhhhcc---hhcCEEEEeccccCC
Confidence            358999999955544431  1   11235689999999965311111  1122333   233488899999984

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.

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=98.30  E-value=5.4e-06  Score=63.95  Aligned_cols=63  Identities=24%  Similarity=0.252  Sum_probs=38.1

Q ss_pred             CeEEEeCCCCcchHHHHH----hh--ccCCCeEEEEEeCCCCCCHHHHHHHHHH-HhCCCCEEEEEecccccC
Q psy6316          95 GLLIIDTPGHESFSNLRN----RG--SSLCDIAILVVDIMHGLEPQTIESINIL-KSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~----~~--~~~ad~~i~v~d~~~~~~~~~~~~l~~~-~~~~~piivv~NK~D~~~  160 (259)
                      ++.++||||...+.....    ..  ....|.+++|+|+...  ....+..... ...+ ..-+++||.|...
T Consensus        84 d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~--~~~~~~~~~~~~~~~-~~~viltk~D~~~  153 (173)
T cd03115          84 DVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTG--QDAVNQAKAFNEALG-ITGVILTKLDGDA  153 (173)
T ss_pred             CEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCC--hHHHHHHHHHHhhCC-CCEEEEECCcCCC
Confidence            489999999643222211    11  1358999999998643  2233333333 3334 3567789999864

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>KOG1491|consensus

Probab=98.30  E-value=1.3e-06  Score=72.33  Aligned_cols=97  Identities=19%  Similarity=0.237  Sum_probs=56.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCC--cceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAG--GITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      .+++|+|.||+|||||+|+|..........+  ++...-+....+..+.. ....++.....    ...   .+++.|.+
T Consensus        21 lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd-~l~~~Y~~~~~----vpa---~l~v~DIA   92 (391)
T KOG1491|consen   21 LKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFD-LLCPIYGPKSK----VPA---FLTVYDIA   92 (391)
T ss_pred             ceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHH-HHHHhcCCcce----eee---eEEEEeec
Confidence            4699999999999999999988776433222  22222221111111110 00111111000    001   29999999


Q ss_pred             C-------CcchHHHHHhhccCCCeEEEEEeCCC
Q psy6316         103 G-------HESFSNLRNRGSSLCDIAILVVDIMH  129 (259)
Q Consensus       103 G-------~~~~~~~~~~~~~~ad~~i~v~d~~~  129 (259)
                      |       -...+....+.++.+|+++.|+++..
T Consensus        93 GLvkGAs~G~GLGN~FLs~iR~vDaifhVVr~f~  126 (391)
T KOG1491|consen   93 GLVKGASAGEGLGNKFLSHIRHVDAIFHVVRAFE  126 (391)
T ss_pred             ccccCcccCcCchHHHHHhhhhccceeEEEEecC
Confidence            9       23356667788899999999999853

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.30  E-value=6.5e-07  Score=73.03  Aligned_cols=26  Identities=19%  Similarity=0.349  Sum_probs=22.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ...++++|.+|+|||||+|+|.+...
T Consensus       120 ~~~~~~~G~sgvGKStLiN~L~~~~~  145 (245)
T TIGR00157       120 NRISVFAGQSGVGKSSLINALDPSVK  145 (245)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhhhh
Confidence            35699999999999999999987643

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

>KOG0082|consensus

Probab=98.30  E-value=1.6e-06  Score=73.08  Aligned_cols=69  Identities=14%  Similarity=0.104  Sum_probs=50.6

Q ss_pred             CCCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCC--CH------H---HHHHHHHHHh----CCCCEEEEEec
Q psy6316          91 LEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGL--EP------Q---TIESINILKS----KKTPFVVALNK  155 (259)
Q Consensus        91 ~~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~--~~------~---~~~~l~~~~~----~~~piivv~NK  155 (259)
                      ++...+.++|.+||..-++.|...+.+++++|||++.++-.  ..      .   .+.++..+-+    .+.++|+.+||
T Consensus       192 ~k~~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~tsiiLFLNK  271 (354)
T KOG0082|consen  192 IKGLKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANTSIILFLNK  271 (354)
T ss_pred             eCCCceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccCcEEEEeec
Confidence            34445999999999999999999999999999999986421  11      1   1222222222    35789999999


Q ss_pred             cccc
Q psy6316         156 IDRL  159 (259)
Q Consensus       156 ~D~~  159 (259)
                      .|+.
T Consensus       272 ~DLF  275 (354)
T KOG0082|consen  272 KDLF  275 (354)
T ss_pred             HHHH
Confidence            9997

>PRK12289 GTPase RsgA; Reviewed

Probab=98.29  E-value=7.9e-07  Score=76.02  Aligned_cols=25  Identities=24%  Similarity=0.387  Sum_probs=21.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ..++|+|.+|+|||||+|+|++...
T Consensus       173 ki~v~iG~SgVGKSSLIN~L~~~~~  197 (352)
T PRK12289        173 KITVVAGPSGVGKSSLINRLIPDVE  197 (352)
T ss_pred             ceEEEEeCCCCCHHHHHHHHcCccc
Confidence            4589999999999999999987643

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.29  E-value=4.2e-07  Score=75.98  Aligned_cols=92  Identities=22%  Similarity=0.198  Sum_probs=59.1

Q ss_pred             CCCCc-chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         101 TPGHE-SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       101 tpG~~-~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      -|||= .-.......+..+|++|+|+|+..+.+..+..+...+.  ++|+++|+||+|+..      ..........+ .
T Consensus         7 fpgHm~k~~~~l~~~l~~aDvIL~VvDar~p~~~~~~~l~~~~~--~kp~iiVlNK~DL~~------~~~~~~~~~~~-~   77 (287)
T PRK09563          7 FPGHMAKARREIKENLKLVDVVIEVLDARIPLSSENPMIDKIIG--NKPRLLILNKSDLAD------PEVTKKWIEYF-E   77 (287)
T ss_pred             cHHHHHHHHHHHHHHhhhCCEEEEEEECCCCCCCCChhHHHHhC--CCCEEEEEEchhcCC------HHHHHHHHHHH-H
Confidence            36642 22334556788999999999998776655444444443  789999999999862      11122222222 1


Q ss_pred             cccccccccccccCcceeEEee
Q psy6316         180 SVQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      ..+..++.+||+++.|++.++.
T Consensus        78 ~~~~~vi~vSa~~~~gi~~L~~   99 (287)
T PRK09563         78 EQGIKALAINAKKGQGVKKILK   99 (287)
T ss_pred             HcCCeEEEEECCCcccHHHHHH
Confidence            2235678899999999876443

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=98.28  E-value=3.7e-06  Score=73.83  Aligned_cols=62  Identities=19%  Similarity=0.268  Sum_probs=38.3

Q ss_pred             CeEEEeCCCCcchHHHHH------hhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRN------RGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~------~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~  159 (259)
                      +++|+||||.......+.      ..+..+|.+++|+|++.+  .........+... .+ .-+|+||.|..
T Consensus       177 DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~g--q~av~~a~~F~~~-l~i~gvIlTKlD~~  245 (437)
T PRK00771        177 DVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIG--QQAKNQAKAFHEA-VGIGGIIITKLDGT  245 (437)
T ss_pred             CEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEecccc--HHHHHHHHHHHhc-CCCCEEEEecccCC
Confidence            599999999554332221      223468999999998775  2233333333322 23 35778999975

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.27  E-value=7.7e-07  Score=73.30  Aligned_cols=26  Identities=23%  Similarity=0.496  Sum_probs=22.3

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ++....+++|++|+|||||+|+|...
T Consensus       162 l~~~~svl~GqSGVGKSSLiN~L~p~  187 (301)
T COG1162         162 LAGKITVLLGQSGVGKSTLINALLPE  187 (301)
T ss_pred             hcCCeEEEECCCCCcHHHHHHhhCch
Confidence            34456999999999999999999864

>PRK01889 GTPase RsgA; Reviewed

Probab=98.24  E-value=1.7e-06  Score=74.34  Aligned_cols=83  Identities=12%  Similarity=0.105  Sum_probs=60.2

Q ss_pred             ccCCCeEEEEEeCCCCCCHHH-HHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccccccccccccccC
Q psy6316         115 SSLCDIAILVVDIMHGLEPQT-IESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKG  193 (259)
Q Consensus       115 ~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g  193 (259)
                      +..+|.+++|+++...+.... ..++..+...+++.++|+||+|+...     .++..+.+...  ..+.+++.+|+++|
T Consensus       110 aANvD~vliV~s~~p~~~~~~ldr~L~~a~~~~i~piIVLNK~DL~~~-----~~~~~~~~~~~--~~g~~Vi~vSa~~g  182 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRIERYLALAWESGAEPVIVLTKADLCED-----AEEKIAEVEAL--APGVPVLAVSALDG  182 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHHHHHHHHHHHcCCCEEEEEEChhcCCC-----HHHHHHHHHHh--CCCCcEEEEECCCC
Confidence            467999999999977666643 44677778889999999999999732     12223333333  34678889999999


Q ss_pred             cceeEEeecCC
Q psy6316         194 QEICIKIEPIP  204 (259)
Q Consensus       194 ~gv~~~l~~i~  204 (259)
                      .|++.+...+.
T Consensus       183 ~gl~~L~~~L~  193 (356)
T PRK01889        183 EGLDVLAAWLS  193 (356)
T ss_pred             ccHHHHHHHhh
Confidence            99987665553

>cd01859 MJ1464 MJ1464

Probab=98.24  E-value=1.7e-06  Score=65.63  Aligned_cols=24  Identities=29%  Similarity=0.508  Sum_probs=21.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .+++++|.+|+||||++|+|.+..
T Consensus       102 ~~~~~ig~~~~Gkssl~~~l~~~~  125 (156)
T cd01859         102 GKVGVVGYPNVGKSSIINALKGRH  125 (156)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            459999999999999999998654

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.

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=98.23  E-value=3.2e-06  Score=72.30  Aligned_cols=132  Identities=17%  Similarity=0.155  Sum_probs=68.4

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCcccc---c--cccccccCCCCCCCCC--------C
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAI---R--ENTKHVRGPGGEVGGP--------G   89 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---~--~~~~~~~~~~~~~~~~--------~   89 (259)
                      ..+.|+++|++||||||.+..|.........    ...++..+.+.-+.   .  .....+.+.+.++...        .
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~----~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~  277 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAARYVMLKK----KKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIE  277 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHHHHhhcc----CcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHH
Confidence            3578999999999999999999655441000    01111111111111   0  0001111111111111        1


Q ss_pred             CCCCCCeEEEeCCCCcchHHHHH----hhcc--CCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316          90 PLEIPGLLIIDTPGHESFSNLRN----RGSS--LCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        90 ~~~~~~~~liDtpG~~~~~~~~~----~~~~--~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      .+...+++|+||.|...+.....    .++.  ...-+.+|++++.. ...-.+.+.+....+..- +++||.|...
T Consensus       278 ~l~~~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K-~~dlkei~~~f~~~~i~~-~I~TKlDET~  352 (407)
T COG1419         278 ALRDCDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTK-YEDLKEIIKQFSLFPIDG-LIFTKLDETT  352 (407)
T ss_pred             HhhcCCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcc-hHHHHHHHHHhccCCcce-eEEEcccccC
Confidence            24444699999999655443322    3332  23345667777552 333455666666666554 4589999874

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=98.22  E-value=2.9e-05  Score=66.42  Aligned_cols=25  Identities=24%  Similarity=0.500  Sum_probs=22.0

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +.|..++.|.-|||||||+|+++..
T Consensus         3 ~ipv~iltGFLGaGKTTll~~ll~~   27 (341)
T TIGR02475         3 KIPVTIVTGFLGAGKTTLIRHLLQN   27 (341)
T ss_pred             ccCEEEEEECCCCCHHHHHHHHHhc
Confidence            4567999999999999999999864

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>PRK13796 GTPase YqeH; Provisional

Probab=98.21  E-value=1.3e-06  Score=75.42  Aligned_cols=24  Identities=21%  Similarity=0.454  Sum_probs=21.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ..+.++|.+|||||||+|+|++..
T Consensus       161 ~~v~vvG~~NvGKSTLiN~L~~~~  184 (365)
T PRK13796        161 RDVYVVGVTNVGKSTLINRIIKEI  184 (365)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHhhc
Confidence            469999999999999999998654

>KOG3859|consensus

Probab=98.21  E-value=3.9e-06  Score=67.78  Aligned_cols=116  Identities=16%  Similarity=0.262  Sum_probs=65.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeec--cccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQI--GATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ..+|..+|.+|.|||||++.|.+.++......-....+  ...+......   ...             .   .++++||
T Consensus        42 ~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEs---nvr-------------l---KLtiv~t  102 (406)
T KOG3859|consen   42 CFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQES---NVR-------------L---KLTIVDT  102 (406)
T ss_pred             eEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhc---Cee-------------E---EEEEEee
Confidence            46799999999999999999999887644322211111  1111111111   001             1   1999999


Q ss_pred             CCCcc-------hHHH-------HHh-------------h--ccCCCeEEEEEeCCCC-CCHHHHHHHHHHHhCCCCEEE
Q psy6316         102 PGHES-------FSNL-------RNR-------------G--SSLCDIAILVVDIMHG-LEPQTIESINILKSKKTPFVV  151 (259)
Q Consensus       102 pG~~~-------~~~~-------~~~-------------~--~~~ad~~i~v~d~~~~-~~~~~~~~l~~~~~~~~piiv  151 (259)
                      .|..+       |...       ...             .  -...++++|.+.++.. +-.-+.-.++.+. ..+.+|-
T Consensus       103 vGfGDQinK~~Syk~iVdyidaQFEaYLQEELKi~Rsl~~~hDsRiH~CLYFI~PTGH~LKslDLvtmk~Ld-skVNIIP  181 (406)
T KOG3859|consen  103 VGFGDQINKEDSYKPIVDYIDAQFEAYLQEELKIRRSLFTYHDSRIHVCLYFISPTGHSLKSLDLVTMKKLD-SKVNIIP  181 (406)
T ss_pred             cccccccCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEEEEecCCCcchhHHHHHHHHHHh-hhhhhHH
Confidence            99221       1111       111             1  1458899999998753 2222233333332 2356777


Q ss_pred             EEeccccc
Q psy6316         152 ALNKIDRL  159 (259)
Q Consensus       152 v~NK~D~~  159 (259)
                      ++-|+|-+
T Consensus       182 vIAKaDti  189 (406)
T KOG3859|consen  182 VIAKADTI  189 (406)
T ss_pred             HHHHhhhh
Confidence            88999987

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=98.20  E-value=9.4e-06  Score=68.66  Aligned_cols=78  Identities=19%  Similarity=0.138  Sum_probs=46.0

Q ss_pred             CCeEEEeCCCCcchHHHHHhhcc--------CCCeEEEEEeCCCCCCHHH-H-HHHHHHHhCCCCEEEEEecccccCccc
Q psy6316          94 PGLLIIDTPGHESFSNLRNRGSS--------LCDIAILVVDIMHGLEPQT-I-ESINILKSKKTPFVVALNKIDRLYNWN  163 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~~~~~--------~ad~~i~v~d~~~~~~~~~-~-~~l~~~~~~~~piivv~NK~D~~~~~~  163 (259)
                      .+..++.|.|..+-.......+.        ..+.++.|+|+.......+ . ....++.   ..-++++||+|+...  
T Consensus        91 ~d~IvIEttG~a~p~~i~~~~~~~~~l~~~~~l~~vvtvvDa~~~~~~~~~~~~~~~Qi~---~AD~IvlnK~Dl~~~--  165 (318)
T PRK11537         91 FDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVG---YADRILLTKTDVAGE--  165 (318)
T ss_pred             CCEEEEECCCccCHHHHHHHHhcChhhcccEEeccEEEEEEhhhhhhhccccHHHHHHHH---hCCEEEEeccccCCH--
Confidence            35899999997665554443321        3588999999975322111 1 1122333   334788999999842  


Q ss_pred             ccchhhHHHHHhhhhc
Q psy6316         164 TMNRRDVRDIIKSQES  179 (259)
Q Consensus       164 ~~~~~~~~~~~~~~~~  179 (259)
                         .+.+...++.+..
T Consensus       166 ---~~~~~~~l~~lnp  178 (318)
T PRK11537        166 ---AEKLRERLARINA  178 (318)
T ss_pred             ---HHHHHHHHHHhCC
Confidence               2445555555443

>PRK12288 GTPase RsgA; Reviewed

Probab=98.20  E-value=2.1e-06  Score=73.41  Aligned_cols=92  Identities=16%  Similarity=0.176  Sum_probs=62.2

Q ss_pred             ccCCCeEEEEEeCCCCCCHHHHH-HHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccccccccccccccC
Q psy6316         115 SSLCDIAILVVDIMHGLEPQTIE-SINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKG  193 (259)
Q Consensus       115 ~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g  193 (259)
                      +..+|.+++|++.+...+....+ ++......++|+++|+||+|+....   .......... .....+.+++++||++|
T Consensus       118 aANvD~vlIV~s~~p~~s~~~Ldr~L~~a~~~~i~~VIVlNK~DL~~~~---~~~~~~~~~~-~y~~~g~~v~~vSA~tg  193 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNIIDRYLVACETLGIEPLIVLNKIDLLDDE---GRAFVNEQLD-IYRNIGYRVLMVSSHTG  193 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEEECccCCCcH---HHHHHHHHHH-HHHhCCCeEEEEeCCCC
Confidence            35699999999987766665544 5555566789999999999997421   1112222222 22344678899999999


Q ss_pred             cceeEEeecCCCCCCcc
Q psy6316         194 QEICIKIEPIPGEAPKM  210 (259)
Q Consensus       194 ~gv~~~l~~i~~~~~~~  210 (259)
                      .|+++++..+......+
T Consensus       194 ~GideL~~~L~~ki~~~  210 (347)
T PRK12288        194 EGLEELEAALTGRISIF  210 (347)
T ss_pred             cCHHHHHHHHhhCCEEE
Confidence            99998777665543333

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.18  E-value=4.9e-06  Score=73.95  Aligned_cols=24  Identities=25%  Similarity=0.552  Sum_probs=21.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...|+|+|++|+||||++.+|...
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~  373 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQR  373 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            457999999999999999999754

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=98.16  E-value=2.4e-05  Score=66.03  Aligned_cols=155  Identities=17%  Similarity=0.129  Sum_probs=81.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcccc------CCCCCCcceeec-ccc-ccCccccccccccccCC---CC------CCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNV------QDGEAGGITQQI-GAT-NVPADAIRENTKHVRGP---GG------EVGG   87 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~------~~~~~~~~~~~~-~~~-~~~~~~~~~~~~~~~~~---~~------~~~~   87 (259)
                      |..++.|.-|||||||+|.|+...-      ..++.+.++.+- +.. ....+...-..+.++|-   +.      -.. 
T Consensus         2 pVtvitGFLGsGKTTlL~~lL~~~~g~kiAVIVNEfGEvgID~~~~l~~~~e~~~El~nGCICCT~r~dl~~~~~~L~~-   80 (323)
T COG0523           2 PVTVITGFLGSGKTTLLNHLLANRDGKKIAVIVNEFGEVGIDGGALLSDTGEEVVELTNGCICCTVRDDLLPALERLLR-   80 (323)
T ss_pred             CEEEEeecCCCCHHHHHHHHHhccCCCcEEEEEecCccccccCCCccccCCccEEEeCCceEEEeccchhHHHHHHHHh-
Confidence            5689999999999999999986543      223333344331 111 11111111111222221   00      000 


Q ss_pred             CCCCCCCCeEEEeCCCCcchHHHHHhhc--------cCCCeEEEEEeCCCCCCHHH---HHHHHHHHhCCCCEEEEEecc
Q psy6316          88 PGPLEIPGLLIIDTPGHESFSNLRNRGS--------SLCDIAILVVDIMHGLEPQT---IESINILKSKKTPFVVALNKI  156 (259)
Q Consensus        88 ~~~~~~~~~~liDtpG~~~~~~~~~~~~--------~~ad~~i~v~d~~~~~~~~~---~~~l~~~~~~~~piivv~NK~  156 (259)
                        .....+..+|.|-|...-.+......        -..|.++-|+|+........   .....|+.   ..-++++||.
T Consensus        81 --~~~~~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia---~AD~ivlNK~  155 (323)
T COG0523          81 --RRDRPDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLA---FADVIVLNKT  155 (323)
T ss_pred             --ccCCCCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHH---hCcEEEEecc
Confidence              01113589999999655444433322        24688999999976433222   12223333   3348899999


Q ss_pred             cccCcccccchhhHHHHHhhhhcccccccccccc
Q psy6316         157 DRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESA  190 (259)
Q Consensus       157 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa  190 (259)
                      |+..++   ..+.+...++++...  .+++.+|.
T Consensus       156 Dlv~~~---~l~~l~~~l~~lnp~--A~i~~~~~  184 (323)
T COG0523         156 DLVDAE---ELEALEARLRKLNPR--ARIIETSY  184 (323)
T ss_pred             cCCCHH---HHHHHHHHHHHhCCC--CeEEEccc
Confidence            999542   234445555555542  34444444

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=98.16  E-value=6.5e-06  Score=81.08  Aligned_cols=116  Identities=19%  Similarity=0.212  Sum_probs=64.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccc-cccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGA-TNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      -|=.+|+|++|+||||+++.- |-.+.      .....+. .......++.+.              -+..++-+++||+
T Consensus       111 LPWYlviG~~gsGKtt~l~~s-gl~~p------l~~~~~~~~~~~~~~t~~c~--------------wwf~~~avliDta  169 (1169)
T TIGR03348       111 LPWYLVIGPPGSGKTTLLQNS-GLKFP------LAERLGAAALRGVGGTRNCD--------------WWFTDEAVLIDTA  169 (1169)
T ss_pred             CCCEEEECCCCCchhHHHHhC-CCCCc------CchhhccccccCCCCCcccc--------------eEecCCEEEEcCC
Confidence            366899999999999999987 32221      1100000 000000111000              0111237899999


Q ss_pred             C----Cc----chHHHHHhhc---------cCCCeEEEEEeCCCCCC--HHHH-H-------HHHHHHh---CCCCEEEE
Q psy6316         103 G----HE----SFSNLRNRGS---------SLCDIAILVVDIMHGLE--PQTI-E-------SINILKS---KKTPFVVA  152 (259)
Q Consensus       103 G----~~----~~~~~~~~~~---------~~ad~~i~v~d~~~~~~--~~~~-~-------~l~~~~~---~~~piivv  152 (259)
                      |    ++    .....|...+         +..+++|+++|+.+-..  .... .       .+..+..   .+.|++++
T Consensus       170 G~y~~~~~~~~~~~~~W~~fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv  249 (1169)
T TIGR03348       170 GRYTTQDSDPEEDAAAWLGFLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLV  249 (1169)
T ss_pred             CccccCCCcccccHHHHHHHHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEE
Confidence            9    21    2223344332         45899999999875432  2221 1       2222222   46899999


Q ss_pred             EecccccC
Q psy6316         153 LNKIDRLY  160 (259)
Q Consensus       153 ~NK~D~~~  160 (259)
                      +||||++.
T Consensus       250 ~Tk~Dll~  257 (1169)
T TIGR03348       250 LTKADLLA  257 (1169)
T ss_pred             Eecchhhc
Confidence            99999884

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.12  E-value=1.4e-05  Score=69.75  Aligned_cols=24  Identities=25%  Similarity=0.414  Sum_probs=21.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...|+++|++|+||||++..|.+.
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~  214 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAAR  214 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            457999999999999999999764

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.11  E-value=3.8e-06  Score=70.19  Aligned_cols=26  Identities=15%  Similarity=0.294  Sum_probs=22.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ...++++|++|+|||||+|+|++...
T Consensus       161 ~k~~~~~G~sg~GKSTlin~l~~~~~  186 (287)
T cd01854         161 GKTSVLVGQSGVGKSTLINALLPDLD  186 (287)
T ss_pred             cceEEEECCCCCCHHHHHHHHhchhh
Confidence            45799999999999999999987654

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.11  E-value=5.7e-06  Score=70.69  Aligned_cols=24  Identities=33%  Similarity=0.498  Sum_probs=21.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...|+++|++|+||||++..|...
T Consensus       206 ~~ii~lvGptGvGKTTt~akLA~~  229 (407)
T PRK12726        206 HRIISLIGQTGVGKTTTLVKLGWQ  229 (407)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            457999999999999999999754

>PRK00098 GTPase RsgA; Reviewed

Probab=98.10  E-value=3.8e-06  Score=70.59  Aligned_cols=26  Identities=19%  Similarity=0.364  Sum_probs=22.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ...++++|++|+|||||+|+|++...
T Consensus       164 gk~~~~~G~sgvGKStlin~l~~~~~  189 (298)
T PRK00098        164 GKVTVLAGQSGVGKSTLLNALAPDLE  189 (298)
T ss_pred             CceEEEECCCCCCHHHHHHHHhCCcC
Confidence            34699999999999999999987654

>PRK10867 signal recognition particle protein; Provisional

Probab=98.08  E-value=1.3e-05  Score=70.31  Aligned_cols=64  Identities=23%  Similarity=0.253  Sum_probs=36.3

Q ss_pred             CCeEEEeCCCCcchHHHHH----h--hccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEeccccc
Q psy6316          94 PGLLIIDTPGHESFSNLRN----R--GSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~----~--~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      .+++|+||||.........    .  ..-..+.+++|+|+..+  .........+.+.-...-+|+||.|..
T Consensus       184 ~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~g--q~av~~a~~F~~~~~i~giIlTKlD~~  253 (433)
T PRK10867        184 YDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTG--QDAVNTAKAFNEALGLTGVILTKLDGD  253 (433)
T ss_pred             CCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccH--HHHHHHHHHHHhhCCCCEEEEeCccCc
Confidence            3599999999443222111    1  12256788999998642  223334444443211235678999965

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.04  E-value=3.2e-05  Score=66.97  Aligned_cols=26  Identities=23%  Similarity=0.456  Sum_probs=22.1

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++..|+++|++|+||||.+..|...
T Consensus       172 ~~~~vi~lvGptGvGKTTT~aKLA~~  197 (388)
T PRK12723        172 LKKRVFILVGPTGVGKTTTIAKLAAI  197 (388)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34568999999999999999999643

>TIGR00959 ffh signal recognition particle protein

Probab=98.04  E-value=1.6e-05  Score=69.74  Aligned_cols=63  Identities=24%  Similarity=0.275  Sum_probs=36.7

Q ss_pred             CeEEEeCCCCcchHHHHHh------hccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNR------GSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~------~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      +++|+||||..........      ..-..|.+++|+|++.+  .........+...-...=+|+||.|..
T Consensus       184 DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tg--q~~~~~a~~f~~~v~i~giIlTKlD~~  252 (428)
T TIGR00959       184 DVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTG--QDAVNTAKTFNERLGLTGVVLTKLDGD  252 (428)
T ss_pred             CEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccch--HHHHHHHHHHHhhCCCCEEEEeCccCc
Confidence            5999999995432222111      12357889999998643  233444444432212234669999964

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.03  E-value=2.9e-05  Score=68.26  Aligned_cols=65  Identities=12%  Similarity=-0.006  Sum_probs=37.1

Q ss_pred             CCeEEEeCCCCcchH----HHHHhhcc---CCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316          94 PGLLIIDTPGHESFS----NLRNRGSS---LCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        94 ~~~~liDtpG~~~~~----~~~~~~~~---~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      .+++|+||||.....    ..+...+.   ...-+.+|++++.+ ...-.+.+..+...+. --+++||+|...
T Consensus       300 ~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~-~~~l~~~~~~f~~~~~-~~vI~TKlDet~  371 (424)
T PRK05703        300 CDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTK-YEDLKDIYKHFSRLPL-DGLIFTKLDETS  371 (424)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCC-HHHHHHHHHHhCCCCC-CEEEEecccccc
Confidence            359999999954332    12222332   23466888888652 1122334455544442 257899999864

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.02  E-value=1.5e-05  Score=69.14  Aligned_cols=25  Identities=28%  Similarity=0.460  Sum_probs=21.2

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +...++++|++|+||||++..|...
T Consensus       222 ~~~vi~lvGptGvGKTTtaaKLA~~  246 (432)
T PRK12724        222 QRKVVFFVGPTGSGKTTSIAKLAAK  246 (432)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3456999999999999999999753

>KOG1707|consensus

Probab=98.01  E-value=3.1e-05  Score=68.61  Aligned_cols=117  Identities=17%  Similarity=0.203  Sum_probs=69.6

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      +.+.....++|+.++|||.+++.++++.+..++..+....+..+.......          .           +.+.+-|
T Consensus       422 ~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~----------~-----------k~LiL~e  480 (625)
T KOG1707|consen  422 DRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQ----------Q-----------KYLILRE  480 (625)
T ss_pred             cceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeeccc----------c-----------ceEEEee
Confidence            444566999999999999999999998776543333333333222222100          0           0155555


Q ss_pred             CCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHH--HhCCCCEEEEEecccccC
Q psy6316         101 TPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL--KSKKTPFVVALNKIDRLY  160 (259)
Q Consensus       101 tpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~--~~~~~piivv~NK~D~~~  160 (259)
                      .+-. ...-....- ..||++.+++|.++..+..-...+...  .....|+++|++|+|+..
T Consensus       481 i~~~-~~~~l~~ke-~~cDv~~~~YDsS~p~sf~~~a~v~~~~~~~~~~Pc~~va~K~dlDe  540 (625)
T KOG1707|consen  481 IGED-DQDFLTSKE-AACDVACLVYDSSNPRSFEYLAEVYNKYFDLYKIPCLMVATKADLDE  540 (625)
T ss_pred             cCcc-ccccccCcc-ceeeeEEEecccCCchHHHHHHHHHHHhhhccCCceEEEeeccccch
Confidence            5532 111111111 679999999998865444433322211  125789999999999863

>KOG0447|consensus

Probab=98.00  E-value=7e-05  Score=66.02  Aligned_cols=78  Identities=15%  Similarity=0.221  Sum_probs=50.4

Q ss_pred             eEEEeCCCC-------------cchHHHHHhhccCCCeEEEEEeCCCC--CCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316          96 LLIIDTPGH-------------ESFSNLRNRGSSLCDIAILVVDIMHG--LEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        96 ~~liDtpG~-------------~~~~~~~~~~~~~ad~~i~v~d~~~~--~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      .+++|.||.             +....+...+++...++|+|+--.+-  ....--++..++...+...|+|++|.|+..
T Consensus       414 MVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGSVDAERSnVTDLVsq~DP~GrRTIfVLTKVDlAE  493 (980)
T KOG0447|consen  414 MVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGSVDAERSIVTDLVSQMDPHGRRTIFVLTKVDLAE  493 (980)
T ss_pred             eEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCCcchhhhhHHHHHHhcCCCCCeeEEEEeecchhh
Confidence            899999992             22445556788999999999853221  111112355666778899999999999974


Q ss_pred             cccccchhhHHHHH
Q psy6316         161 NWNTMNRRDVRDII  174 (259)
Q Consensus       161 ~~~~~~~~~~~~~~  174 (259)
                      . .-.....+.+.+
T Consensus       494 k-nlA~PdRI~kIl  506 (980)
T KOG0447|consen  494 K-NVASPSRIQQII  506 (980)
T ss_pred             h-ccCCHHHHHHHH
Confidence            2 222344444444

>KOG1424|consensus

Probab=97.97  E-value=6.4e-06  Score=71.79  Aligned_cols=25  Identities=20%  Similarity=0.307  Sum_probs=23.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      .+|++||-||+||||+||+|.|.+.
T Consensus       315 vtVG~VGYPNVGKSSTINaLvG~Kk  339 (562)
T KOG1424|consen  315 VTVGFVGYPNVGKSSTINALVGRKK  339 (562)
T ss_pred             eEEEeecCCCCchhHHHHHHhcCce
Confidence            6799999999999999999998876

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=97.97  E-value=8.7e-05  Score=63.83  Aligned_cols=63  Identities=17%  Similarity=0.252  Sum_probs=42.5

Q ss_pred             HHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhcccccccccccccc--CcceeEEeecCC
Q psy6316         135 TIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARK--GQEICIKIEPIP  204 (259)
Q Consensus       135 ~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~--g~gv~~~l~~i~  204 (259)
                      +.+.+..+++.++|+++++|-.+=.       .++..+...++....+.+.++++|.+  ...+..+++.++
T Consensus       169 EervI~ELk~igKPFvillNs~~P~-------s~et~~L~~eL~ekY~vpVlpvnc~~l~~~DI~~Il~~vL  233 (492)
T PF09547_consen  169 EERVIEELKEIGKPFVILLNSTKPY-------SEETQELAEELEEKYDVPVLPVNCEQLREEDITRILEEVL  233 (492)
T ss_pred             HHHHHHHHHHhCCCEEEEEeCCCCC-------CHHHHHHHHHHHHHhCCcEEEeehHHcCHHHHHHHHHHHH
Confidence            3557889999999999999988743       34455556666677778888877743  333433444333

It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.

>KOG1534|consensus

Probab=97.95  E-value=1.4e-05  Score=62.04  Aligned_cols=65  Identities=22%  Similarity=0.220  Sum_probs=39.4

Q ss_pred             CeEEEeCCCCcc------hHHHHHhhccC---CCeEEEEEeCCCCCCHHHH------HHHHHHHhCCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHES------FSNLRNRGSSL---CDIAILVVDIMHGLEPQTI------ESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~------~~~~~~~~~~~---ad~~i~v~d~~~~~~~~~~------~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      ++.++|||||.+      .-+.....+.+   -=+++|++|+. -....++      .-+..+....+|.|=|++|+|++
T Consensus        99 dylifDcPGQIELytH~pVm~~iv~hl~~~~F~~c~Vylldsq-f~vD~~KfiSG~lsAlsAMi~lE~P~INvlsKMDLl  177 (273)
T KOG1534|consen   99 DYLIFDCPGQIELYTHLPVMPQIVEHLKQWNFNVCVVYLLDSQ-FLVDSTKFISGCLSALSAMISLEVPHINVLSKMDLL  177 (273)
T ss_pred             CEEEEeCCCeeEEeecChhHHHHHHHHhcccCceeEEEEeccc-hhhhHHHHHHHHHHHHHHHHHhcCcchhhhhHHHHh
Confidence            499999999543      22222233322   23578888853 2222222      22344455789999999999998


Q ss_pred             C
Q psy6316         160 Y  160 (259)
Q Consensus       160 ~  160 (259)
                      +
T Consensus       178 k  178 (273)
T KOG1534|consen  178 K  178 (273)
T ss_pred             h
Confidence            5

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=97.94  E-value=4e-05  Score=63.93  Aligned_cols=28  Identities=21%  Similarity=0.304  Sum_probs=23.5

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      -++..|+|+|-.|+||||.+..|.....
T Consensus       137 ~~p~Vil~vGVNG~GKTTTIaKLA~~l~  164 (340)
T COG0552         137 KKPFVILFVGVNGVGKTTTIAKLAKYLK  164 (340)
T ss_pred             CCcEEEEEEecCCCchHhHHHHHHHHHH
Confidence            4577899999999999999999975533

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.94  E-value=2.4e-05  Score=72.65  Aligned_cols=25  Identities=24%  Similarity=0.399  Sum_probs=21.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ...|+|+|++|+||||++.+|.+..
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~  209 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARC  209 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhH
Confidence            3479999999999999999998654

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.94  E-value=3.2e-05  Score=68.57  Aligned_cols=25  Identities=24%  Similarity=0.389  Sum_probs=21.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ...++|+|++|+||||++..|....
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~  280 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARC  280 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHH
Confidence            3579999999999999999998654

>PRK13796 GTPase YqeH; Provisional

Probab=97.92  E-value=1.4e-05  Score=69.03  Aligned_cols=94  Identities=22%  Similarity=0.291  Sum_probs=58.1

Q ss_pred             chHHHHHhhccCCC-eEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccccc-
Q psy6316         106 SFSNLRNRGSSLCD-IAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQT-  183 (259)
Q Consensus       106 ~~~~~~~~~~~~ad-~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~-  183 (259)
                      +|.... ..+..+| ++++|+|+.+....... .+.... .+.|+++|+||+|+...  ....+.+...+.......++ 
T Consensus        58 ~~~~~l-~~i~~~~~lIv~VVD~~D~~~s~~~-~L~~~~-~~kpviLViNK~DLl~~--~~~~~~i~~~l~~~~k~~g~~  132 (365)
T PRK13796         58 DFLKLL-NGIGDSDALVVNVVDIFDFNGSWIP-GLHRFV-GNNPVLLVGNKADLLPK--SVKKNKVKNWLRQEAKELGLR  132 (365)
T ss_pred             HHHHHH-HhhcccCcEEEEEEECccCCCchhH-HHHHHh-CCCCEEEEEEchhhCCC--ccCHHHHHHHHHHHHHhcCCC
Confidence            455543 4445455 99999999874433222 222222 26899999999999742  11233344444444444443 


Q ss_pred             --cccccccccCcceeEEeecCC
Q psy6316         184 --HKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       184 --~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                        .++.+||++|.|+++++..+.
T Consensus       133 ~~~v~~vSAk~g~gI~eL~~~I~  155 (365)
T PRK13796        133 PVDVVLISAQKGHGIDELLEAIE  155 (365)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHH
Confidence              567899999999988776663

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.89  E-value=4.8e-05  Score=62.70  Aligned_cols=64  Identities=19%  Similarity=0.129  Sum_probs=38.1

Q ss_pred             CeEEEeCCCCcchH----HHHHhhc--cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316          95 GLLIIDTPGHESFS----NLRNRGS--SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        95 ~~~liDtpG~~~~~----~~~~~~~--~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      ++.|+||||.....    ..+...+  ...+-+++|+|++.. ...-.+.++.....+. -=++++|.|...
T Consensus       156 D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~-~~d~~~~~~~f~~~~~-~~~I~TKlDet~  225 (270)
T PRK06731        156 DYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMK-SKDMIEIITNFKDIHI-DGIVFTKFDETA  225 (270)
T ss_pred             CEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccC-HHHHHHHHHHhCCCCC-CEEEEEeecCCC
Confidence            59999999954322    1122222  345778999998652 1123345555554333 346799999874

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.88  E-value=8.7e-05  Score=55.45  Aligned_cols=21  Identities=24%  Similarity=0.453  Sum_probs=19.2

Q ss_pred             EEEEeeCCCChhHHHhHHhcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~   47 (259)
                      |++.|+||+||||++.++...
T Consensus         8 i~ITG~PGvGKtTl~~ki~e~   28 (179)
T COG1618           8 IFITGRPGVGKTTLVLKIAEK   28 (179)
T ss_pred             EEEeCCCCccHHHHHHHHHHH
Confidence            999999999999999998644

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.87  E-value=6.6e-05  Score=62.18  Aligned_cols=40  Identities=28%  Similarity=0.453  Sum_probs=33.9

Q ss_pred             hhhhhcCCCCcccccccEEEEEeeCCCChhHHHhHHhccc
Q psy6316           9 REKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus         9 ~~~~~~~~~~~~~~r~~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      -+++++....++..|.++++++|++|.|||++++++....
T Consensus        46 L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~h   85 (302)
T PF05621_consen   46 LDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLH   85 (302)
T ss_pred             HHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHC
Confidence            3566677777788889999999999999999999997654

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>KOG2485|consensus

Probab=97.84  E-value=1.5e-05  Score=65.52  Aligned_cols=25  Identities=28%  Similarity=0.514  Sum_probs=21.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      +.+.|+|-||+|||||+|++.....
T Consensus       144 ~~vmVvGvPNVGKSsLINa~r~~~L  168 (335)
T KOG2485|consen  144 YNVMVVGVPNVGKSSLINALRNVHL  168 (335)
T ss_pred             eeEEEEcCCCCChHHHHHHHHHHHh
Confidence            6699999999999999999965443

>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

Probab=97.82  E-value=0.00011  Score=51.80  Aligned_cols=58  Identities=12%  Similarity=0.118  Sum_probs=38.9

Q ss_pred             eEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCC----CCEEEEEec
Q psy6316          96 LLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKK----TPFVVALNK  155 (259)
Q Consensus        96 ~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~----~piivv~NK  155 (259)
                      +.++|||+...  ......+..+|.++++++++..........+..+++.+    .++.+|+|+
T Consensus        45 ~IIiDtpp~~~--~~~~~~l~~aD~vlvvv~~~~~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          45 YVVVDLGRSLD--EVSLAALDQADRVFLVTQQDLPSIRNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             EEEEeCCCCcC--HHHHHHHHHcCeEEEEecCChHHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence            99999999643  33445778999999999986543333344555555433    356778875

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.80  E-value=6.1e-05  Score=72.88  Aligned_cols=65  Identities=22%  Similarity=0.192  Sum_probs=41.6

Q ss_pred             eEEEeCCC----Cc----chHHHHHhh---------ccCCCeEEEEEeCCCCCC--HHHH-HHH-------HHHHh---C
Q psy6316          96 LLIIDTPG----HE----SFSNLRNRG---------SSLCDIAILVVDIMHGLE--PQTI-ESI-------NILKS---K  145 (259)
Q Consensus        96 ~~liDtpG----~~----~~~~~~~~~---------~~~ad~~i~v~d~~~~~~--~~~~-~~l-------~~~~~---~  145 (259)
                      -++|||.|    +.    .-...|...         .+..+++|+.+|+.+-.+  ..+. ...       ..+.+   .
T Consensus       176 aVlIDtaGry~~q~s~~~~~~~~W~~fL~lLkk~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~  255 (1188)
T COG3523         176 AVLIDTAGRYITQDSADEVDRAEWLGFLGLLKKYRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHA  255 (1188)
T ss_pred             eEEEcCCcceecccCcchhhHHHHHHHHHHHHHhccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            78999999    32    122333322         357899999999875332  3332 122       22222   4


Q ss_pred             CCCEEEEEecccccC
Q psy6316         146 KTPFVVALNKIDRLY  160 (259)
Q Consensus       146 ~~piivv~NK~D~~~  160 (259)
                      ..|+++++||+|+..
T Consensus       256 ~~PVYl~lTk~Dll~  270 (1188)
T COG3523         256 RLPVYLVLTKADLLP  270 (1188)
T ss_pred             CCceEEEEecccccc
Confidence            689999999999985

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=97.79  E-value=0.00027  Score=54.51  Aligned_cols=63  Identities=16%  Similarity=0.068  Sum_probs=44.0

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~  159 (259)
                      +++|+|||+....  .....+..+|.+|++++++..........+..+...+.+ ..+++|++|..
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~~~~~~~~~~~iv~N~~~~~  127 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPEISSLRDADRVKGLLEALGIKVVGVIVNRVRPD  127 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCCcchHHHHHHHHHHHHHcCCceEEEEEeCCccc
Confidence            5999999985433  344567899999999998654333334455666655544 56889999865

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.

>PRK13695 putative NTPase; Provisional

Probab=97.79  E-value=4.9e-05  Score=58.69  Aligned_cols=42  Identities=14%  Similarity=0.373  Sum_probs=29.2

Q ss_pred             hccCCCeEEEEEe---CCCCCCHHHHHHHHHHHhCCCCEEEEEeccc
Q psy6316         114 GSSLCDIAILVVD---IMHGLEPQTIESINILKSKKTPFVVALNKID  157 (259)
Q Consensus       114 ~~~~ad~~i~v~d---~~~~~~~~~~~~l~~~~~~~~piivv~NK~D  157 (259)
                      .+..+|+  +++|   ..+.......+.+..+.+.+.|++++.||..
T Consensus        93 ~l~~~~~--lllDE~~~~e~~~~~~~~~l~~~~~~~~~~i~v~h~~~  137 (174)
T PRK13695         93 ALEEADV--IIIDEIGKMELKSPKFVKAVEEVLDSEKPVIATLHRRS  137 (174)
T ss_pred             ccCCCCE--EEEECCCcchhhhHHHHHHHHHHHhCCCeEEEEECchh
Confidence            4456776  6888   4444445556667777678899999999854

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=97.78  E-value=0.00017  Score=53.60  Aligned_cols=63  Identities=21%  Similarity=0.092  Sum_probs=43.3

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhC--CCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSK--KTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~--~~piivv~NK~D~~  159 (259)
                      +++++|||+..  .......+..+|.++++++++..........++.+...  ..++.+++|+++..
T Consensus        46 d~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~~~~s~~~~~~~l~~l~~~~~~~~~~lVvN~~~~~  110 (139)
T cd02038          46 DYIIIDTGAGI--SDNVLDFFLAADEVIVVTTPEPTSITDAYALIKKLAKQLRVLNFRVVVNRAESP  110 (139)
T ss_pred             CEEEEECCCCC--CHHHHHHHHhCCeEEEEcCCChhHHHHHHHHHHHHHHhcCCCCEEEEEeCCCCH
Confidence            39999999853  33445678999999999998653222234455555432  35678999999754

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.75  E-value=6.8e-05  Score=57.78  Aligned_cols=55  Identities=22%  Similarity=0.253  Sum_probs=39.5

Q ss_pred             CeEEEEEeCCCCCCHHHHHHHHH--HHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         119 DIAILVVDIMHGLEPQTIESINI--LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       119 d~~i~v~d~~~~~~~~~~~~l~~--~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      |++++|+|+..+....+..+...  +...++|+++|+||+|+..      .+.+...++.+..
T Consensus         1 DvVl~VvDar~p~~~~~~~i~~~~~l~~~~kp~IlVlNK~DL~~------~~~l~~~~~~~~~   57 (172)
T cd04178           1 DVILEVLDARDPLGCRCPQVEEAVLQAGGNKKLVLVLNKIDLVP------KENVEKWLKYLRR   57 (172)
T ss_pred             CEEEEEEECCCCCCCCCHHHHHHHHhccCCCCEEEEEehhhcCC------HHHHHHHHHHHHh
Confidence            78999999988776666666655  4556799999999999973      3344444444443

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

>KOG2423|consensus

Probab=97.67  E-value=4e-05  Score=65.00  Aligned_cols=24  Identities=33%  Similarity=0.605  Sum_probs=21.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhcccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      .|+|+|.||+||||+||.|...++
T Consensus       309 SVGfiGYPNvGKSSiINTLR~KkV  332 (572)
T KOG2423|consen  309 SVGFIGYPNVGKSSIINTLRKKKV  332 (572)
T ss_pred             eeeeecCCCCchHHHHHHHhhccc
Confidence            399999999999999999977765

>KOG0099|consensus

Probab=97.60  E-value=0.00021  Score=57.53  Aligned_cols=66  Identities=21%  Similarity=0.202  Sum_probs=49.8

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCC--------CHHHHHHHHHHHh-------CCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGL--------EPQTIESINILKS-------KKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~--------~~~~~~~l~~~~~-------~~~piivv~NK~D~~  159 (259)
                      .|+.+|.+|+.+-...|...+.+..++|||+.+++-.        +..-.+.+..++.       ..+.+|+.+||.|++
T Consensus       203 ~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL~tisvIlFLNKqDll  282 (379)
T KOG0099|consen  203 NFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLL  282 (379)
T ss_pred             ceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHHhhhheeEEecHHHHH
Confidence            3899999999999999999999999999999986521        1111233433332       247899999999987


Q ss_pred             C
Q psy6316         160 Y  160 (259)
Q Consensus       160 ~  160 (259)
                      .
T Consensus       283 a  283 (379)
T KOG0099|consen  283 A  283 (379)
T ss_pred             H
Confidence            3

>KOG1533|consensus

Probab=97.59  E-value=4e-05  Score=60.63  Aligned_cols=68  Identities=24%  Similarity=0.287  Sum_probs=37.1

Q ss_pred             CCeEEEeCCCCcch------HHHHHhhccCCCe---EEEEEeCCCCCCHHH-----HHHHHHHHhCCCCEEEEEeccccc
Q psy6316          94 PGLLIIDTPGHESF------SNLRNRGSSLCDI---AILVVDIMHGLEPQT-----IESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus        94 ~~~~liDtpG~~~~------~~~~~~~~~~ad~---~i~v~d~~~~~~~~~-----~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      .++.++|+|||.++      .....+.+..-|.   ++-++|+.--..+..     .-.+..+-....|-|=|+.|+|+.
T Consensus        97 ~~Y~lFDcPGQVELft~h~~l~~I~~~Lek~~~rl~~V~LiDs~ycs~p~~~iS~lL~sl~tMl~melphVNvlSK~Dl~  176 (290)
T KOG1533|consen   97 DHYVLFDCPGQVELFTHHDSLNKIFRKLEKLDYRLVAVNLIDSHYCSDPSKFISSLLVSLATMLHMELPHVNVLSKADLL  176 (290)
T ss_pred             CcEEEEeCCCcEEEEeccchHHHHHHHHHHcCceEEEEEeeeceeeCChHHHHHHHHHHHHHHHhhcccchhhhhHhHHH
Confidence            34999999995431      1222333333443   444555421111111     122334445678889999999998


Q ss_pred             Cc
Q psy6316         160 YN  161 (259)
Q Consensus       160 ~~  161 (259)
                      +.
T Consensus       177 ~~  178 (290)
T KOG1533|consen  177 KK  178 (290)
T ss_pred             Hh
Confidence            64

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=97.59  E-value=0.00051  Score=53.16  Aligned_cols=64  Identities=22%  Similarity=0.182  Sum_probs=48.2

Q ss_pred             CCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEeccccc
Q psy6316          94 PGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      .+++|+|||+...  ......+..+|.+++++.++..........++.++..+.|+.+|+||+|..
T Consensus        93 ~d~viiDtpp~~~--~~~~~~l~~aD~vliv~~~~~~~~~~~~~~~~~l~~~~~~~~vV~N~~~~~  156 (179)
T cd03110          93 AELIIIDGPPGIG--CPVIASLTGADAALLVTEPTPSGLHDLERAVELVRHFGIPVGVVINKYDLN  156 (179)
T ss_pred             CCEEEEECcCCCc--HHHHHHHHcCCEEEEEecCCcccHHHHHHHHHHHHHcCCCEEEEEeCCCCC
Confidence            3599999997532  234456788999999999875433444566777777888999999999964

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>KOG2484|consensus

Probab=97.54  E-value=0.00021  Score=60.81  Aligned_cols=81  Identities=17%  Similarity=0.172  Sum_probs=57.7

Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHH-h-CCCCEEEEEecccccCcccccchhhHHHHHhhhhcccc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILK-S-KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ  182 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~-~-~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~  182 (259)
                      ..|.+.....+..+|++|.|+|+.++.+....+.-.++. . .++..|+|+||+|++      ..+...+++..+...+.
T Consensus       134 kaY~ke~rkvve~sDVVleVlDARDPlgtR~~~vE~~V~~~~gnKkLILVLNK~DLV------PrEv~e~Wl~YLr~~~p  207 (435)
T KOG2484|consen  134 KAYDKEFRKVVEASDVVLEVLDARDPLGTRCPEVEEAVLQAHGNKKLILVLNKIDLV------PREVVEKWLVYLRREGP  207 (435)
T ss_pred             HHHHHHHHHHHhhhheEEEeeeccCCCCCCChhHHHHHHhccCCceEEEEeehhccC------CHHHHHHHHHHHHhhCC
Confidence            346677777888999999999999987766555545543 2 348899999999999      45666667776666554


Q ss_pred             ccccccccc
Q psy6316         183 THKTVESAR  191 (259)
Q Consensus       183 ~~~i~~Sa~  191 (259)
                      ..+|..|..
T Consensus       208 tv~fkast~  216 (435)
T KOG2484|consen  208 TVAFKASTQ  216 (435)
T ss_pred             cceeecccc
Confidence            444444443

>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=97.54  E-value=0.0004  Score=42.45  Aligned_cols=44  Identities=25%  Similarity=0.374  Sum_probs=26.9

Q ss_pred             hccCCCeEEEEEeCCCCCCHH---HHHHHHHHHhC--CCCEEEEEeccc
Q psy6316         114 GSSLCDIAILVVDIMHGLEPQ---TIESINILKSK--KTPFVVALNKID  157 (259)
Q Consensus       114 ~~~~ad~~i~v~d~~~~~~~~---~~~~l~~~~~~--~~piivv~NK~D  157 (259)
                      ..+-.++++|++|++......   ....++.++..  ++|+++|+||+|
T Consensus        10 L~hL~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F~~~P~i~V~nK~D   58 (58)
T PF06858_consen   10 LAHLADAILFIIDPSEQCGYSIEEQLSLFKEIKPLFPNKPVIVVLNKID   58 (58)
T ss_dssp             GGGT-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHTTTS-EEEEE--TT
T ss_pred             HHhhcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCEEEEEeccC
Confidence            346789999999998754432   34455666653  899999999998

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.

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=97.53  E-value=0.00061  Score=46.54  Aligned_cols=71  Identities=23%  Similarity=0.246  Sum_probs=46.6

Q ss_pred             EEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHES  106 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~  106 (259)
                      +++.|..|+||||+...+...-...+..      .    ...+                         ++.++|+||...
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~~------v----~~~~-------------------------d~iivD~~~~~~   46 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAKRGKR------V----LLID-------------------------DYVLIDTPPGLG   46 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCe------E----EEEC-------------------------CEEEEeCCCCcc
Confidence            7889999999999999996543221110      0    0000                         199999999543


Q ss_pred             hHHH-HHhhccCCCeEEEEEeCCCCCC
Q psy6316         107 FSNL-RNRGSSLCDIAILVVDIMHGLE  132 (259)
Q Consensus       107 ~~~~-~~~~~~~ad~~i~v~d~~~~~~  132 (259)
                      .... .......+|.++++++......
T Consensus        47 ~~~~~~~~~~~~~~~vi~v~~~~~~~~   73 (99)
T cd01983          47 LLVLLCLLALLAADLVIIVTTPEALAV   73 (99)
T ss_pred             chhhhhhhhhhhCCEEEEecCCchhhH
Confidence            3221 2456678999999999865433

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>KOG0780|consensus

Probab=97.53  E-value=0.00037  Score=59.16  Aligned_cols=25  Identities=24%  Similarity=0.371  Sum_probs=21.1

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      -|+-.|.++|--|+||||.+-.|..
T Consensus        99 ~kpsVimfVGLqG~GKTTtc~KlA~  123 (483)
T KOG0780|consen   99 GKPSVIMFVGLQGSGKTTTCTKLAY  123 (483)
T ss_pred             CCCcEEEEEeccCCCcceeHHHHHH
Confidence            4466799999999999999988853

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=97.52  E-value=0.00059  Score=58.96  Aligned_cols=62  Identities=24%  Similarity=0.277  Sum_probs=36.0

Q ss_pred             CeEEEeCCCCcchHHHHH------hhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCE-EEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRN------RGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPF-VVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~------~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pi-ivv~NK~D~~  159 (259)
                      +++|+||+|.......+.      ...-..|=+++|+|+.-+....  ...+.+.+. .++ =++++|+|-.
T Consensus       184 DvvIvDTAGRl~ide~Lm~El~~Ik~~~~P~E~llVvDam~GQdA~--~~A~aF~e~-l~itGvIlTKlDGd  252 (451)
T COG0541         184 DVVIVDTAGRLHIDEELMDELKEIKEVINPDETLLVVDAMIGQDAV--NTAKAFNEA-LGITGVILTKLDGD  252 (451)
T ss_pred             CEEEEeCCCcccccHHHHHHHHHHHhhcCCCeEEEEEecccchHHH--HHHHHHhhh-cCCceEEEEcccCC
Confidence            499999999443333222      2234689999999998754322  222233221 222 2557888854

>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

Probab=97.52  E-value=0.00052  Score=52.64  Aligned_cols=63  Identities=21%  Similarity=0.165  Sum_probs=44.7

Q ss_pred             CeEEEeCCCCcchHHHHHhh--ccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEE-EEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRG--SSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFV-VALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~--~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pii-vv~NK~D~~  159 (259)
                      +++|+|||+...  ......  +..+|.+++|..++..........+..+...+.+++ +++|+.+..
T Consensus        69 D~VIiD~pp~~~--~~~~~~~~~~~ad~viiV~~p~~~s~~~~~~~~~~l~~~~~~~~gvv~N~~~~~  134 (169)
T cd02037          69 DYLVIDMPPGTG--DEHLTLAQSLPIDGAVIVTTPQEVALDDVRKAIDMFKKVNIPILGVVENMSYFV  134 (169)
T ss_pred             CEEEEeCCCCCc--HHHHHHHhccCCCeEEEEECCchhhHHHHHHHHHHHHhcCCCeEEEEEcCCccc
Confidence            499999999542  222222  268899999998865444455667788888887764 789998864

Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.

>KOG1144|consensus

Probab=97.47  E-value=0.00027  Score=64.43  Aligned_cols=71  Identities=62%  Similarity=0.957  Sum_probs=66.6

Q ss_pred             ccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHHHHHhhccC
Q psy6316         189 SARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKKVFQIL  259 (259)
Q Consensus       189 Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~~~~~  259 (259)
                      +|+.|.-+...+.....+.+.+|+.++...+.+++.+.|+.+|.|+.||+.....-+|.|++.+.++|.|+
T Consensus       994 ~akkGqeVaiKie~~~~e~~~mfGRHf~~~D~LyS~isR~SId~lK~~fr~el~~~dw~Lv~~Lk~~f~I~ 1064 (1064)
T KOG1144|consen  994 YAKKGQEVAIKIEASNGEEQKMFGRHFDMEDILYSHISRRSIDILKKAFRDELTKDDWQLVVKLKKLFGII 1064 (1064)
T ss_pred             hhhcCCeEEEEEecCCCCCcchhhcccCccchHHHHhhHhhHHHHHHHHHHHhhHHHHHHHHHHHHHhccC
Confidence            56788888888888889999999999999999999999999999999999999999999999999999985

>KOG2743|consensus

Probab=97.44  E-value=0.00075  Score=55.45  Aligned_cols=29  Identities=21%  Similarity=0.292  Sum_probs=24.7

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhccc
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      +.-|.|.-.+.|.-|||||||+|+++...
T Consensus        53 ~~~rIPvtIITGyLGaGKtTLLn~Il~~~   81 (391)
T KOG2743|consen   53 LGARIPVTIITGYLGAGKTTLLNYILTGQ   81 (391)
T ss_pred             CCCccceEEEEecccCChHHHHHHHHccC
Confidence            44567889999999999999999997553

>KOG2484|consensus

Probab=97.41  E-value=0.00013  Score=61.95  Aligned_cols=26  Identities=23%  Similarity=0.535  Sum_probs=22.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ...++|+|-||+||||+||+|...+.
T Consensus       252 sIrvGViG~PNVGKSSvINsL~~~k~  277 (435)
T KOG2484|consen  252 SIRVGIIGYPNVGKSSVINSLKRRKA  277 (435)
T ss_pred             ceEeeeecCCCCChhHHHHHHHHhcc
Confidence            45599999999999999999977654

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=97.33  E-value=0.0011  Score=46.44  Aligned_cols=71  Identities=20%  Similarity=0.233  Sum_probs=44.8

Q ss_pred             EEEEe-eCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          27 VCVLG-HVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        27 I~v~G-~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      |++.| ..|+||||+...|...-...+. +....+     ..+.                        .++.++|+|+..
T Consensus         2 i~~~~~kgG~Gkst~~~~la~~~~~~~~-~vl~~d-----~d~~------------------------~d~viiD~p~~~   51 (104)
T cd02042           2 IAVANQKGGVGKTTTAVNLAAALARRGK-RVLLID-----LDPQ------------------------YDYIIIDTPPSL   51 (104)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHHhCCC-cEEEEe-----CCCC------------------------CCEEEEeCcCCC
Confidence            67777 6799999998888544332111 111111     1111                        139999999964


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCC
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMH  129 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~  129 (259)
                      .  ......+..+|.++++++++.
T Consensus        52 ~--~~~~~~l~~ad~viv~~~~~~   73 (104)
T cd02042          52 G--LLTRNALAAADLVLIPVQPSP   73 (104)
T ss_pred             C--HHHHHHHHHCCEEEEeccCCH
Confidence            3  333477788999999999754

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>PHA02518 ParA-like protein; Provisional

Probab=97.33  E-value=0.0028  Score=50.21  Aligned_cols=62  Identities=11%  Similarity=0.117  Sum_probs=38.7

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH---HHHHHHhC--CCCE-EEEEecccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE---SINILKSK--KTPF-VVALNKIDR  158 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~---~l~~~~~~--~~pi-ivv~NK~D~  158 (259)
                      +++|+||||..  .......+..+|.+|+++.++........+   .+......  +.|. .++.|+.+.
T Consensus        78 d~viiD~p~~~--~~~~~~~l~~aD~viip~~ps~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~n~~~~  145 (211)
T PHA02518         78 DYVVVDGAPQD--SELARAALRIADMVLIPVQPSPFDIWAAPDLVELIKARQEVTDGLPKFAFIISRAIK  145 (211)
T ss_pred             CEEEEeCCCCc--cHHHHHHHHHCCEEEEEeCCChhhHHHHHHHHHHHHHHHhhCCCCceEEEEEeccCC
Confidence            59999999963  355667888999999999986532222222   23332222  3443 466777654

>PRK01889 GTPase RsgA; Reviewed

Probab=97.28  E-value=0.00028  Score=60.86  Aligned_cols=24  Identities=29%  Similarity=0.520  Sum_probs=21.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhcccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      .++++|.+|+|||||+|.|++...
T Consensus       197 ~~~lvG~sgvGKStLin~L~g~~~  220 (356)
T PRK01889        197 TVALLGSSGVGKSTLVNALLGEEV  220 (356)
T ss_pred             EEEEECCCCccHHHHHHHHHHhcc
Confidence            699999999999999999987543

>COG1161 Predicted GTPases [General function prediction only]

Probab=97.24  E-value=0.00072  Score=57.46  Aligned_cols=96  Identities=23%  Similarity=0.120  Sum_probs=68.9

Q ss_pred             EEEeCCCCc-chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316          97 LIIDTPGHE-SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus        97 ~liDtpG~~-~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      .+-+.|||- .+.......+..+|+++.|+|+.++.+.....+-..+...  |.++|+||+|+..      .....+..+
T Consensus        13 ~i~~~~g~~~k~~~~~~~~~~~~d~vvevvDar~P~~s~~~~l~~~v~~k--~~i~vlNK~DL~~------~~~~~~W~~   84 (322)
T COG1161          13 KIQWFPGHMKKAKRQLKEVLKSVDVVVEVVDARDPLGTRNPELERIVKEK--PKLLVLNKADLAP------KEVTKKWKK   84 (322)
T ss_pred             cccCCCCchHHHHHHHHHhcccCCEEEEEEeccccccccCccHHHHHccC--CcEEEEehhhcCC------HHHHHHHHH
Confidence            344458854 4666677888999999999999988776665555555443  4499999999983      445666666


Q ss_pred             hhhccccccccccccccCcceeEEe
Q psy6316         176 SQESSVQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       176 ~~~~~~~~~~i~~Sa~~g~gv~~~l  200 (259)
                      .+....+...+.+|++.+.+...+.
T Consensus        85 ~~~~~~~~~~~~v~~~~~~~~~~i~  109 (322)
T COG1161          85 YFKKEEGIKPIFVSAKSRQGGKKIR  109 (322)
T ss_pred             HHHhcCCCccEEEEeecccCccchH
Confidence            6666556677888898888876643

>KOG4181|consensus

Probab=97.21  E-value=0.0039  Score=52.39  Aligned_cols=23  Identities=30%  Similarity=0.547  Sum_probs=20.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .|+++|.-|+|||||++.|.+..
T Consensus       190 VIgvlG~QgsGKStllslLaans  212 (491)
T KOG4181|consen  190 VIGVLGGQGSGKSTLLSLLAANS  212 (491)
T ss_pred             EEEeecCCCccHHHHHHHHhccC
Confidence            59999999999999999997664

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.21  E-value=0.00031  Score=44.01  Aligned_cols=21  Identities=24%  Similarity=0.555  Sum_probs=19.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..+|.|+.|+||||++.++.-
T Consensus        25 ~tli~G~nGsGKSTllDAi~~   45 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQT   45 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999999853

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.17  E-value=0.00025  Score=56.92  Aligned_cols=23  Identities=26%  Similarity=0.475  Sum_probs=20.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .|+++|++|||||||+|.+.|-.
T Consensus        31 fvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            39999999999999999997654

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.15  E-value=0.00035  Score=50.25  Aligned_cols=22  Identities=18%  Similarity=0.451  Sum_probs=19.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .|+|.|.+||||||+.+.|...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999999764

...

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=97.13  E-value=0.00058  Score=52.45  Aligned_cols=37  Identities=16%  Similarity=0.319  Sum_probs=28.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPA   68 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~   68 (259)
                      .-+++.|++|+||||++++|+...       .+...+..||.++
T Consensus         5 ~l~vlsgPSG~GKsTl~k~L~~~~-------~l~~SVS~TTR~p   41 (191)
T COG0194           5 LLIVLSGPSGVGKSTLVKALLEDD-------KLRFSVSATTRKP   41 (191)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhc-------CeEEEEEeccCCC
Confidence            358999999999999999998776       1455556666654

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.07  E-value=0.00033  Score=58.44  Aligned_cols=25  Identities=28%  Similarity=0.469  Sum_probs=21.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ...|+|+|++|+||||++..|....
T Consensus       194 ~~vi~~vGptGvGKTTt~~kLa~~~  218 (282)
T TIGR03499       194 GGVIALVGPTGVGKTTTLAKLAARF  218 (282)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4579999999999999999996544

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.07  E-value=0.0011  Score=54.94  Aligned_cols=93  Identities=19%  Similarity=0.247  Sum_probs=64.2

Q ss_pred             ccCCCeEEEEEeCCCC-CCHHHH-HHHHHHHhCCCCEEEEEecccccCcccccchhhHH-HHHhhhhccccccccccccc
Q psy6316         115 SSLCDIAILVVDIMHG-LEPQTI-ESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVR-DIIKSQESSVQTHKTVESAR  191 (259)
Q Consensus       115 ~~~ad~~i~v~d~~~~-~~~~~~-~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~~Sa~  191 (259)
                      +...|-+++|+.+.++ ++..-+ +++-.....++..++++||+|+...+      +.. +........++.+.+.+|++
T Consensus        77 v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~~gi~pvIvlnK~DL~~~~------~~~~~~~~~~y~~~gy~v~~~s~~  150 (301)
T COG1162          77 VANNDQAIIVVSLVDPDFNTNLLDRYLVLAEAGGIEPVIVLNKIDLLDDE------EAAVKELLREYEDIGYPVLFVSAK  150 (301)
T ss_pred             ccccceEEEEEeccCCCCCHHHHHHHHHHHHHcCCcEEEEEEccccCcch------HHHHHHHHHHHHhCCeeEEEecCc
Confidence            3446666777666543 444443 46666777888888999999998532      112 34555666678899999999


Q ss_pred             cCcceeEEeecCCCCCCccccc
Q psy6316         192 KGQEICIKIEPIPGEAPKMFGR  213 (259)
Q Consensus       192 ~g~gv~~~l~~i~~~~~~~~~~  213 (259)
                      ++.|++.+...+......+.++
T Consensus       151 ~~~~~~~l~~~l~~~~svl~Gq  172 (301)
T COG1162         151 NGDGLEELAELLAGKITVLLGQ  172 (301)
T ss_pred             CcccHHHHHHHhcCCeEEEECC
Confidence            9999988777776665555544

>KOG0085|consensus

Probab=97.06  E-value=0.00048  Score=54.50  Aligned_cols=71  Identities=15%  Similarity=0.118  Sum_probs=45.3

Q ss_pred             CCCCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCC-----------CCCHHHHHHHHHHHh----CCCCEEEEEe
Q psy6316          90 PLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMH-----------GLEPQTIESINILKS----KKTPFVVALN  154 (259)
Q Consensus        90 ~~~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~-----------~~~~~~~~~l~~~~~----~~~piivv~N  154 (259)
                      +..+..+.++|.+|+..-...|...+.....++|++..+.           ......+.++..+..    .+.++|+.+|
T Consensus       195 dl~~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi~yPWF~nssVIlFLN  274 (359)
T KOG0085|consen  195 DLQKIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLN  274 (359)
T ss_pred             chhhheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHhccccccCCceEEEec
Confidence            3333448899999998888888877766666665554322           112222333333333    4688999999


Q ss_pred             cccccC
Q psy6316         155 KIDRLY  160 (259)
Q Consensus       155 K~D~~~  160 (259)
                      |.|++.
T Consensus       275 KkDlLE  280 (359)
T KOG0085|consen  275 KKDLLE  280 (359)
T ss_pred             hhhhhh
Confidence            999983

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.04  E-value=0.00039  Score=55.49  Aligned_cols=23  Identities=26%  Similarity=0.538  Sum_probs=20.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .|+++|++|+|||||+|.+.+-.
T Consensus        33 ~vaI~GpSGSGKSTLLniig~ld   55 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGGLD   55 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            49999999999999999996543

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=97.02  E-value=0.0045  Score=51.16  Aligned_cols=64  Identities=14%  Similarity=0.100  Sum_probs=37.9

Q ss_pred             CCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHH----hCCCCE-EEEEecccc
Q psy6316          94 PGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILK----SKKTPF-VVALNKIDR  158 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~----~~~~pi-ivv~NK~D~  158 (259)
                      .+++|+||||..... .....+..+|.+|+++.++..........+..+.    ..+.++ .+++|++|.
T Consensus       116 yD~vIIDt~g~~~~~-~~~~al~~aD~vlip~~p~~~~l~~~~~~~~~i~~~~~~~~l~~~giV~Nr~~~  184 (267)
T cd02032         116 YDVILFDVLGDVVCG-GFAAPLNYADYALIVTDNDFDSIFAANRIAAAVREKAKTYKVRLAGLIANRTDK  184 (267)
T ss_pred             CCEEEEeCCCCcccc-cchhhhhhcCEEEEEecCCcccHHHHHHHHHHHHHHhhccCCceEEEEEeCCCH
Confidence            459999999853211 1233478899999999875432222223333332    234443 368999984

Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=97.02  E-value=0.00053  Score=50.49  Aligned_cols=23  Identities=30%  Similarity=0.495  Sum_probs=20.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++|+|+.|+|||||++.|.+..
T Consensus        13 ~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   13 IVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEEccCCCccccceeeecccc
Confidence            59999999999999999998764

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>KOG0781|consensus

Probab=97.02  E-value=0.002  Score=56.30  Aligned_cols=26  Identities=23%  Similarity=0.316  Sum_probs=23.2

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      -|+..|.|+|-.|+||||-+..++.+
T Consensus       376 krPYVi~fvGVNGVGKSTNLAKIayW  401 (587)
T KOG0781|consen  376 KRPYVISFVGVNGVGKSTNLAKIAYW  401 (587)
T ss_pred             CCCeEEEEEeecCccccchHHHHHHH
Confidence            37899999999999999999999655

>PRK07261 topology modulation protein; Provisional

Probab=97.00  E-value=0.00045  Score=53.21  Aligned_cols=21  Identities=24%  Similarity=0.563  Sum_probs=19.1

Q ss_pred             EEEEeeCCCChhHHHhHHhcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+|+|.+|+|||||...|...
T Consensus         3 i~i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          3 IAIIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            999999999999999998643

>PRK13849 putative crown gall tumor protein VirC1; Provisional

Probab=96.99  E-value=0.0033  Score=50.86  Aligned_cols=61  Identities=11%  Similarity=0.135  Sum_probs=40.7

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHH------hCCCCEEEEEeccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILK------SKKTPFVVALNKID  157 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~------~~~~piivv~NK~D  157 (259)
                      +++|+||||...  ......+..+|.+|+.+.++........+.+..+.      ..+.|..+++|+++
T Consensus        85 D~iiID~pp~~~--~~~~~al~~aD~vliP~~ps~~d~~~~~~~~~~v~~~~~~~~~~l~~~iv~~~~~  151 (231)
T PRK13849         85 DYALADTHGGSS--ELNNTIIASSNLLLIPTMLTPLDIDEALSTYRYVIELLLSENLAIPTAILRQRVP  151 (231)
T ss_pred             CEEEEeCCCCcc--HHHHHHHHHCCEEEEeccCcHHHHHHHHHHHHHHHHHHHHhCCCCCeEEEEEecc
Confidence            599999999664  44566778999999888875422212223332322      23577789999987

>KOG0052|consensus

Probab=96.98  E-value=0.00064  Score=57.89  Aligned_cols=66  Identities=32%  Similarity=0.404  Sum_probs=50.9

Q ss_pred             eEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCC-------CCHHHHHHHHHHHhCC-CCEEEEEecccccCc
Q psy6316          96 LLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG-------LEPQTIESINILKSKK-TPFVVALNKIDRLYN  161 (259)
Q Consensus        96 ~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~-------~~~~~~~~l~~~~~~~-~piivv~NK~D~~~~  161 (259)
                      ++++|.|||.++.+.+....+++|++++++.+..+       ...+..++......++ .++++.+||+|....
T Consensus        84 i~iid~pgh~d~~k~mitg~sqaD~avliva~~~gefEagiskngqt~ehalla~tlgv~qliv~v~k~D~~~~  157 (391)
T KOG0052|consen   84 VTIIDAPGHRDFIKNMITGTSQADCAVLIVAAGTGEFEAGISKNGQTREHALLAFTLGVKQLIVGVNKMDSTEP  157 (391)
T ss_pred             EEEecCCCCCceeeeEEeeEeeeceeEEEEeeeccceeeeccccchhhhhhhhhccccceeeeEEeecccccCC
Confidence            89999999999999999999999999999988332       2234455544444554 578899999998753

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.97  E-value=0.00052  Score=53.13  Aligned_cols=21  Identities=29%  Similarity=0.572  Sum_probs=19.7

Q ss_pred             EEEEeeCCCChhHHHhHHhcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+|+|+|||||||+...|...
T Consensus         3 iiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           3 ILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            999999999999999999765

>PRK08233 hypothetical protein; Provisional

Probab=96.97  E-value=0.00059  Score=52.81  Aligned_cols=26  Identities=19%  Similarity=0.390  Sum_probs=22.1

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+...|+|.|.+|+|||||.++|...
T Consensus         1 ~~~~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          1 KKTKIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhh
Confidence            34567999999999999999999754

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=96.96  E-value=0.00056  Score=52.39  Aligned_cols=23  Identities=30%  Similarity=0.557  Sum_probs=20.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++|+|++|+|||||+|-+.|-.
T Consensus        27 ~vAi~GpSGaGKSTLLnLIAGF~   49 (231)
T COG3840          27 IVAILGPSGAGKSTLLNLIAGFE   49 (231)
T ss_pred             EEEEECCCCccHHHHHHHHHhcc
Confidence            49999999999999999997654

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.91  E-value=0.00069  Score=52.01  Aligned_cols=26  Identities=27%  Similarity=0.382  Sum_probs=22.8

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ++.+.++|+|.+|+|||||+++|+..
T Consensus         4 ~~~~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          4 TMIPLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             CCceEEEEECCCCChHHHHHHHHHHH
Confidence            45678999999999999999999755

>KOG0446|consensus

Probab=96.90  E-value=0.00046  Score=63.77  Aligned_cols=66  Identities=15%  Similarity=0.175  Sum_probs=43.1

Q ss_pred             CeEEEeCCCC-------------cchHHHHHhhccCCCeEEEEEeCCCC--CCHHHHHHHHHHHhCCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGH-------------ESFSNLRNRGSSLCDIAILVVDIMHG--LEPQTIESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~-------------~~~~~~~~~~~~~ad~~i~v~d~~~~--~~~~~~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      .++++|+||.             ..+..+...++.....+++.+.+.+.  .+...+.........+...+-|++|.|+.
T Consensus       133 ~lTLvDlPG~tkvpv~dqp~di~~qI~~mi~~yi~~~~~iILav~~an~d~ats~alkiarevDp~g~RTigvitK~Dlm  212 (657)
T KOG0446|consen  133 NLTLVDLPGLTKVPVADQPDDIEEEIKSMIEEYIEKPNRIILAVTPANSDIATSPALVVAREVDPGGSRTLEVITKFDFM  212 (657)
T ss_pred             hhhhcCCCCCcccccCCCCccHHHHHHHHHHHhccccchhhhhccchhhhhhcCHHHHHHHhhCCCccchhHHhhhHHhh
Confidence            4899999992             12556677788888888888876541  11122333333334556778888888887


Q ss_pred             C
Q psy6316         160 Y  160 (259)
Q Consensus       160 ~  160 (259)
                      .
T Consensus       213 d  213 (657)
T KOG0446|consen  213 D  213 (657)
T ss_pred             h
Confidence            4

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=96.88  E-value=0.00078  Score=43.46  Aligned_cols=21  Identities=24%  Similarity=0.509  Sum_probs=18.9

Q ss_pred             EEEEeeCCCChhHHHhHHhcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+++|.+|+||||+.+.|...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999644

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>PRK08118 topology modulation protein; Reviewed

Probab=96.83  E-value=0.00082  Score=51.51  Aligned_cols=22  Identities=18%  Similarity=0.409  Sum_probs=19.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +|+|+|++|+|||||...|...
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~   24 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEK   24 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4999999999999999999654

>KOG3347|consensus

Probab=96.83  E-value=0.00078  Score=49.74  Aligned_cols=24  Identities=25%  Similarity=0.393  Sum_probs=21.7

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHh
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~   45 (259)
                      +.-|+|+|.|.||+|||||..+|.
T Consensus         5 r~~PNILvtGTPG~GKstl~~~la   28 (176)
T KOG3347|consen    5 RERPNILVTGTPGTGKSTLAERLA   28 (176)
T ss_pred             hcCCCEEEeCCCCCCchhHHHHHH
Confidence            446889999999999999999996

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=96.82  E-value=0.0075  Score=48.07  Aligned_cols=64  Identities=8%  Similarity=-0.075  Sum_probs=36.7

Q ss_pred             CCeEEEeCCCCcchHHHHHhh--ccCCCeEEEEEeCCCCCCHHHHHHHHHHHhC----CCC-EEEEEecccc
Q psy6316          94 PGLLIIDTPGHESFSNLRNRG--SSLCDIAILVVDIMHGLEPQTIESINILKSK----KTP-FVVALNKIDR  158 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~~~--~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~----~~p-iivv~NK~D~  158 (259)
                      .+++++||+|........ ..  .+.+|.+++++.++......-...++.+++.    +.+ ..++.||++.
T Consensus       117 yD~ilID~~g~~~~~~~~-~~l~~~~ad~vliv~~p~~~sl~~~~~l~~~i~~~~~~~~~~~~gvv~N~~~~  187 (212)
T cd02117         117 LDVVLYDVLGDVVCGGFA-MPIREGKADEIYIVTSGEFMALYAANNICKGIRKYAKSGGVRLGGLICNSRNT  187 (212)
T ss_pred             CCEEEEecCCCceecccc-cccccccCcEEEEEecccHHHHHHHHHHHHHHHHhCcccCCcEEEEEEeCCCC
Confidence            469999998854221111 11  2479999999987542221122333334432    333 3489999985

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PRK14530 adenylate kinase; Provisional

Probab=96.81  E-value=0.0009  Score=53.52  Aligned_cols=25  Identities=20%  Similarity=0.260  Sum_probs=21.2

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +.++|+|+|.||+||||+.+.|...
T Consensus         2 ~~~~I~i~G~pGsGKsT~~~~La~~   26 (215)
T PRK14530          2 SQPRILLLGAPGAGKGTQSSNLAEE   26 (215)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            3457999999999999999999643

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=96.79  E-value=0.004  Score=47.18  Aligned_cols=25  Identities=32%  Similarity=0.543  Sum_probs=21.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      +.++|+|..|+|||||+.+|...-.
T Consensus         3 ~Il~ivG~k~SGKTTLie~lv~~L~   27 (161)
T COG1763           3 KILGIVGYKNSGKTTLIEKLVRKLK   27 (161)
T ss_pred             cEEEEEecCCCChhhHHHHHHHHHH
Confidence            4699999999999999999965543

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=96.77  E-value=0.001  Score=49.25  Aligned_cols=21  Identities=19%  Similarity=0.472  Sum_probs=19.0

Q ss_pred             EEEEeeCCCChhHHHhHHhcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+++|.+|+||||++..|...
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~   22 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKR   22 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            889999999999999999643

...

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.76  E-value=0.0021  Score=50.15  Aligned_cols=24  Identities=17%  Similarity=0.293  Sum_probs=21.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..-|+++|++|+|||||+++|+..
T Consensus         4 ~~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          4 PKLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhc
Confidence            345999999999999999999765

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.75  E-value=0.0012  Score=49.08  Aligned_cols=25  Identities=32%  Similarity=0.469  Sum_probs=21.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      |.|+|+|+.|+|||||+..|+..-.
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~   25 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELK   25 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4699999999999999999976543

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=96.75  E-value=0.0032  Score=55.11  Aligned_cols=65  Identities=23%  Similarity=0.261  Sum_probs=48.2

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCC--------CCH---HHHHHHHHHHh----CCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG--------LEP---QTIESINILKS----KKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~--------~~~---~~~~~l~~~~~----~~~piivv~NK~D~~  159 (259)
                      .+.++|++|+...++.|..++..++++|||++.++-        ...   ..+..+..+-.    .+.|+|+++||.|+.
T Consensus       237 ~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~D~f  316 (389)
T PF00503_consen  237 KFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTPIILFLNKIDLF  316 (389)
T ss_dssp             EEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-HHHH
T ss_pred             ccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCceEEeeecHHHH
Confidence            389999999999999999999999999999997531        111   12333333322    368999999999987

G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=96.75  E-value=0.00092  Score=56.66  Aligned_cols=23  Identities=26%  Similarity=0.459  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      -++++|++|||||||++.+.|-.
T Consensus        31 f~vllGPSGcGKSTlLr~IAGLe   53 (338)
T COG3839          31 FVVLLGPSGCGKSTLLRMIAGLE   53 (338)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            39999999999999999997654

>KOG0705|consensus

Probab=96.73  E-value=0.00096  Score=59.05  Aligned_cols=150  Identities=13%  Similarity=0.075  Sum_probs=83.1

Q ss_pred             CcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeE
Q psy6316          18 DENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLL   97 (259)
Q Consensus        18 ~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (259)
                      ..++||   ++|+|..++|||+|+.+.+...+.+.+.+.-+             +.....+..          .+..-+.
T Consensus        27 sipelk---~givg~~~sgktalvhr~ltgty~~~e~~e~~-------------~~kkE~vv~----------gqs~lLl   80 (749)
T KOG0705|consen   27 SIPELK---LGIVGTSQSGKTALVHRYLTGTYTQDESPEGG-------------RFKKEVVVD----------GQSHLLL   80 (749)
T ss_pred             ccchhh---eeeeecccCCceeeeeeeccceeccccCCcCc-------------cceeeEEee----------ccceEee
Confidence            345677   99999999999999999876665433221111             111111100          0001166


Q ss_pred             EEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHH-----hCCCCEEEEEecccccCcccccchhhHHH
Q psy6316          98 IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILK-----SKKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus        98 liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~-----~~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      +.|-+|+.+     ..+...+|++|||+...+..+++....+..-.     ...+|++++.++.-......  ....-.+
T Consensus        81 irdeg~~~~-----aQft~wvdavIfvf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~--rv~~da~  153 (749)
T KOG0705|consen   81 IRDEGGHPD-----AQFCQWVDAVVFVFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAKRP--RVITDDR  153 (749)
T ss_pred             eecccCCch-----hhhhhhccceEEEEEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhhcccc--cccchHH
Confidence            777777432     35667889999999988877777766543221     23466666666532221110  0111111


Q ss_pred             HHhhhhccccccccccccccCcceeEEe
Q psy6316         173 IIKSQESSVQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       173 ~~~~~~~~~~~~~i~~Sa~~g~gv~~~l  200 (259)
                      ..........+.++..+|..|.++...+
T Consensus       154 ~r~l~~~~krcsy~et~atyGlnv~rvf  181 (749)
T KOG0705|consen  154 ARQLSAQMKRCSYYETCATYGLNVERVF  181 (749)
T ss_pred             HHHHHHhcCccceeecchhhhhhHHHHH
Confidence            1222233335677788888888886533

>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins

Probab=96.72  E-value=0.01  Score=47.44  Aligned_cols=63  Identities=14%  Similarity=0.269  Sum_probs=39.5

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHH---HHHHHHHHH---hCCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQ---TIESINILK---SKKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~---~~~~l~~~~---~~~~piivv~NK~D~~  159 (259)
                      +|+|+||+|...  ......+..+|.+|+-+-.+...-..   ...++..+.   ...+|..|++|++.-.
T Consensus        85 d~VlvDleG~as--~~~~~aia~sDlVlIP~~~s~lD~~eA~~t~~~v~~~~~~~~~~ip~~Vl~Tr~~~~  153 (231)
T PF07015_consen   85 DFVLVDLEGGAS--ELNDYAIARSDLVLIPMQPSQLDADEAAKTFKWVRRLEKAERRDIPAAVLFTRVPAA  153 (231)
T ss_pred             CEEEEeCCCCCc--hhHHHHHHHCCEEEECCCCChHHHHHHHHHHHHHHHHHHhhCCCCCeeEEEecCCcc
Confidence            489999999653  23445567899988877654321111   122333332   2468999999999843

In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=96.70  E-value=0.0011  Score=51.31  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|+|||||++.|.+-.
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            59999999999999999998753

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.69  E-value=0.0012  Score=51.46  Aligned_cols=22  Identities=27%  Similarity=0.631  Sum_probs=19.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .|+++|++|+|||||++.|.+.
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5999999999999999999654

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.68  E-value=0.0013  Score=52.49  Aligned_cols=21  Identities=29%  Similarity=0.616  Sum_probs=19.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .|+++|++|||||||++.|.+
T Consensus        32 ~VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638          32 MVAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            399999999999999999976

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.67  E-value=0.0013  Score=46.22  Aligned_cols=20  Identities=30%  Similarity=0.312  Sum_probs=18.7

Q ss_pred             EEEEEeeCCCChhHHHhHHh
Q psy6316          26 IVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~   45 (259)
                      .++++|++|+|||||++.+.
T Consensus        17 ~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          17 GVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEcCCCCCHHHHHHHhh
Confidence            49999999999999999985

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>PLN02200 adenylate kinase family protein

Probab=96.67  E-value=0.0016  Score=52.74  Aligned_cols=38  Identities=24%  Similarity=0.230  Sum_probs=27.7

Q ss_pred             hhhhhcCCCCcccccccEEEEEeeCCCChhHHHhHHhc
Q psy6316           9 REKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus         9 ~~~~~~~~~~~~~~r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..++++.+.+.+..++..|+++|.||+||||+...|..
T Consensus        28 ~~~~~~~~~~~~~~~~~ii~I~G~PGSGKsT~a~~La~   65 (234)
T PLN02200         28 IITLEERGSSSKEKTPFITFVLGGPGSGKGTQCEKIVE   65 (234)
T ss_pred             ccccccccCCccCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34455555555434456789999999999999999964

>KOG1424|consensus

Probab=96.66  E-value=0.0031  Score=55.52  Aligned_cols=72  Identities=19%  Similarity=0.057  Sum_probs=52.4

Q ss_pred             hccCCCeEEEEEeCCCCCCHHHHHHHHHHHhC--CCCEEEEEecccccCcccccchhhHHHHHhhhhccccccccccccc
Q psy6316         114 GSSLCDIAILVVDIMHGLEPQTIESINILKSK--KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESAR  191 (259)
Q Consensus       114 ~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~--~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~  191 (259)
                      .+..+|++|.++|+.++.....-.+-..+++.  ++..++++||+|++.       .+.......+....++++++.||.
T Consensus       171 VlErSDivvqIVDARnPllfr~~dLe~Yvke~d~~K~~~LLvNKaDLl~-------~~qr~aWa~YF~~~ni~~vf~SA~  243 (562)
T KOG1424|consen  171 VLERSDIVVQIVDARNPLLFRSPDLEDYVKEVDPSKANVLLVNKADLLP-------PEQRVAWAEYFRQNNIPVVFFSAL  243 (562)
T ss_pred             HHhhcceEEEEeecCCccccCChhHHHHHhccccccceEEEEehhhcCC-------HHHHHHHHHHHHhcCceEEEEecc
Confidence            45779999999999998665555555555553  477899999999983       334444555555556888899998


Q ss_pred             c
Q psy6316         192 K  192 (259)
Q Consensus       192 ~  192 (259)
                      .
T Consensus       244 ~  244 (562)
T KOG1424|consen  244 A  244 (562)
T ss_pred             c
Confidence            6

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.65  E-value=0.0013  Score=52.28  Aligned_cols=23  Identities=26%  Similarity=0.400  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|+|||||++.|.+..
T Consensus        29 ~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          29 FVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999998763

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.65  E-value=0.00099  Score=50.75  Aligned_cols=22  Identities=27%  Similarity=0.483  Sum_probs=17.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +|+|+|.+++|||||++.|...
T Consensus         1 rI~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    1 RIVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             -EEEE--TTSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHc
Confidence            4999999999999999999755

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.63  E-value=0.0014  Score=51.17  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=20.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..++++|++|+|||||++.|++.
T Consensus        26 ~~i~I~G~tGSGKTTll~aL~~~   48 (186)
T cd01130          26 KNILISGGTGSGKTTLLNALLAF   48 (186)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            46999999999999999999765

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=96.62  E-value=0.0014  Score=51.20  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|+|||||++.|.+..
T Consensus        20 ~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        20 VLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            59999999999999999998753

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.62  E-value=0.0015  Score=51.41  Aligned_cols=23  Identities=26%  Similarity=0.517  Sum_probs=19.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      -.++++|++|+|||||++.|.+-
T Consensus        29 evv~iiGpSGSGKSTlLRclN~L   51 (240)
T COG1126          29 EVVVIIGPSGSGKSTLLRCLNGL   51 (240)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
Confidence            35999999999999999999544

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.62  E-value=0.0014  Score=53.08  Aligned_cols=23  Identities=22%  Similarity=0.430  Sum_probs=20.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|+|||||++.|.+..
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          28 ILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            59999999999999999998764

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.62  E-value=0.0015  Score=52.02  Aligned_cols=25  Identities=20%  Similarity=0.417  Sum_probs=21.8

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +...|+|.|.+|+|||||++.|.+.
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            3557999999999999999999764

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=96.61  E-value=0.0015  Score=52.31  Aligned_cols=23  Identities=26%  Similarity=0.538  Sum_probs=21.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|+|||||++.|.+..
T Consensus        32 ~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          32 FVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCc
Confidence            59999999999999999998763

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=96.61  E-value=0.0015  Score=52.44  Aligned_cols=23  Identities=30%  Similarity=0.362  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|+|||||++.|.|..
T Consensus        28 ~~~i~G~nGsGKSTLl~~i~G~~   50 (220)
T cd03265          28 IFGLLGPNGAGKTTTIKMLTTLL   50 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999998763

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.61  E-value=0.0039  Score=46.86  Aligned_cols=23  Identities=26%  Similarity=0.358  Sum_probs=20.1

Q ss_pred             EEEEeeCCCChhHHHhHHhcccc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ++|.|++|+|||+++..++....
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~   24 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIA   24 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHH
Confidence            78999999999999999976543

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=96.61  E-value=0.0015  Score=52.26  Aligned_cols=24  Identities=25%  Similarity=0.497  Sum_probs=21.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      -.++++|++|+|||||++.|.+..
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        30 EMVFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            359999999999999999998753

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.60  E-value=0.0016  Score=50.66  Aligned_cols=23  Identities=22%  Similarity=0.418  Sum_probs=20.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      .+.|+++|.+|+||||+++.|..
T Consensus         3 ~~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         3 CKIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999973

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=96.60  E-value=0.0016  Score=47.09  Aligned_cols=21  Identities=29%  Similarity=0.427  Sum_probs=19.1

Q ss_pred             EEEEeeCCCChhHHHhHHhcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+|.|.+|+||||+++.|...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999654

...

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.59  E-value=0.0015  Score=48.33  Aligned_cols=21  Identities=24%  Similarity=0.491  Sum_probs=19.4

Q ss_pred             EEEEeeCCCChhHHHhHHhcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+++|++|+|||||++.|...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            789999999999999999764

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.58  E-value=0.0016  Score=51.65  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=20.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|+|||||++.|.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          28 IIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            59999999999999999998753

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=96.57  E-value=0.0015  Score=52.07  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=21.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..++++|++|+|||||++.|.+-
T Consensus        26 g~~~i~G~nGsGKSTLl~~l~Gl   48 (211)
T cd03264          26 GMYGLLGPNGAGKTTLMRILATL   48 (211)
T ss_pred             CcEEEECCCCCCHHHHHHHHhCC
Confidence            36999999999999999999875

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PTZ00301 uridine kinase; Provisional

Probab=96.57  E-value=0.0017  Score=51.69  Aligned_cols=25  Identities=16%  Similarity=0.396  Sum_probs=21.1

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      |+...|+|.|.+|+|||||.+.|..
T Consensus         1 ~~~~iIgIaG~SgSGKTTla~~l~~   25 (210)
T PTZ00301          1 MPCTVIGISGASGSGKSSLSTNIVS   25 (210)
T ss_pred             CCCEEEEEECCCcCCHHHHHHHHHH
Confidence            4456799999999999999988753

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.57  E-value=0.0016  Score=50.35  Aligned_cols=22  Identities=32%  Similarity=0.573  Sum_probs=19.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .|+|+|++|||||||++.|...
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999999664

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=96.56  E-value=0.0017  Score=50.26  Aligned_cols=21  Identities=24%  Similarity=0.390  Sum_probs=19.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .++++|++|+|||||++.++.
T Consensus        23 ~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          23 LVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHhh
Confidence            499999999999999998863

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=96.55  E-value=0.0017  Score=51.61  Aligned_cols=23  Identities=26%  Similarity=0.306  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|+|||||++.|.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (210)
T cd03269          28 IFGLLGPNGAGKTTTIRMILGII   50 (210)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999998763

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=96.55  E-value=0.0017  Score=51.73  Aligned_cols=23  Identities=26%  Similarity=0.447  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|+|||||++.|.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259          28 FLALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            49999999999999999998753

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	259
1g7r_A	594	X-Ray Structure Of Translation Initiation Factor If		1e-33
1g7s_A	594	X-Ray Structure Of Translation Initiation Factor If		1e-33
2lkc_A	178	Free B.St If2-G2 Length = 178		7e-23
3izy_P	537	Mammalian Mitochondrial Translation Initiation Fact		4e-21
1zo1_I	501	If2, If1, And Trna Fitted To Cryo-Em Data Of E. Col		1e-18
3tr5_A	528	Structure Of A Peptide Chain Release Factor 3 (Prfc		1e-06
3vqt_A	548	Crystal Structure Analysis Of The Translation Facto		2e-06
3uoq_W	534	Crystal Structure Of Release Factor Rf3 Trapped In		9e-06
2h5e_A	529	Crystal Structure Of E.Coli Polypeptide Release Fac		9e-06
1eft_A	405	The Crystal Structure Of Elongation Factor Ef-Tu Fr		2e-05
4abr_Z	405	Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kir		2e-05
2y0u_Z	405	The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bou		2e-05
2c77_A	405	Ef-Tu Complexed With A Gtp Analog And The Antibioti		2e-05
1ttt_A	405	Phe-Trna, Elongation Factor Ef-Tu:gdpnp Ternary Com		2e-05
1exm_A	405	Crystal Structure Of Thermus Thermophilus Elongatio		2e-05
2c78_A	405	Ef-Tu Complexed With A Gtp Analog And The Antibioti		2e-05
1zun_B	434	Crystal Structure Of A Gtp-Regulated Atp Sulfurylas		2e-05
2wrn_Z	406	The Crystal Structure Of The 70s Ribosome Bound To		2e-05
2y0y_Z	405	The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bo		2e-05
1aip_A	405	Ef-Tu Ef-Ts Complex From Thermus Thermophilus Lengt		2e-05
2ywe_A	600	Crystal Structure Of Lepa From Aquifex Aeolicus Len		4e-05
3cb4_D	599	The Crystal Structure Of Lepa Length = 599		6e-05
3deg_C	545	Complex Of Elongating Escherichia Coli 70s Ribosome		6e-05
2ywg_A	600	Crystal Structure Of Gtp-Bound Lepa From Aquifex Ae		7e-05
3agp_A	1289	Structure Of Viral Polymerase Form I Length = 1289		1e-04
1efm_A	379	Structure Of The Gdp Domain Of Ef-Tu And Location O		2e-04
2xex_A	693	Crystal Structure Of Staphylococcus Aureus Elongati		2e-04
3zz0_A	693	Crystal Structure Of Ribosomal Elongation Factor (E		2e-04
1ob2_A	393	E. Coli Elongation Factor Ef-Tu Complexed With The		2e-04
1efc_A	393	Intact Elongation Factor From E.Coli Length = 393		2e-04
1dg1_G	394	Whole, Unmodified, Ef-Tu(Elongation Factor Tu). Len		2e-04
3j25_A	638	Structural Basis For Tetm-Mediated Tetracycline Res		2e-04
3mmp_A	678	Structure Of The Qb Replicase, An Rna-Dependent Rna		2e-04
3u6b_A	394	Ef-Tu (Escherichia Coli) In Complex With Nvp-Ldi028		2e-04
1d8t_A	393	Crystal Structure Of Elongation Factor, Tu (Ef-Tu-M		2e-04
1efu_A	385	Elongation Factor Complex Ef-TuEF-Ts From Escherich		2e-04

>pdb|1G7R|A Chain A, X-Ray Structure Of Translation Initiation Factor If2EIF5B Length = 594

Iteration: 1
 Score =  140 bits (352), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 73/161 (45%), Positives = 93/161 (57%), Gaps = 5/161 (3%)
Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRXX 81
           +R+ IV VLGHVD GKT +LD +R + V   EAGGITQ IGAT +P D I          
Sbjct: 3   IRSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPXDVIEGICGDF--- 59
Query: 82  XXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
                             DTPGHE+F+ LR RG +L D+AIL+VDI  G +PQT E++NI
Sbjct: 60  --LKKFSIRETLPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNI 117
Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
           L+  +TPFVVA NKIDR++ W     R   +    Q+  VQ
Sbjct: 118 LRXYRTPFVVAANKIDRIHGWRVHEGRPFXETFSKQDIQVQ 158

>pdb|1G7S|A Chain A, X-Ray Structure Of Translation Initiation Factor If2EIF5B Complexed With Gdp Length = 594

Iteration: 1
 Score =  139 bits (350), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 73/161 (45%), Positives = 93/161 (57%), Gaps = 5/161 (3%)
Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRXX 81
           +R+ IV VLGHVD GKT +LD +R + V   EAGGITQ IGAT +P D I          
Sbjct: 3   IRSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDF--- 59
Query: 82  XXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
                             DTPGHE+F+ LR RG +L D+AIL+VDI  G +PQT E++NI
Sbjct: 60  --LKKFSIRETLPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNI 117
Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
           L+  +TPFVVA NKIDR++ W     R   +    Q+  VQ
Sbjct: 118 LRMYRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQ 158

>pdb|2LKC|A Chain A, Free B.St If2-G2 Length = 178

Iteration: 1
 Score =  103 bits (258), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 56/136 (41%), Positives = 77/136 (56%), Gaps = 23/136 (16%)
Query: 23  RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRXXX 82
           R  +V ++GHVD GKT +LD +R + V + EAGGITQ IGA  V       N K +    
Sbjct: 7   RPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTV-----NDKKI---- 57
Query: 83  XXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL 142
                            DTPGHE+F+ +R RG+ + DI ILVV    G+ PQT+E+IN  
Sbjct: 58  --------------TFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTVEAINHA 103
Query: 143 KSKKTPFVVALNKIDR 158
           K+   P +VA+NK+D+
Sbjct: 104 KAANVPIIVAINKMDK 119

>pdb|3IZY|P Chain P, Mammalian Mitochondrial Translation Initiation Factor 2 Length = 537

Iteration: 1
 Score = 98.2 bits (243), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 57/136 (41%), Positives = 74/136 (54%), Gaps = 22/136 (16%)
Query: 23  RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRXXX 82
           R+ +V ++GHVD GKT +LDKLR+T V   EAGGITQ IGA  V   +  + T       
Sbjct: 3   RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPSGEKIT------- 55
Query: 83  XXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL 142
                            DTPGH +FS +R RG+ + DI ILVV    G+  QT+ESI   
Sbjct: 56  ---------------FLDTPGHAAFSAMRARGTQVTDIVILVVAADDGVMKQTVESIQHA 100
Query: 143 KSKKTPFVVALNKIDR 158
           K    P V+A+NK D+
Sbjct: 101 KDAHVPIVLAINKCDK 116

>pdb|1ZO1|I Chain I, If2, If1, And Trna Fitted To Cryo-Em Data Of E. Coli 70s Initiation Complex Length = 501

Iteration: 1
 Score = 89.7 bits (221), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 56/136 (41%), Positives = 76/136 (55%), Gaps = 23/136 (16%)
Query: 23  RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRXXX 82
           RA +V ++GHVD GKT +L+ +R T V  GEAGGITQ IGA +V  +             
Sbjct: 3   RAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETE------------- 49
Query: 83  XXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL 142
                            DTPGH +F+++R RG+   DI +LVV    G+ PQTIE+I   
Sbjct: 50  ----------NGMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQHA 99
Query: 143 KSKKTPFVVALNKIDR 158
           K+ + P VVA+NKID+
Sbjct: 100 KAAQVPVVVAVNKIDK 115

>pdb|3TR5|A Chain A, Structure Of A Peptide Chain Release Factor 3 (Prfc) From Coxiella Burnetii Length = 528

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 37/131 (28%), Positives = 55/131 (41%), Gaps = 1/131 (0%)
Query: 28  CVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRXXXXXXXX 87
            ++ H D GKT + +KL         AG I  +  A +  +D   E  K           
Sbjct: 17  AIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSD-WXELEKQRGISVTTSVX 75
Query: 88  XXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKT 147
                       DTPGH  F+    R  +  D A+ V+D   G+EP+TI+   + + + T
Sbjct: 76  QFPYKDYLINLLDTPGHADFTEDTYRTLTAVDSALXVIDAAKGVEPRTIKLXEVCRLRHT 135
Query: 148 PFVVALNKIDR 158
           P    +NK DR
Sbjct: 136 PIXTFINKXDR 146

>pdb|3VQT|A Chain A, Crystal Structure Analysis Of The Translation Factor Rf3 Length = 548

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 36/134 (26%), Positives = 60/134 (44%), Gaps = 7/134 (5%)
Query: 28  CVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAI---RENTKHVRXXXXX 84
            ++ H D GKT + +KL         AG +  +  A +  +D +   RE    V      
Sbjct: 35  AIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISV----TT 90
Query: 85  XXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKS 144
                          DTPGH+ FS    R  +  D A++V+D   G+E QT + +++ + 
Sbjct: 91  SVMQFPYRDRVVNLLDTPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDVCRM 150
Query: 145 KKTPFVVALNKIDR 158
           + TP +  +NK+DR
Sbjct: 151 RATPVMTFVNKMDR 164

>pdb|3UOQ|W Chain W, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp State On A Rotated Conformation Of The Ribosome (Without Viomycin) Length = 534

Iteration: 1
 Score = 47.4 bits (111), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 21/59 (35%), Positives = 35/59 (59%)
Query: 100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDR 158
           DTPGHE FS    R  +  D  ++V+D   G+E +T + + + + + TP +  +NK+DR
Sbjct: 88  DTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTRLRDTPILTFMNKLDR 146

>pdb|2H5E|A Chain A, Crystal Structure Of E.Coli Polypeptide Release Factor Rf3 Length = 529

Iteration: 1
 Score = 47.4 bits (111), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 21/59 (35%), Positives = 35/59 (59%)
Query: 100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDR 158
           DTPGHE FS    R  +  D  ++V+D   G+E +T + + + + + TP +  +NK+DR
Sbjct: 88  DTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTRLRDTPILTFMNKLDR 146

>pdb|1EFT|A Chain A, The Crystal Structure Of Elongation Factor Ef-Tu From Thermus Aquaticus In The Gtp Conformation Length = 405

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 46/161 (28%), Positives = 67/161 (41%), Gaps = 21/161 (13%)
Query: 27  VCVLGHVDTGKTKILDKL------RRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRX 80
           V  +GHVD GKT +   L         NV+  + G I +   A    A  I  NT HV  
Sbjct: 14  VGTIGHVDHGKTTLTAALTFVTAAENPNVEVKDYGDIDK---APEERARGITINTAHVEY 70
Query: 81  XXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN 140
                              D PGH  +      G++  D AILVV    G  PQT E I 
Sbjct: 71  ETAKRHYSHV---------DCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHIL 121
Query: 141 ILKSKKTPFVVA-LNKIDRLYNWNTMN--RRDVRDIIKSQE 178
           + +    P++V  +NK+D + +   ++    +VRD++   E
Sbjct: 122 LARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYE 162

>pdb|4ABR|Z Chain Z, Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kirromycin With The 70s Ribosome Length = 405

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 46/161 (28%), Positives = 67/161 (41%), Gaps = 21/161 (13%)
Query: 27  VCVLGHVDTGKTKILDKL------RRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRX 80
           V  +GHVD GKT +   L         NV+  + G I +   A    A  I  NT HV  
Sbjct: 14  VGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDK---APEERARGITINTAHVEY 70
Query: 81  XXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN 140
                              D PGH  +      G++  D AILVV    G  PQT E I 
Sbjct: 71  ETAKRHYSHV---------DCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHIL 121
Query: 141 ILKSKKTPFVVA-LNKIDRLYNWNTMN--RRDVRDIIKSQE 178
           + +    P++V  +NK+D + +   ++    +VRD++   E
Sbjct: 122 LARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYE 162

>pdb|2Y0U|Z Chain Z, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A Near-Cognate Codon On The 70s Ribosome Length = 405

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 46/161 (28%), Positives = 67/161 (41%), Gaps = 21/161 (13%)
Query: 27  VCVLGHVDTGKTKILDKL------RRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRX 80
           V  +GHVD GKT +   L         NV+  + G I +   A    A  I  NT HV  
Sbjct: 14  VGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDK---APEERARGITINTAHVEY 70
Query: 81  XXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN 140
                              D PGH  +      G++  D AILVV    G  PQT E I 
Sbjct: 71  ETAKRHYSHV---------DCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHIL 121
Query: 141 ILKSKKTPFVVA-LNKIDRLYNWNTMN--RRDVRDIIKSQE 178
           + +    P++V  +NK+D + +   ++    +VRD++   E
Sbjct: 122 LARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYE 162

>pdb|2C77|A Chain A, Ef-Tu Complexed With A Gtp Analog And The Antibiotic Ge2270 A Length = 405

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 46/161 (28%), Positives = 67/161 (41%), Gaps = 21/161 (13%)
Query: 27  VCVLGHVDTGKTKILDKL------RRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRX 80
           V  +GHVD GKT +   L         NV+  + G I +   A    A  I  NT HV  
Sbjct: 14  VGTIGHVDHGKTTLTAALTYVTAAENPNVEVKDYGDIDK---APEERARGITINTAHVEY 70
Query: 81  XXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN 140
                              D PGH  +      G++  D AILVV    G  PQT E I 
Sbjct: 71  ETAKRHYSHV---------DCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHIL 121
Query: 141 ILKSKKTPFVVA-LNKIDRLYNWNTMN--RRDVRDIIKSQE 178
           + +    P++V  +NK+D + +   ++    +VRD++   E
Sbjct: 122 LARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYE 162

>pdb|1TTT|A Chain A, Phe-Trna, Elongation Factor Ef-Tu:gdpnp Ternary Complex Length = 405

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 46/161 (28%), Positives = 67/161 (41%), Gaps = 21/161 (13%)
Query: 27  VCVLGHVDTGKTKILDKL------RRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRX 80
           V  +GHVD GKT +   L         NV+  + G I +   A    A  I  NT HV  
Sbjct: 14  VGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDK---APEERARGITINTAHVEY 70
Query: 81  XXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN 140
                              D PGH  +      G++  D AILVV    G  PQT E I 
Sbjct: 71  ETAKRHYSHV---------DCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHIL 121
Query: 141 ILKSKKTPFVVA-LNKIDRLYNWNTMN--RRDVRDIIKSQE 178
           + +    P++V  +NK+D + +   ++    +VRD++   E
Sbjct: 122 LARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYE 162

>pdb|1EXM|A Chain A, Crystal Structure Of Thermus Thermophilus Elongation Factor Tu (Ef-Tu) In Complex With The Gtp Analogue Gppnhp. Length = 405

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 46/161 (28%), Positives = 67/161 (41%), Gaps = 21/161 (13%)
Query: 27  VCVLGHVDTGKTKILDKL------RRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRX 80
           V  +GHVD GKT +   L         NV+  + G I +   A    A  I  NT HV  
Sbjct: 14  VGTIGHVDHGKTTLTAALTFVTAAENPNVEVKDYGDIDK---APEERARGITINTAHVEY 70
Query: 81  XXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN 140
                              D PGH  +      G++  D AILVV    G  PQT E I 
Sbjct: 71  ETAKRHYSHV---------DCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHIL 121
Query: 141 ILKSKKTPFVVA-LNKIDRLYNWNTMN--RRDVRDIIKSQE 178
           + +    P++V  +NK+D + +   ++    +VRD++   E
Sbjct: 122 LARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYE 162

>pdb|2C78|A Chain A, Ef-Tu Complexed With A Gtp Analog And The Antibiotic Pulvomycin Length = 405

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 46/161 (28%), Positives = 67/161 (41%), Gaps = 21/161 (13%)
Query: 27  VCVLGHVDTGKTKILDKL------RRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRX 80
           V  +GHVD GKT +   L         NV+  + G I +   A    A  I  NT HV  
Sbjct: 14  VGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDK---APEERARGITINTAHVEY 70
Query: 81  XXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN 140
                              D PGH  +      G++  D AILVV    G  PQT E I 
Sbjct: 71  ETAKRHYSHV---------DCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHIL 121
Query: 141 ILKSKKTPFVVA-LNKIDRLYNWNTMN--RRDVRDIIKSQE 178
           + +    P++V  +NK+D + +   ++    +VRD++   E
Sbjct: 122 LARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYE 162

>pdb|1ZUN|B Chain B, Crystal Structure Of A Gtp-Regulated Atp Sulfurylase Heterodimer From Pseudomonas Syringae Length = 434

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 26/63 (41%), Positives = 38/63 (60%), Gaps = 9/63 (14%)
Query: 100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-----IESINILKSKKTPFVVALN 154
           DTPGHE ++     G+S CD+AI++VD  +G++ QT     I S+  +K      VVA+N
Sbjct: 110 DTPGHEQYTRNXATGASTCDLAIILVDARYGVQTQTRRHSYIASLLGIKH----IVVAIN 165
Query: 155 KID 157
           K D
Sbjct: 166 KXD 168

>pdb|2WRN|Z Chain Z, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu And Trna (Part 1 Of 4). Length = 406

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 46/161 (28%), Positives = 67/161 (41%), Gaps = 21/161 (13%)
Query: 27  VCVLGHVDTGKTKILDKL------RRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRX 80
           V  +GHVD GKT +   L         NV+  + G I +   A    A  I  NT HV  
Sbjct: 15  VGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDK---APEERARGITINTAHVEY 71
Query: 81  XXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN 140
                              D PGH  +      G++  D AILVV    G  PQT E I 
Sbjct: 72  ETAKRHYSHV---------DCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHIL 122
Query: 141 ILKSKKTPFVVA-LNKIDRLYNWNTMN--RRDVRDIIKSQE 178
           + +    P++V  +NK+D + +   ++    +VRD++   E
Sbjct: 123 LARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYE 163

>pdb|2Y0Y|Z Chain Z, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To A Near-Cognate Codon On The 70s Ribosome Length = 405

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 46/161 (28%), Positives = 67/161 (41%), Gaps = 21/161 (13%)
Query: 27  VCVLGHVDTGKTKILDKL------RRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRX 80
           V  +GHVD GKT +   L         NV+  + G I +   A    A  I  NT HV  
Sbjct: 14  VGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDK---APEERARGITINTAHVEY 70
Query: 81  XXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN 140
                              D PGH  +      G++  D AILVV    G  PQT E I 
Sbjct: 71  ETAKRHYSHV---------DCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHIL 121
Query: 141 ILKSKKTPFVVA-LNKIDRLYNWNTMN--RRDVRDIIKSQE 178
           + +    P++V  +NK+D + +   ++    +VRD++   E
Sbjct: 122 LARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYE 162

>pdb|1AIP|A Chain A, Ef-Tu Ef-Ts Complex From Thermus Thermophilus Length = 405

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 46/161 (28%), Positives = 67/161 (41%), Gaps = 21/161 (13%)
Query: 27  VCVLGHVDTGKTKILDKL------RRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRX 80
           V  +GHVD GKT +   L         NV+  + G I +   A    A  I  NT HV  
Sbjct: 14  VGTIGHVDHGKTTLTAALTYVTAAENPNVEVKDYGDIDK---APEERARGITINTAHVEY 70
Query: 81  XXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN 140
                              D PGH  +      G++  D AILVV    G  PQT E I 
Sbjct: 71  ETAKRHYSHV---------DCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHIL 121
Query: 141 ILKSKKTPFVVA-LNKIDRLYNWNTMN--RRDVRDIIKSQE 178
           + +    P++V  +NK+D + +   ++    +VRD++   E
Sbjct: 122 LARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYE 162

>pdb|2YWE|A Chain A, Crystal Structure Of Lepa From Aquifex Aeolicus Length = 600

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 40/147 (27%), Positives = 63/147 (42%), Gaps = 37/147 (25%)
Query: 28  CVLGHVDTGKTKILDKL-----------RRTNVQDG----EAGGITQQIGATNVPADAIR 72
           C++ HVD GK+ + D+L           +R  + D        GIT ++ A  +   A  
Sbjct: 10  CIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKD 69
Query: 73  ENTKHVRXXXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLE 132
            NT  +                     DTPGH  FS   +R  + C+ A+L++D   G+E
Sbjct: 70  GNTYKLHLI------------------DTPGHVDFSYEVSRALAACEGALLLIDASQGIE 111
Query: 133 PQTIESINILKSKKTPFVV--ALNKID 157
            QT+   N  K+ +   V+   +NKID
Sbjct: 112 AQTVA--NFWKAVEQDLVIIPVINKID 136

>pdb|3CB4|D Chain D, The Crystal Structure Of Lepa Length = 599

Iteration: 1
 Score = 44.7 bits (104), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 24/58 (41%), Positives = 31/58 (53%)
Query: 100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKID 157
           DTPGH  FS   +R  + C+ A+LVVD   G+E QT+ +           V  LNKID
Sbjct: 77  DTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAMEMDLEVVPVLNKID 134

>pdb|3DEG|C Chain C, Complex Of Elongating Escherichia Coli 70s Ribosome And Ef4(Lepa)- Gmppnp Length = 545

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 24/58 (41%), Positives = 31/58 (53%)
Query: 100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKID 157
           DTPGH  FS   +R  + C+ A+LVVD   G+E QT+ +           V  LNKID
Sbjct: 77  DTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAMEMDLEVVPVLNKID 134

>pdb|2YWG|A Chain A, Crystal Structure Of Gtp-Bound Lepa From Aquifex Aeolicus Length = 600

Iteration: 1
 Score = 44.3 bits (103), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 38/133 (28%), Positives = 59/133 (44%), Gaps = 9/133 (6%)
Query: 28  CVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPAD-AIRENTKHVRXXXXXXX 86
           C++ HVD GK+ + D+L        E     Q +   +V  +  I    + VR       
Sbjct: 10  CIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKXQAVRXFYKAKD 69
Query: 87  XXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKK 146
                        DTPGH  FS   +R  + C+ A+L++D   G+E QT+   N  K+ +
Sbjct: 70  GNTYKLHLI----DTPGHVDFSYEVSRALAACEGALLLIDASQGIEAQTVA--NFWKAVE 123
Query: 147 TPFVV--ALNKID 157
              V+   +NKID
Sbjct: 124 QDLVIIPVINKID 136

>pdb|3AGP|A Chain A, Structure Of Viral Polymerase Form I Length = 1289

Iteration: 1
 Score = 43.9 bits (102), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 40/134 (29%), Positives = 51/134 (38%), Gaps = 12/134 (8%)
Query: 27  VCVLGHVDTGKTKILDKLRR--TNVQDGEAGGITQQIGATNVPADAIRENTKHVRXXXXX 84
           V  +GHVD GKT +   +         G A    Q   A    A  I  NT HV      
Sbjct: 299 VGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPT 358
Query: 85  XXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKS 144
                          D PGH  +      G++  D AILVV    G  PQT E I + + 
Sbjct: 359 RHYAHV---------DCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQ 409
Query: 145 KKTPFVVA-LNKID 157
              P+++  LNK D
Sbjct: 410 VGVPYIIVFLNKCD 423

>pdb|1EFM|A Chain A, Structure Of The Gdp Domain Of Ef-Tu And Location Of The Amino Acids Homologous To Ras Oncogene Proteins Length = 379

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 40/134 (29%), Positives = 54/134 (40%), Gaps = 26/134 (19%)
Query: 27  VCVLGHVDTGKTKILDKLRR--TNVQDGEAGGITQQIGATNVPADAIRENTKHVRXXXXX 84
           V  +GHVD GKT +   +         G A GIT  I  ++V  D    +  HV      
Sbjct: 14  VGTIGHVDHGKTTLTAAITTVLAKTYGGAARGIT--INTSHVEYDTPTRHYAHV------ 65
Query: 85  XXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKS 144
                          D PGH  +      G++  D AILVV    G  PQT E I + + 
Sbjct: 66  ---------------DCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQ 110
Query: 145 KKTPFVVA-LNKID 157
              P+++  LNK D
Sbjct: 111 VGVPYIIVFLNKCD 124

>pdb|2XEX|A Chain A, Crystal Structure Of Staphylococcus Aureus Elongation Factor G Length = 693

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/74 (33%), Positives = 39/74 (52%), Gaps = 5/74 (6%)
Query: 100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRL 159
           DTPGH  F+    R   + D A+ V+D   G+EPQT        +   P +V +NK+D+L
Sbjct: 81  DTPGHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQATTYGVPRIVFVNKMDKL 140
Query: 160 -----YNWNTMNRR 168
                Y+ +T++ R
Sbjct: 141 GANFEYSVSTLHDR 154

>pdb|3ZZ0|A Chain A, Crystal Structure Of Ribosomal Elongation Factor (Ef)-G From Staphylococcus Aureus With A Fusidic Acid Hyper-Sensitivity Mutation M16i Length = 693

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/74 (33%), Positives = 39/74 (52%), Gaps = 5/74 (6%)
Query: 100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRL 159
           DTPGH  F+    R   + D A+ V+D   G+EPQT        +   P +V +NK+D+L
Sbjct: 81  DTPGHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQATTYGVPRIVFVNKMDKL 140
Query: 160 -----YNWNTMNRR 168
                Y+ +T++ R
Sbjct: 141 GANFEYSVSTLHDR 154

>pdb|1OB2|A Chain A, E. Coli Elongation Factor Ef-Tu Complexed With The Antibiotic Kirromycin, A Gtp Analog, And Phe-Trna Length = 393

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 42/136 (30%), Positives = 54/136 (39%), Gaps = 16/136 (11%)
Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGAT-NVP---ADAIRENTKHVRXXX 82
           V  +GHVD GKT +   +  T V     GG  +      N P   A  I  NT HV    
Sbjct: 14  VGTIGHVDHGKTTLTAAI--TTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDT 71
Query: 83  XXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL 142
                            D PGH  +      G++  D AILVV    G  PQT E I + 
Sbjct: 72  PTRHYAHV---------DCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLG 122
Query: 143 KSKKTPFVVA-LNKID 157
           +    P+++  LNK D
Sbjct: 123 RQVGVPYIIVFLNKCD 138

>pdb|1EFC|A Chain A, Intact Elongation Factor From E.Coli Length = 393

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 42/136 (30%), Positives = 54/136 (39%), Gaps = 16/136 (11%)
Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGAT-NVP---ADAIRENTKHVRXXX 82
           V  +GHVD GKT +   +  T V     GG  +      N P   A  I  NT HV    
Sbjct: 14  VGTIGHVDHGKTTLTAAI--TTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDT 71
Query: 83  XXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL 142
                            D PGH  +      G++  D AILVV    G  PQT E I + 
Sbjct: 72  PTRHYAHV---------DCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLG 122
Query: 143 KSKKTPFVVA-LNKID 157
           +    P+++  LNK D
Sbjct: 123 RQVGVPYIIVFLNKCD 138

>pdb|1DG1|G Chain G, Whole, Unmodified, Ef-Tu(Elongation Factor Tu). Length = 394

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 42/136 (30%), Positives = 54/136 (39%), Gaps = 16/136 (11%)
Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGAT-NVP---ADAIRENTKHVRXXX 82
           V  +GHVD GKT +   +  T V     GG  +      N P   A  I  NT HV    
Sbjct: 15  VGTIGHVDHGKTTLTAAI--TTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDT 72
Query: 83  XXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL 142
                            D PGH  +      G++  D AILVV    G  PQT E I + 
Sbjct: 73  PTRHYAHV---------DCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLG 123
Query: 143 KSKKTPFVVA-LNKID 157
           +    P+++  LNK D
Sbjct: 124 RQVGVPYIIVFLNKCD 139

>pdb|3J25|A Chain A, Structural Basis For Tetm-Mediated Tetracycline Resistance Length = 638

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 42/150 (28%), Positives = 57/150 (38%), Gaps = 41/150 (27%)
Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAG------------------GITQQIGATNVPA 68
           + VL HVD GKT + + L   +    E G                  GIT Q G T+   
Sbjct: 5   IGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQW 64
Query: 69  DAIRENTKHVRXXXXXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIM 128
               ENTK                       DTPGH  F     R  S+ D AIL++   
Sbjct: 65  ----ENTK-------------------VNIIDTPGHMDFLAEVYRSLSVLDGAILLISAK 101
Query: 129 HGLEPQTIESINILKSKKTPFVVALNKIDR 158
            G++ QT    + L+    P +  +NKID+
Sbjct: 102 DGVQAQTRILFHALRKMGIPTIFFINKIDQ 131

>pdb|3MMP|A Chain A, Structure Of The Qb Replicase, An Rna-Dependent Rna Polymerase Consisting Of Viral And Host Proteins Length = 678

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 42/136 (30%), Positives = 54/136 (39%), Gaps = 16/136 (11%)
Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGAT-NVP---ADAIRENTKHVRXXX 82
           V  +GHVD GKT +   +  T V     GG  +      N P   A  I  NT HV    
Sbjct: 299 VGTIGHVDHGKTTLTAAI--TTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDT 356
Query: 83  XXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL 142
                            D PGH  +      G++  D AILVV    G  PQT E I + 
Sbjct: 357 PTRHYAHV---------DCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLG 407
Query: 143 KSKKTPFVVA-LNKID 157
           +    P+++  LNK D
Sbjct: 408 RQVGVPYIIVFLNKCD 423

>pdb|3U6B|A Chain A, Ef-Tu (Escherichia Coli) In Complex With Nvp-Ldi028 Length = 394

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 42/136 (30%), Positives = 54/136 (39%), Gaps = 16/136 (11%)
Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGAT-NVP---ADAIRENTKHVRXXX 82
           V  +GHVD GKT +   +  T V     GG  +      N P   A  I  NT HV    
Sbjct: 15  VGTIGHVDHGKTTLTAAI--TTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDT 72
Query: 83  XXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL 142
                            D PGH  +      G++  D AILVV    G  PQT E I + 
Sbjct: 73  PTRHYAHV---------DCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLG 123
Query: 143 KSKKTPFVVA-LNKID 157
           +    P+++  LNK D
Sbjct: 124 RQVGVPYIIVFLNKCD 139

>pdb|1D8T|A Chain A, Crystal Structure Of Elongation Factor, Tu (Ef-Tu-Mggdp) Complexed With Ge2270a, A Thiazolyl Peptide Antibiotic Length = 393

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 42/136 (30%), Positives = 54/136 (39%), Gaps = 16/136 (11%)
Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGAT-NVP---ADAIRENTKHVRXXX 82
           V  +GHVD GKT +   +  T V     GG  +      N P   A  I  NT HV    
Sbjct: 14  VGTIGHVDHGKTTLTAAI--TTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDT 71
Query: 83  XXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL 142
                            D PGH  +      G++  D AILVV    G  PQT E I + 
Sbjct: 72  PTRHYAHV---------DCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLG 122
Query: 143 KSKKTPFVVA-LNKID 157
           +    P+++  LNK D
Sbjct: 123 RQVGVPYIIVFLNKCD 138

>pdb|1EFU|A Chain A, Elongation Factor Complex Ef-TuEF-Ts From Escherichia Coli Length = 385

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 42/136 (30%), Positives = 54/136 (39%), Gaps = 16/136 (11%)
Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGAT-NVP---ADAIRENTKHVRXXX 82
           V  +GHVD GKT +   +  T V     GG  +      N P   A  I  NT HV    
Sbjct: 6   VGTIGHVDHGKTTLTAAI--TTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDT 63
Query: 83  XXXXXXXXXXXXXXXXXDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL 142
                            D PGH  +      G++  D AILVV    G  PQT E I + 
Sbjct: 64  PTRHYAHV---------DCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLG 114
Query: 143 KSKKTPFVVA-LNKID 157
           +    P+++  LNK D
Sbjct: 115 RQVGVPYIIVFLNKCD 130

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	259
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	3e-89
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	6e-20
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	2e-42
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	4e-40
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	3e-39
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	6e-15
1wb1_A	482	Translation elongation factor SELB; selenocysteine	3e-10
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	2e-09
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	2e-09
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	1e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-06
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	5e-07
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	1e-06
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	2e-06
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	4e-06
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	3e-05
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	3e-05
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	8e-04
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	9e-04

>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* Length = 594

 Score =  274 bits (704), Expect = 3e-89
 Identities = 77/162 (47%), Positives = 98/162 (60%), Gaps = 5/162 (3%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +R+ IV VLGHVD GKT +LD +R + V   EAGGITQ IGAT +P D I          
Sbjct: 3   IRSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLK- 61

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
                      +PGL  IDTPGHE+F+ LR RG +L D+AIL+VDI  G +PQT E++NI
Sbjct: 62  ----KFSIRETLPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNI 117

Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQT 183
           L+  +TPFVVA NKIDR++ W     R   +    Q+  VQ 
Sbjct: 118 LRMYRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQ 159

>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* Length = 594

 Score = 87.7 bits (218), Expect = 6e-20
 Identities = 15/74 (20%), Positives = 32/74 (43%), Gaps = 6/74 (8%)

Query: 184 HKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQK 243
            + ++SA +GQ++ + I+        ++G+   E D L   I        K+    DL  
Sbjct: 515 GENLKSASRGQKVAMAIKDA------VYGKTIHEGDTLYVDIPENHYHILKEQLSGDLTD 568

Query: 244 TDWQLMVDLKKVFQ 257
            +  LM  + ++ +
Sbjct: 569 EELDLMDKIAEIKR 582

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A* Length = 178

 Score =  141 bits (358), Expect = 2e-42
 Identities = 54/136 (39%), Positives = 77/136 (56%), Gaps = 23/136 (16%)

Query: 23  RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPG 82
           R  +V ++GHVD GKT +LD +R + V + EAGGITQ IGA              V    
Sbjct: 7   RPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAY------------QVTVND 54

Query: 83  GEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL 142
            ++             +DTPGHE+F+ +R RG+ + DI ILVV    G+ PQT+E+IN  
Sbjct: 55  KKI-----------TFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTVEAINHA 103

Query: 143 KSKKTPFVVALNKIDR 158
           K+   P +VA+NK+D+
Sbjct: 104 KAANVPIIVAINKMDK 119

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus} Length = 537

 Score =  144 bits (365), Expect = 4e-40
 Identities = 57/140 (40%), Positives = 75/140 (53%), Gaps = 30/140 (21%)

Query: 23  RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPG 82
           R+ +V ++GHVD GKT +LDKLR+T V   EAGGITQ IGA  V   +  + T       
Sbjct: 3   RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPSGEKIT------- 55

Query: 83  GEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVV----DIMHGLEPQTIES 138
                           +DTPGH +FS +R RG+ + DI ILVV     +M     QT+ES
Sbjct: 56  ---------------FLDTPGHAAFSAMRARGTQVTDIVILVVAADDGVM----KQTVES 96

Query: 139 INILKSKKTPFVVALNKIDR 158
           I   K    P V+A+NK D+
Sbjct: 97  IQHAKDAHVPIVLAINKCDK 116

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli} Length = 501

 Score =  141 bits (358), Expect = 3e-39
 Identities = 58/140 (41%), Positives = 78/140 (55%), Gaps = 31/140 (22%)

Query: 23  RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPG 82
           RA +V ++GHVD GKT +L+ +R T V  GEAGGITQ IGA             HV    
Sbjct: 3   RAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAY------------HVETEN 50

Query: 83  GEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVV----DIMHGLEPQTIES 138
           G +             +DTPGH +F+++R RG+   DI +LVV     +M    PQTIE+
Sbjct: 51  GMI-----------TFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVM----PQTIEA 95

Query: 139 INILKSKKTPFVVALNKIDR 158
           I   K+ + P VVA+NKID+
Sbjct: 96  IQHAKAAQVPVVVAVNKIDK 115

>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* Length = 842

 Score = 73.1 bits (179), Expect = 6e-15
 Identities = 47/238 (19%), Positives = 84/238 (35%), Gaps = 32/238 (13%)

Query: 27  VCVLGHVDTGKTKILDKL---------------RRT-NVQDGEAGGITQQIGATNVPADA 70
           + V+ HVD GK+ + D L               R T   +D +  GIT  I +T +    
Sbjct: 22  MSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGIT--IKSTAI---- 75

Query: 71  IRENTKHVRGPGGEVGGPGPLEIPGLLI--IDTPGHESFSNLRNRGSSLCDIAILVVDIM 128
              +                 +    LI  ID+PGH  FS+       + D A++VVD +
Sbjct: 76  ---SLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTI 132

Query: 129 HGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVE 188
            G+  QT   +     ++   VV +NK+DR      +++ D+         SV    +  
Sbjct: 133 EGVCVQTETVLRQALGERIKPVVVINKVDRALLELQVSKEDLYQTFARTVESVNVIVSTY 192

Query: 189 SARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDW 246
           +     ++ +     P      FG       F + + + +         +  +    W
Sbjct: 193 ADEVLGDVQV----YPARGTVAFGSGLHGWAFTIRQFATRYAKKFGVD-KAKMMDRLW 245

>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* Length = 482

 Score = 59.0 bits (143), Expect = 3e-10
 Identities = 34/162 (20%), Positives = 61/162 (37%), Gaps = 46/162 (28%)

Query: 15  NPEDENFMRA--------AIVCVLGHVDTGKT---KILDKLRRTNVQDG----EAGGITQ 59
           +    + +            + + GH+D GKT   K+L ++  T+  D     +  GIT 
Sbjct: 2   HHHHHHSIEGRPHMDFKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGIT- 60

Query: 60  QIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPG--LLIIDTPGHESFSNLRN--RGS 115
                      I  +                 ++    + ++D PGH     +R     +
Sbjct: 61  -----------I--DIGFS-----------AFKLENYRITLVDAPGHADL--IRAVVSAA 94

Query: 116 SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKID 157
            + D+A++VVD   G + QT E + IL     P +V + K D
Sbjct: 95  DIIDLALIVVDAKEGPKTQTGEHMLILDHFNIPIIVVITKSD 136

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii} Length = 528

 Score = 56.6 bits (137), Expect = 2e-09
 Identities = 22/61 (36%), Positives = 39/61 (63%)

Query: 98  IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKID 157
           ++DTPGH  F+    R  +  D A++V+D   G+EP+TI+ + + + + TP +  +NK+D
Sbjct: 86  LLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLMEVCRLRHTPIMTFINKMD 145

Query: 158 R 158
           R
Sbjct: 146 R 146

>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* Length = 529

 Score = 56.2 bits (136), Expect = 2e-09
 Identities = 21/61 (34%), Positives = 37/61 (60%)

Query: 98  IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKID 157
           ++DTPGHE FS    R  +  D  ++V+D   G+E +T + + + + + TP +  +NK+D
Sbjct: 86  LLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTRLRDTPILTFMNKLD 145

Query: 158 R 158
           R
Sbjct: 146 R 146

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana} Length = 423

 Score = 53.9 bits (130), Expect = 1e-08
 Identities = 28/119 (23%), Positives = 46/119 (38%), Gaps = 21/119 (17%)

Query: 89  GPLEIPGL---LIIDTPG-HES--FSNLRNRGSSL----CDIAILVVDIMHGLEPQTIES 138
             +E+  +    ++DTPG  +      LR   +       D  ILV D         +  
Sbjct: 75  KSMELHPIGPVTLVDTPGLDDVGELGRLRVEKARRVFYRADCGILVTDSAPTPYEDDV-- 132

Query: 139 INILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVE-SARKGQEI 196
           +N+ K  + PFVV +NKID L         +  + +K    S    K +  SA + +  
Sbjct: 133 VNLFKEMEIPFVVVVNKIDVL--------GEKAEELKGLYESRYEAKVLLVSALQKKGF 183

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 54.1 bits (129), Expect = 2e-08
 Identities = 48/321 (14%), Positives = 90/321 (28%), Gaps = 95/321 (29%)

Query: 4   VFNK----RREKIEENPEDENFMRAAI--------VCVLGHVDTGKTK-ILDKLRRTNVQ 50
           VF K    R +   +       +R A+        V + G + +GKT   LD      VQ
Sbjct: 125 VFAKYNVSRLQPYLK-------LRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQ 177

Query: 51  DGEAGGI---TQQIGATNVPADAIR--ENTKHVRGPGGEVGGPGPLEIP----------- 94
                 I      +   N P   +   +   +   P           I            
Sbjct: 178 CKMDFKIFWLN--LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR 235

Query: 95  ----------GLLIID---TPGH-ESFSNLR------NRGSSLCDIA-------ILVVDI 127
                      LL++          +F NL        R   + D         I +   
Sbjct: 236 RLLKSKPYENCLLVLLNVQNAKAWNAF-NLSCKILLTTRFKQVTDFLSAATTTHISLDHH 294

Query: 128 MHGLEPQTIESI--NILKSKKT----------PFVVAL------NKIDRLYNWNTMNRRD 169
              L P  ++S+    L  +            P  +++      + +    NW  +N   
Sbjct: 295 SMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK 354

Query: 170 VRDIIKSQESSVQTHKTVESARKGQEICI--KIEPIPGEAPKMFGRHFDEND--FLVSKI 225
           +  II   ESS+   +  E  +    + +      IP     +      ++D   +V+K+
Sbjct: 355 LTTII---ESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKL 411

Query: 226 SRQSI---DACKDYFR-DDLQ 242
            + S+      +       + 
Sbjct: 412 HKYSLVEKQPKESTISIPSIY 432

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 47.2 bits (111), Expect = 3e-06
 Identities = 45/289 (15%), Positives = 89/289 (30%), Gaps = 75/289 (25%)

Query: 5   FNKRREKIEENPE---DENFMRAAIVCVLGHVDTGKTKILDKLRRTN--VQDGEAGGITQ 59
           + ++R+++  + +     N  R      L        + L +LR     + DG  G    
Sbjct: 112 YIEQRDRLYNDNQVFAKYNVSRLQPYLKL-------RQALLELRPAKNVLIDGVLG---- 160

Query: 60  QIGATNVPADAIRENTKHVRGPG-------GEVGGPGPLEIPGLLIIDTPGHESFSNLRN 112
             G T V  D         +               P  +    L ++    ++   N  +
Sbjct: 161 -SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV----LEMLQKLLYQIDPNWTS 215

Query: 113 RGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDV-- 170
           R     +I + +  I   L         +LKSK  P+   L  +  + N    N  ++  
Sbjct: 216 RSDHSSNIKLRIHSIQAELR-------RLLKSK--PYENCLLVLLNVQNAKAWNAFNLSC 266

Query: 171 ------RD--IIKSQESSVQTHKTVESARKG------QEIC-----IKIEPIPGEAPKMF 211
                 R   +     ++  TH +++           + +       + + +P E     
Sbjct: 267 KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT- 325

Query: 212 GRHFDENDFLVSKISRQSIDACKDYFRDDLQKTD-WQLMVDLKKVFQIL 259
                 N   +S I+           RD L   D W+  V+  K+  I+
Sbjct: 326 ------NPRRLSIIAES--------IRDGLATWDNWK-HVNCDKLTTII 359

>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 Length = 434

 Score = 48.8 bits (117), Expect = 5e-07
 Identities = 28/74 (37%), Positives = 40/74 (54%), Gaps = 25/74 (33%)

Query: 97  LIIDTPGHESFSNLRN--RGSSLCDIAILVVDIMHGLEPQT-----------IESINILK 143
           +I DTPGHE +   RN   G+S CD+AI++VD  +G++ QT           I+ I    
Sbjct: 107 IIADTPGHEQY--TRNMATGASTCDLAIILVDARYGVQTQTRRHSYIASLLGIKHI---- 160

Query: 144 SKKTPFVVALNKID 157
                 VVA+NK+D
Sbjct: 161 ------VVAINKMD 168

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A* Length = 198

 Score = 46.7 bits (111), Expect = 1e-06
 Identities = 30/202 (14%), Positives = 58/202 (28%), Gaps = 38/202 (18%)

Query: 3   AVFNKRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQI- 61
           +  N    +I             IV   G   +GKT  L  +     +  +   ++    
Sbjct: 4   STINFANREIN----------FKIV-YYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATE 52

Query: 62  GATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIA 121
               +  D +  +   V+G                 +   PG   ++  R       D  
Sbjct: 53  DERTLFFDFLPLDIGEVKGFKTR-----------FHLYTVPGQVFYNASRKLILRGVDGI 101

Query: 122 ILVVDIMHGLEPQTIESINILKS---------KKTPFVVALNKIDRLYNWNTMNRRDVRD 172
           + V D          ES+  ++             P V+ +NK D     + +    VR 
Sbjct: 102 VFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVPIVIQVNKRDLP---DALPVEMVRA 158

Query: 173 IIKSQESSVQTHKTVESARKGQ 194
           ++   E      +    A +G+
Sbjct: 159 VVD-PEGKFPVLEA--VATEGK 177

>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* Length = 262

 Score = 47.0 bits (111), Expect = 2e-06
 Identities = 31/179 (17%), Positives = 54/179 (30%), Gaps = 39/179 (21%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADA---------IR 72
           M + IV  +G   +GKT +  +  R    + +   +    G   +P +          + 
Sbjct: 12  MASMIVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVNLDTGVKELPYEPSIDVREFVTVE 71

Query: 73  ENTKHVRGPGGEV----------------GGPGPLEIPGLLIIDTPG-------HESFSN 109
           E  +   GP G +                      +    ++IDTPG       HE    
Sbjct: 72  EIMREGYGPNGAIVESYDRLMEKFNEYLNKILRLEKENDYVLIDTPGQMETFLFHEFGVR 131

Query: 110 LRNRGSSLCDIAILVVDIMHGLEPQ-----TIESINILKSKKTPFVVALNKIDRLYNWN 163
           L           + + D     +P         ++ I        + ALNK+D L    
Sbjct: 132 LMENLPYPL--VVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSEEE 188

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei} Length = 370

 Score = 46.0 bits (110), Expect = 4e-06
 Identities = 20/142 (14%), Positives = 42/142 (29%), Gaps = 38/142 (26%)

Query: 31  GHVDTGKTKILDKLRRT--NVQDGEAGGITQQIGATNVPADAIRE-----NTKHVRGPGG 83
            H     +     + R          G      G T++ A  + +     +         
Sbjct: 5   HHHHHHSSG---LVPRGSHMANVAIIGTEKS--GRTSLAA-NLGKKGTSSDITMY----- 53

Query: 84  EVGGPGPLEIPG--LLIIDTPGHESFSNLRN--RGSSLCDIAILVVD---IMHGLEPQTI 136
                   +  G  ++ +D   +     L++     ++ DIA+L +    +       T 
Sbjct: 54  ------NNDKEGRNMVFVDAHSYPKT--LKSLITALNISDIAVLCIPPQGLD----AHTG 101

Query: 137 ESINILKSKKTP-FVVALNKID 157
           E I  L        ++AL + D
Sbjct: 102 ECIIALDLLGFKHGIIALTRSD 123

>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* Length = 410

 Score = 43.8 bits (104), Expect = 3e-05
 Identities = 42/139 (30%), Positives = 56/139 (40%), Gaps = 19/139 (13%)

Query: 31  GHVDTGKTKILDKLRRTNVQDGEAG-----GITQQIGATNVPADAIRENTKHVRGPGGEV 85
           GHVD GKT +   L  T V           GIT +IG     ADA      +        
Sbjct: 17  GHVDHGKTTLTKAL--TGVWTDTHSEELRRGITIKIGF----ADAEIRRCPNCGRYSTSP 70

Query: 86  GGPGPLEIPGLL----IIDTPGHESF-SNLRNRGSSLCDIAILVVDIMHGL-EPQTIESI 139
             P        +     ID PGHE+  + +   G+SL D AILV+        PQT E +
Sbjct: 71  VCPYCGHETEFVRRVSFIDAPGHEALMTTMLA-GASLMDGAILVIAANEPCPRPQTREHL 129

Query: 140 NILKSKKTP-FVVALNKID 157
             L+       ++A NKI+
Sbjct: 130 MALQIIGQKNIIIAQNKIE 148

>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 Length = 408

 Score = 43.8 bits (104), Expect = 3e-05
 Identities = 40/139 (28%), Positives = 58/139 (41%), Gaps = 19/139 (13%)

Query: 31  GHVDTGKTKILDKLRRTNVQDGEAG-----GITQQIGATNVPADAIRENTKHVRGPGGEV 85
           GHVD GKT +   L  T V           GI+ ++G     AD              + 
Sbjct: 15  GHVDHGKTSLTKAL--TGVWTDRHSEELRRGISIRLGY----ADCEIRKCPQCGTYTTKP 68

Query: 86  GGPGPLEIPGLL----IIDTPGHESF-SNLRNRGSSLCDIAILVVDIMHGL-EPQTIESI 139
             P  L     L     +D+PGHE+  + + + G+SL D AILV+       +PQT E +
Sbjct: 69  RCPNCLAETEFLRRVSFVDSPGHETLMATMLS-GASLMDGAILVIAANEPCPQPQTKEHL 127

Query: 140 NILKSKKTP-FVVALNKID 157
             L+       ++  NKID
Sbjct: 128 MALEILGIDKIIIVQNKID 146

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C* Length = 599

 Score = 39.4 bits (93), Expect = 8e-04
 Identities = 19/39 (48%), Positives = 25/39 (64%)

Query: 98  IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI 136
            IDTPGH  FS   +R  + C+ A+LVVD   G+E QT+
Sbjct: 75  FIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTL 113

>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* Length = 600

 Score = 39.4 bits (93), Expect = 9e-04
 Identities = 17/39 (43%), Positives = 26/39 (66%)

Query: 98  IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI 136
           +IDTPGH  FS   +R  + C+ A+L++D   G+E QT+
Sbjct: 77  LIDTPGHVDFSYEVSRALAACEGALLLIDASQGIEAQTV 115

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	259
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.94
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.93
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.92
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.92
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.91
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.91
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.91
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.91
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.91
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.91
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.91
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.91
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.91
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.9
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.9
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.9
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.9
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.9
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.9
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.9
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.9
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.9
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.9
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.9
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.9
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.9
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.9
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.9
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.9
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.9
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.9
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.9
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.9
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.9
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.9
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.9
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.9
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.9
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.89
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.89
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.89
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.89
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.89
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.89
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.89
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.89
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.89
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.89
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.89
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.89
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.89
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.89
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.89
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.89
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.89
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.89
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.89
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.89
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.89
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.89
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.89
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.89
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.89
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.89
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.89
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.89
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.89
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.89
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.89
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.89
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.89
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.89
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.89
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.89
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.89
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.89
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.89
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.89
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.89
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.89
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.89
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.88
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.88
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.88
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.88
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.88
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.88
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.88
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.88
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.88
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.88
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.88
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.88
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.88
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.88
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.88
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.88
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.88
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.88
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.88
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.88
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.88
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.88
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.88
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.88
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.88
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.88
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.88
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.87
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.87
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.8
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.87
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.87
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.87
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.87
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.87
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.87
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.87
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.87
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.87
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.87
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.87
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.87
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.87
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.86
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.86
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.86
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.86
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.86
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.86
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.86
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.85
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.85
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.85
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.85
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.85
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.85
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.84
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.84
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.84
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.84
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.84
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.84
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.84
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.84
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.84
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.83
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.83
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.83
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.83
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.82
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.82
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.82
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.81
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.81
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.81
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.81
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.81
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.81
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.8
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.79
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.79
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.79
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.78
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.78
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.77
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.77
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.77
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.77
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.76
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.76
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.75
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.75
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.75
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.74
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.74
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.74
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.73
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.72
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.72
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.72
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.72
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.72
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.72
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.71
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.71
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.67
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.64
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.61
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.6
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.6
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.6
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.57
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.53
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.52
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.49
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.45
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.44
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.44
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.39
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.38
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.36
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.32
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.32
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.31
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	99.29
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	99.28
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	99.23
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	99.17
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.04
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.03
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	99.01
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	99.0
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	98.97
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	98.97
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	98.93
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.89
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	98.85
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	98.81
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	98.73
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.68
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.62
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	98.62
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.58
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.55
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.52
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	98.5
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.43
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.4
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.23
2xxa_A	433	Signal recognition particle protein; protein trans	98.2
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.09
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	98.06
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	98.04
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	98.01
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	98.01
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	98.0
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.92
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	97.9
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	97.86
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	97.83
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	97.75
3cwq_A	209	Para family chromosome partitioning protein; alpha	97.6
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.57
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	97.49
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	97.42
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	97.35
3end_A	307	Light-independent protochlorophyllide reductase ir	97.31
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.26
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.25
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.24
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.21
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	97.2
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.17
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	97.15
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.11
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.02
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.99
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.98
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.95
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.91
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.91
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.89
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.89
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.87
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.87
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	96.85
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.82
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.8
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.76
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.76
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	96.75
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.75
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.73
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.73
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.73
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.72
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.72
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.72
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.72
1g6h_A	257	High-affinity branched-chain amino acid transport	96.71
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.71
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.71
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.7
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.7
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.7
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.7
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.68
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.67
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.67
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.67
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.67
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.67
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.65
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.65
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.64
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.62
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.62
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.61
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.61
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.61
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.6
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.6
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.6
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.58
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.57
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.57
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.57
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.56
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.56
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.56
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.54
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.53
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.49
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.48
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.47
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.47
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.46
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.44
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.44
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.44
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.44
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.44
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.41
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.4
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.37
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.37
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.36
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.36
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.36
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	96.35
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.34
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.34
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.32
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.3
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.28
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.28
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.27
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.27
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.27
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.26
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.26
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.26
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.25
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.25
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.25
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	96.24
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.24
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.23
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.23
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.22
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.22
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.21
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.21
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.2
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.19
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.19
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.18
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.18
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.17
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.17
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.15
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.14
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.13
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.12
3kta_A	182	Chromosome segregation protein SMC; structural mai	96.09
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.08
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.08
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.07
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.07
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.05
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.05
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.02
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.02
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.0
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.99
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.98
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.97
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.97
1via_A	175	Shikimate kinase; structural genomics, transferase	95.96
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.95
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.95
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.94
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.92
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.9
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.9
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.88
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.87
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	95.86
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	95.86
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.85
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.85
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.84
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	95.84
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.83
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.81
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.8
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.8
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.79
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.78
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.74
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.72
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.72
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	95.72
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	95.71
2og2_A	359	Putative signal recognition particle receptor; nuc	95.71
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.7
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.7
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.69
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.69
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.68
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.68
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.67
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	95.67
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	95.64
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	95.64
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.63
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	95.61
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.57
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.57
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.57
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.55
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.53
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.53
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.49
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.46
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.45
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	95.43
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	95.42
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.41
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	95.39
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.38
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	95.36
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	95.36
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	95.34
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	95.34
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.32
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.32
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.28
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	95.26
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	95.23
2cvh_A	220	DNA repair and recombination protein RADB; filamen	95.22
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.2
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.2
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	95.18
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	95.18
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	95.18
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.17
3bos_A	242	Putative DNA replication factor; P-loop containing	95.17
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	95.09
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.08
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.08
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.07
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.05
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	95.02
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	95.01
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.01
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.97
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	94.92
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.91
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	94.87
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.79
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.76
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.76
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.75
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	94.75
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	94.7
3co5_A	143	Putative two-component system transcriptional RES	94.69
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	94.68
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	94.63
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	94.62
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	94.62
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	94.62
1e69_A	322	Chromosome segregation SMC protein; structural mai	94.58
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	94.56
1tue_A	212	Replication protein E1; helicase, replication, E1E	94.54
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	94.53
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	94.53
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	94.51
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	94.51
2chg_A	226	Replication factor C small subunit; DNA-binding pr	94.5
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	94.5
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.48
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	94.44
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	94.44
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	94.44
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	94.41
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	94.41
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	94.37
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	94.37
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	94.36
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.34
3qkt_A	339	DNA double-strand break repair RAD50 ATPase; RECA-	94.31
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	94.27
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	94.23
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.2
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	94.17
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.16
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	94.14
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	94.1

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=99.94  E-value=2.7e-26  Score=192.38  Aligned_cols=195  Identities=22%  Similarity=0.313  Sum_probs=134.1

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      ...++.|+++|.+|||||||+|+|++.++...      .....++      +.....+...+         ...+++|||
T Consensus         7 ~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~------s~~~~tT------~~~~~~~~~~~---------~~~~i~lvD   65 (308)
T 3iev_A            7 HMKVGYVAIVGKPNVGKSTLLNNLLGTKVSII------SPKAGTT------RMRVLGVKNIP---------NEAQIIFLD   65 (308)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCC------CSSSCCC------CSCEEEEEEET---------TTEEEEEEE
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhCCCcccc------CCCCCce------eeEEEEEEecC---------CCCeEEEEE
Confidence            34467899999999999999999998876421      1111111      11111111000         011399999


Q ss_pred             CCCCcc----------hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHH-HHHHHhCCCCEEEEEecccccCcccccchhh
Q psy6316         101 TPGHES----------FSNLRNRGSSLCDIAILVVDIMHGLEPQTIES-INILKSKKTPFVVALNKIDRLYNWNTMNRRD  169 (259)
Q Consensus       101 tpG~~~----------~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~-l~~~~~~~~piivv~NK~D~~~~~~~~~~~~  169 (259)
                      |||+..          +...+..++..+|++++|+|++++.+..+... +..+...+.|+++|+||+|+...     ...
T Consensus        66 TPG~~~~~~~~~l~~~~~~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~~~~pvilV~NK~Dl~~~-----~~~  140 (308)
T 3iev_A           66 TPGIYEPKKSDVLGHSMVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKPLNKPVIVVINKIDKIGP-----AKN  140 (308)
T ss_dssp             CCCCCCCCTTCHHHHHHHHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGGGCCCEEEEEECGGGSSS-----GGG
T ss_pred             CcCCCccccchhHHHHHHHHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHhcCCCEEEEEECccCCCC-----HHH
Confidence            999744          33556678899999999999999888888877 78888889999999999999732     223


Q ss_pred             HHHHHhhhhcccc--ccccccccccCcceeEEeecC---CCCCCcccccCC---cchhhHHHHhhhhhHHHHHHHHHhhc
Q psy6316         170 VRDIIKSQESSVQ--THKTVESARKGQEICIKIEPI---PGEAPKMFGRHF---DENDFLVSKISRQSIDACKDYFRDDL  241 (259)
Q Consensus       170 ~~~~~~~~~~~~~--~~~i~~Sa~~g~gv~~~l~~i---~~~~~~~~~~~~---~~~~~~~~~~~~e~~~~l~~~~~~~~  241 (259)
                      ....+..+...++  .+++++||++|.|+++++..+   +.+.+.+++...   .+.++++.+++||++      +....
T Consensus       141 ~~~~~~~l~~~~~~~~~i~~vSA~~g~gv~~L~~~l~~~l~~~~~~~~~~~~td~~~~~~~~e~irek~------~~~~~  214 (308)
T 3iev_A          141 VLPLIDEIHKKHPELTEIVPISALKGANLDELVKTILKYLPEGEPLFPEDMITDLPLRLLAAEIVREKA------MMLTR  214 (308)
T ss_dssp             GHHHHHHHHHHCTTCCCEEECBTTTTBSHHHHHHHHHHHSCBCCCSSCTTCCBCCCHHHHHHHHHHHHH------HHTCC
T ss_pred             HHHHHHHHHHhccCCCeEEEEeCCCCCCHHHHHHHHHHhCccCCCCCCcccccCCCHHHHHHHHHHHHH------Hhhhh
Confidence            3333444443332  578899999999999876554   445556665543   478889999999988      66666


Q ss_pred             CchhhH
Q psy6316         242 QKTDWQ  247 (259)
Q Consensus       242 ~~~~~~  247 (259)
                      .++++.
T Consensus       215 ~eiP~~  220 (308)
T 3iev_A          215 EEVPTS  220 (308)
T ss_dssp             TTHHHH
T ss_pred             hhcCCe
Confidence            666554

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=99.93  E-value=1.2e-25  Score=187.52  Aligned_cols=189  Identities=16%  Similarity=0.219  Sum_probs=128.5

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      +|.++|+++|++|+|||||+|+|++.++...      .....++.      .....+..          ....+++||||
T Consensus         5 ~~~g~V~ivG~~nvGKSTLln~l~g~~~~iv------s~~~~tTr------~~i~~i~~----------~~~~~l~l~DT   62 (301)
T 1wf3_A            5 TYSGFVAIVGKPNVGKSTLLNNLLGVKVAPI------SPRPQTTR------KRLRGILT----------EGRRQIVFVDT   62 (301)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCCSCC------CSSSCCCC------SCEEEEEE----------ETTEEEEEEEC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCCceeee------cCCCCcee------EEEEEEEE----------eCCcEEEEecC
Confidence            6778899999999999999999998876321      11111111      11111100          00113999999


Q ss_pred             CCCcc--------hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhC--CCCEEEEEecccccCcccccchhh-H
Q psy6316         102 PGHES--------FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSK--KTPFVVALNKIDRLYNWNTMNRRD-V  170 (259)
Q Consensus       102 pG~~~--------~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~--~~piivv~NK~D~~~~~~~~~~~~-~  170 (259)
                      ||+.+        +......+++.+|++++|+|++++.+..+..++..+...  +.|+++|+||+|+...      .. +
T Consensus        63 pG~~~~~~~l~~~~~~~~~~~l~~ad~il~VvD~~~~~~~~~~~i~~~l~~~~~~~p~ilV~NK~Dl~~~------~~~~  136 (301)
T 1wf3_A           63 PGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDAAKY------PEEA  136 (301)
T ss_dssp             CCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSCEEEEEECGGGCSS------HHHH
T ss_pred             ccccchhhHHHHHHHHHHHHHHhcCCEEEEEEECCCCCChHHHHHHHHHHhhcCCCCEEEEEECcccCCc------hHHH
Confidence            99765        556667788999999999999988887777777778776  8999999999999742      12 3


Q ss_pred             HHHHhhhhccccccccccccccCcceeEEeecCCC---CCCcccccCC----cchhhHHHHhhhhhHHHHHHHHHhhcCc
Q psy6316         171 RDIIKSQESSVQTHKTVESARKGQEICIKIEPIPG---EAPKMFGRHF----DENDFLVSKISRQSIDACKDYFRDDLQK  243 (259)
Q Consensus       171 ~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~---~~~~~~~~~~----~~~~~~~~~~~~e~~~~l~~~~~~~~~~  243 (259)
                      ...++.+  ....+++++||++|.|++.++..+..   +.+.+|++..    .+.++...+++|+++      +.....+
T Consensus       137 ~~~~~~~--~~~~~~~~iSA~~g~gv~~l~~~l~~~l~~~~~~y~~~~~~td~~~~~~~~e~~Re~~------~~~l~~e  208 (301)
T 1wf3_A          137 MKAYHEL--LPEAEPRMLSALDERQVAELKADLLALMPEGPFFYPEDYAKSDQTFGEWVAEILREEA------MKRLWHE  208 (301)
T ss_dssp             HHHHHHT--STTSEEEECCTTCHHHHHHHHHHHHTTCCBCCCSSCTTCCSBSSCHHHHHHHHHHHHH------HHTCCTT
T ss_pred             HHHHHHh--cCcCcEEEEeCCCCCCHHHHHHHHHHhcccCCCCCCcccccCCCCHHHHHHHHHHHHH------HHHhhcc
Confidence            3334443  11235789999999999987665533   3455554322    256677888888887      5555555


Q ss_pred             hhh
Q psy6316         244 TDW  246 (259)
Q Consensus       244 ~~~  246 (259)
                      +++
T Consensus       209 iP~  211 (301)
T 1wf3_A          209 VPY  211 (301)
T ss_dssp             HHH
T ss_pred             cCc
Confidence            544

>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=99.92  E-value=2.3e-26  Score=183.03  Aligned_cols=158  Identities=16%  Similarity=0.160  Sum_probs=108.8

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ||..+|+|+|.+|+|||||+++++...+...+.++++.++.........     ..+                .+.||||
T Consensus        11 ~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~-----~~v----------------~l~iwDt   69 (216)
T 4dkx_A           11 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLED-----RTI----------------RLQLWDT   69 (216)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSS-----CEE----------------EEEEECC
T ss_pred             CCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecc-----eEE----------------EEEEEEC
Confidence            5556799999999999999999999888776666665444322221111     111                2899999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      +|+++|..++..+++.+|++++|+|.++..+..... ++..+..   .+.|+++|+||+|+... ..    ...+..+++
T Consensus        70 aGqe~~~~l~~~~~~~a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~-r~----V~~~e~~~~  144 (216)
T 4dkx_A           70 AGLERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK-RQ----VSIEEGERK  144 (216)
T ss_dssp             SCTTTCGGGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGG-CC----SCHHHHHHH
T ss_pred             CCchhhhhHHHHHhccccEEEEEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhc-Cc----ccHHHHhhH
Confidence            999999999999999999999999998865555433 4444433   46899999999998632 11    222334455


Q ss_pred             hccccccccccccccCcceeEEeecCCC
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      ...+++.++++||++|.|+++++..+..
T Consensus       145 a~~~~~~~~e~SAktg~nV~e~F~~i~~  172 (216)
T 4dkx_A          145 AKELNVMFIETSAKAGYNVKQLFRRVAA  172 (216)
T ss_dssp             HHHHTCEEEEEBTTTTBSHHHHHHHHHH
T ss_pred             HHHhCCeeEEEeCCCCcCHHHHHHHHHH
Confidence            5566788899999999999998776643

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.92  E-value=1.9e-25  Score=195.61  Aligned_cols=144  Identities=22%  Similarity=0.282  Sum_probs=105.2

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCC-------HHHHHHHHHHHhCCCC-EEEEEecccccCc-cccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLE-------PQTIESINILKSKKTP-FVVALNKIDRLYN-WNTM  165 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~-------~~~~~~l~~~~~~~~p-iivv~NK~D~~~~-~~~~  165 (259)
                      .+.|||||||++|...+..+++.+|++|+|+|++++..       .++.+++..+...++| +++++||+|+... ++..
T Consensus        96 ~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~~v~~iIvviNK~Dl~~~~~~~~  175 (439)
T 3j2k_7           96 HFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPTVNWSNE  175 (439)
T ss_pred             EEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHcCCCeEEEEeecCCCcccchHHH
Confidence            49999999999999999999999999999999998765       5788888888888998 9999999998632 2222


Q ss_pred             chhhHHHHHhhhhccc------cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHh
Q psy6316         166 NRRDVRDIIKSQESSV------QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRD  239 (259)
Q Consensus       166 ~~~~~~~~~~~~~~~~------~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~  239 (259)
                      ..+++...+..+...+      .++++++||++|.|+.++...    .+|+.+.              ..++.+++ ++.
T Consensus       176 ~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~~----~~w~~g~--------------~L~~~l~~-i~~  236 (439)
T 3j2k_7          176 RYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSDF----CPWYIGL--------------PFIPYLDN-LPN  236 (439)
T ss_pred             HHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCccccccccc----ccccCch--------------HHHHHHHh-CCC
Confidence            3344444454444333      346889999999999986543    3333211              12223333 456


Q ss_pred             hcCchhhHHHHHHHHhhc
Q psy6316         240 DLQKTDWQLMVDLKKVFQ  257 (259)
Q Consensus       240 ~~~~~~~~~~~~i~~~~~  257 (259)
                      +.+..+.+|+|+|+++|+
T Consensus       237 ~~~~~~~p~r~~v~~~~~  254 (439)
T 3j2k_7          237 FNRSVDGPIRLPIVDKYK  254 (439)
T ss_pred             CccCCCCCeEEEEEEEEc
Confidence            667788899999888774

>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*

Probab=99.91  E-value=2.7e-25  Score=196.63  Aligned_cols=183  Identities=23%  Similarity=0.315  Sum_probs=125.3

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhccc-------cCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCC
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTN-------VQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLE   92 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (259)
                      ..|+..+|+++|++|+|||||+++|++..       ......++++.+.+......                       .
T Consensus        15 ~~m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~-----------------------~   71 (482)
T 1wb1_A           15 MDFKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKL-----------------------E   71 (482)
T ss_dssp             CCCEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEE-----------------------T
T ss_pred             hcCCCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEE-----------------------C
Confidence            34677889999999999999999998765       11111112222221111111                       1


Q ss_pred             CCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHH
Q psy6316          93 IPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus        93 ~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      ...++|||||||++|...+..+++.+|++|+|+|++++...++.+++..+...++|+++++||+|+...+   ..+...+
T Consensus        72 ~~~i~iiDtPGh~~~~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~~ip~IvviNK~Dl~~~~---~~~~~~~  148 (482)
T 1wb1_A           72 NYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHFNIPIIVVITKSDNAGTE---EIKRTEM  148 (482)
T ss_dssp             TEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHHTTCCBCEEEECTTSSCHH---HHHHHHH
T ss_pred             CEEEEEEECCChHHHHHHHHHHHhhCCEEEEEEecCCCccHHHHHHHHHHHHcCCCEEEEEECCCcccch---hHHHHHH
Confidence            1139999999999999999999999999999999999999999999999999999999999999997421   2233333


Q ss_pred             HHhhhhccc----cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhh--cCchhh
Q psy6316         173 IIKSQESSV----QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDD--LQKTDW  246 (259)
Q Consensus       173 ~~~~~~~~~----~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~--~~~~~~  246 (259)
                      .+..+....    ..+++++||++|.|++++                              .+.+.+.++.+  .+..+.
T Consensus       149 ~l~~~l~~~~~~~~~~ii~vSA~~g~gI~~L------------------------------~~~L~~~i~~~~~~~~~~~  198 (482)
T 1wb1_A          149 IMKSILQSTHNLKNSSIIPISAKTGFGVDEL------------------------------KNLIITTLNNAEIIRNTES  198 (482)
T ss_dssp             HHHHHHHHSSSGGGCCEEECCTTTCTTHHHH------------------------------HHHHHHHHHHSCCCCCSSS
T ss_pred             HHHHHHhhhcccccceEEEEECcCCCCHHHH------------------------------HHHHHHhhcCccccccccc
Confidence            444433222    567889999999998642                              22222323344  455566


Q ss_pred             HHHHHHHHhhcc
Q psy6316         247 QLMVDLKKVFQI  258 (259)
Q Consensus       247 ~~~~~i~~~~~~  258 (259)
                      +|+++++++|++
T Consensus       199 ~~~~~v~~v~~~  210 (482)
T 1wb1_A          199 YFKMPLDHAFPI  210 (482)
T ss_dssp             CCBCBCSCEECC
T ss_pred             cccccceeEEEe
Confidence            777888887764

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.91  E-value=2.4e-25  Score=171.51  Aligned_cols=154  Identities=40%  Similarity=0.592  Sum_probs=110.6

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +.++|+++|.+|+|||||+++|++..+...+.++.+.+........                       ....+.+||||
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~~~~~l~Dt~   63 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTV-----------------------NDKKITFLDTP   63 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEE-----------------------TTEEEEESCCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEe-----------------------CCceEEEEECC
Confidence            3567999999999999999999988775444333322221111100                       01128999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhh---hc
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ---ES  179 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~---~~  179 (259)
                      |++.+...+..++..+|++++|+|++++......+.+..+...+.|+++|+||+|+...    ..++....+...   ..
T Consensus        64 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~l~~~~~~~~p~ilv~nK~Dl~~~----~~~~~~~~~~~~~~~~~  139 (178)
T 2lkc_A           64 GHEAFTTMRARGAQVTDIVILVVAADDGVMPQTVEAINHAKAANVPIIVAINKMDKPEA----NPDRVMQELMEYNLVPE  139 (178)
T ss_dssp             SSSSSSCSCCSSCCCCCEEEEEEETTCCCCHHHHHHHHHHGGGSCCEEEEEETTTSSCS----CHHHHHHHHTTTTCCBT
T ss_pred             CCHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHhCCCCEEEEEECccCCcC----CHHHHHHHHHhcCcChh
Confidence            99998888888899999999999999888888888888888889999999999999742    122333333222   12


Q ss_pred             ccc--ccccccccccCcceeEEeecC
Q psy6316         180 SVQ--THKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~--~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .++  .+++++||++|.|+++++..+
T Consensus       140 ~~~~~~~~~~~Sa~~~~gv~~l~~~l  165 (178)
T 2lkc_A          140 EWGGDTIFCKLSAKTKEGLDHLLEMI  165 (178)
T ss_dssp             TTTSSEEEEECCSSSSHHHHHHHHHH
T ss_pred             HcCCcccEEEEecCCCCCHHHHHHHH
Confidence            222  578899999999998755443

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.91  E-value=1.7e-24  Score=169.86  Aligned_cols=156  Identities=17%  Similarity=0.206  Sum_probs=106.9

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhccccCC-CCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEE
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTNVQD-GEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLI   98 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   98 (259)
                      +..+.++|+|+|.+|+|||||+++|++..+.. .+..+++....    ...     ....                .+.|
T Consensus        13 ~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~~----~~~-----~~~~----------------~~~i   67 (199)
T 4bas_A           13 QSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNVE----TFE-----KGRV----------------AFTV   67 (199)
T ss_dssp             ---CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEEEE----EEE-----ETTE----------------EEEE
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccceeEE----EEE-----eCCE----------------EEEE
Confidence            44556779999999999999999999888765 33333332111    110     0011                2999


Q ss_pred             EeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHhC-----------CCCEEEEEecccccCcccccc
Q psy6316          99 IDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKSK-----------KTPFVVALNKIDRLYNWNTMN  166 (259)
Q Consensus        99 iDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~~-----------~~piivv~NK~D~~~~~~~~~  166 (259)
                      |||||++.+...+..+++.+|++|+|+|+++..+.... .++..+...           +.|+++|+||+|+....   .
T Consensus        68 ~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~---~  144 (199)
T 4bas_A           68 FDMGGAKKFRGLWETYYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAK---T  144 (199)
T ss_dssp             EEECCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCC---C
T ss_pred             EECCCCHhHHHHHHHHHhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCC---C
Confidence            99999999999999999999999999999987655443 455555443           88999999999997432   2


Q ss_pred             hhhHHHHHhh--hhccccccccccccccCcceeEEeecC
Q psy6316         167 RRDVRDIIKS--QESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       167 ~~~~~~~~~~--~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+++...+..  .....++.++++||++|.|+++++..+
T Consensus       145 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l  183 (199)
T 4bas_A          145 AAELVEILDLTTLMGDHPFVIFASNGLKGTGVHEGFSWL  183 (199)
T ss_dssp             HHHHHHHHTHHHHHTTSCEEEEECBTTTTBTHHHHHHHH
T ss_pred             HHHHHHHhcchhhccCCeeEEEEeeCCCccCHHHHHHHH
Confidence            2333333321  113456788999999999998855443

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=99.91  E-value=4e-25  Score=168.68  Aligned_cols=156  Identities=17%  Similarity=0.153  Sum_probs=107.0

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ++..+|+++|.+|+|||||+++|++..+......+++............     ...                .+.+|||
T Consensus         4 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~----------------~~~~~D~   62 (170)
T 1r2q_A            4 ICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDD-----TTV----------------KFEIWDT   62 (170)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETT-----EEE----------------EEEEEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECC-----EEE----------------EEEEEeC
Confidence            3456699999999999999999998877654444443332211111110     011                2999999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      ||++.+...+..+++.+|++++|+|+++..+.... .++..+..   .+.|+++|+||+|+.... ....++    ...+
T Consensus        63 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~-~~~~~~----~~~~  137 (170)
T 1r2q_A           63 AGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKR-AVDFQE----AQSY  137 (170)
T ss_dssp             CCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC-CSCHHH----HHHH
T ss_pred             CCcHHhhhhhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCcccc-ccCHHH----HHHH
Confidence            99999999999999999999999999875443332 34444443   368899999999986421 112222    2333


Q ss_pred             hccccccccccccccCcceeEEeecC
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ....+++++++||++|.|+++++..+
T Consensus       138 ~~~~~~~~~~~Sa~~g~gi~~l~~~i  163 (170)
T 1r2q_A          138 ADDNSLLFMETSAKTSMNVNEIFMAI  163 (170)
T ss_dssp             HHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             HHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            34456788999999999998866554

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=99.91  E-value=1.3e-24  Score=170.02  Aligned_cols=168  Identities=14%  Similarity=0.169  Sum_probs=109.7

Q ss_pred             hhhhhhhhhhcCCCCcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCC
Q psy6316           4 VFNKRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGG   83 (259)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (259)
                      .|.+...+..+.+..    +.++|+++|.+|+|||||+|+|++..+........+.     +.......        .+.
T Consensus         7 ~~~~s~~~~~~~~~~----~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~-----t~~~~~~~--------~~~   69 (195)
T 1svi_A            7 EIVISAVKPEQYPEG----GLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGK-----TQTLNFYI--------IND   69 (195)
T ss_dssp             EEEEEESSGGGSCCS----CCCEEEEEEBTTSSHHHHHHHHHTC------------------CCEEEEE--------ETT
T ss_pred             EEEEecCChhhCCCC----CCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCc-----eeeEEEEE--------ECC
Confidence            355555555555442    3567999999999999999999987643222111111     11111000        001


Q ss_pred             CCCCCCCCCCCCeEEEeCCC----------CcchHHHHHhhccCC---CeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEE
Q psy6316          84 EVGGPGPLEIPGLLIIDTPG----------HESFSNLRNRGSSLC---DIAILVVDIMHGLEPQTIESINILKSKKTPFV  150 (259)
Q Consensus        84 ~~~~~~~~~~~~~~liDtpG----------~~~~~~~~~~~~~~a---d~~i~v~d~~~~~~~~~~~~l~~~~~~~~pii  150 (259)
                                 .+.+|||||          ++.+...+..+++.+   |++++|+|++++.+..+..++..+...+.|++
T Consensus        70 -----------~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~p~i  138 (195)
T 1svi_A           70 -----------ELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVI  138 (195)
T ss_dssp             -----------TEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCCEE
T ss_pred             -----------cEEEEECCCCCccccCHHHHHHHHHHHHHHHhhhhcCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEE
Confidence                       299999999          566666677777666   99999999999888888877788888899999


Q ss_pred             EEEecccccCcccccchhhHHHHHhh-hhccccccccccccccCcceeEEeec
Q psy6316         151 VALNKIDRLYNWNTMNRRDVRDIIKS-QESSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       151 vv~NK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      +|+||+|+....   ........+.+ +....+.+++++||++|.|+++++..
T Consensus       139 ~v~nK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~  188 (195)
T 1svi_A          139 VIATKADKIPKG---KWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGA  188 (195)
T ss_dssp             EEEECGGGSCGG---GHHHHHHHHHHHHTCCTTSEEEECCTTTCTTHHHHHHH
T ss_pred             EEEECcccCChH---HHHHHHHHHHHHHcccCCCceEEEEccCCCCHHHHHHH
Confidence            999999997421   12222233333 33334578889999999999875543

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.91  E-value=5.9e-25  Score=167.76  Aligned_cols=159  Identities=19%  Similarity=0.190  Sum_probs=108.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+++|++..+.....++.+.+..........     ...                .+.+|||||
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~----------------~~~~~D~~G   61 (170)
T 1ek0_A            3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINE-----HTV----------------KFEIWDTAG   61 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETT-----EEE----------------EEEEEEECC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECC-----EEE----------------EEEEEECCC
Confidence            45699999999999999999998877554444443332211111110     001                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++++|+|+++..+.... .++..+..   .+.|+++|+||+|+......  .+...+....+..
T Consensus        62 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~--~~v~~~~~~~~~~  139 (170)
T 1ek0_A           62 QERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGE--RKVAREEGEKLAE  139 (170)
T ss_dssp             SGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCC--CCSCHHHHHHHHH
T ss_pred             ChhhhhhhhhhhccCcEEEEEEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccccc--cCCCHHHHHHHHH
Confidence            999999999999999999999999875444433 24444433   47899999999999743211  1111222333444


Q ss_pred             cccccccccccccCcceeEEeecCCC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      ..+++++++||++|.|+++++..+..
T Consensus       140 ~~~~~~~~~Sa~~~~gi~~l~~~l~~  165 (170)
T 1ek0_A          140 EKGLLFFETSAKTGENVNDVFLGIGE  165 (170)
T ss_dssp             HHTCEEEECCTTTCTTHHHHHHHHHT
T ss_pred             HcCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            45678899999999999887665543

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=99.91  E-value=3.9e-25  Score=170.77  Aligned_cols=159  Identities=17%  Similarity=0.158  Sum_probs=110.0

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      .+..+|+++|.+|+|||||+++|++..+......+++.+..........     ...                .+.||||
T Consensus        10 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~----------------~~~i~Dt   68 (181)
T 2efe_B           10 SINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVND-----ATV----------------KFEIWDT   68 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETT-----EEE----------------EEEEEEC
T ss_pred             ccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECC-----EEE----------------EEEEEeC
Confidence            4456699999999999999999998877655444443332211111110     001                2999999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      ||++.+...+..+++.+|++++|+|+++..+... ..++..+..   .+.|+++|+||+|+.... ....    .....+
T Consensus        69 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~-~~~~----~~~~~~  143 (181)
T 2efe_B           69 AGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDAR-KVTA----EDAQTY  143 (181)
T ss_dssp             CCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTC-CSCH----HHHHHH
T ss_pred             CCChhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccc-cCCH----HHHHHH
Confidence            9999999988999999999999999987554333 345555554   368899999999996421 1122    223334


Q ss_pred             hccccccccccccccCcceeEEeecCCCC
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      ....+++++++||++|.|+++++..+...
T Consensus       144 ~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  172 (181)
T 2efe_B          144 AQENGLFFMETSAKTATNVKEIFYEIARR  172 (181)
T ss_dssp             HHHTTCEEEECCSSSCTTHHHHHHHHHHT
T ss_pred             HHHcCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            44456788999999999999876655433

>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=99.91  E-value=3.5e-24  Score=178.94  Aligned_cols=182  Identities=20%  Similarity=0.305  Sum_probs=123.6

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      .+|.++|+++|++|||||||+|+|++..+..      ....      +.+++....++..          ....++++||
T Consensus         5 ~~r~~~VaIvG~~nvGKSTLln~L~g~~~~i------~s~~------~~tTr~~~~gi~~----------~~~~~i~~iD   62 (301)
T 1ega_A            5 KSYCGFIAIVGRPNVGKSTLLNKLLGQKISI------TSRK------AQTTRHRIVGIHT----------EGAYQAIYVD   62 (301)
T ss_dssp             CCEEEEEEEECSSSSSHHHHHHHHHTCSEEE------CCCC------SSCCSSCEEEEEE----------ETTEEEEEES
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHCCCccc------cCCC------CCcceeeEEEEEE----------ECCeeEEEEE
Confidence            4677889999999999999999999876521      1111      1111111111100          0011399999


Q ss_pred             CCCCc-chH--------HHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHH
Q psy6316         101 TPGHE-SFS--------NLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVR  171 (259)
Q Consensus       101 tpG~~-~~~--------~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~  171 (259)
                      |||+. ...        .....+++.+|++++|+|+++ .+..+...+..+...+.|+++++||+|+...     ...+.
T Consensus        63 TpG~~~~~~~~l~~~~~~~~~~~l~~~D~vl~Vvd~~~-~~~~~~~i~~~l~~~~~P~ilvlNK~D~~~~-----~~~~~  136 (301)
T 1ega_A           63 TPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTR-WTPDDEMVLNKLREGKAPVILAVNKVDNVQE-----KADLL  136 (301)
T ss_dssp             SSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEETTC-CCHHHHHHHHHHHSSSSCEEEEEESTTTCCC-----HHHHH
T ss_pred             CcCCCccchhhHHHHHHHHHHHHHhcCCEEEEEEeCCC-CCHHHHHHHHHHHhcCCCEEEEEECcccCcc-----HHHHH
Confidence            99987 322        222356789999999999987 8877777777888788999999999998731     33445


Q ss_pred             HHHhhhhccccc-cccccccccCcceeEEeecCCC---CCCcccccCC---cchhhHHHHhhhhhH
Q psy6316         172 DIIKSQESSVQT-HKTVESARKGQEICIKIEPIPG---EAPKMFGRHF---DENDFLVSKISRQSI  230 (259)
Q Consensus       172 ~~~~~~~~~~~~-~~i~~Sa~~g~gv~~~l~~i~~---~~~~~~~~~~---~~~~~~~~~~~~e~~  230 (259)
                      ..+..+...+++ .++++||++|.|++.++..+..   +.+.+|+...   .+.++...+++|+++
T Consensus       137 ~~l~~l~~~~~~~~~i~iSA~~g~~v~~l~~~i~~~l~~~~~~~~~~~~~d~~~~~~~~e~~re~l  202 (301)
T 1ega_A          137 PHLQFLASQMNFLDIVPISAETGLNVDTIAAIVRKHLPEATHHFPEDYITDRSQRFMASEIIREKL  202 (301)
T ss_dssp             HHHHHHHTTSCCSEEEECCTTTTTTHHHHHHHHHTTCCBCCCSSCTTCCSCCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCcCceEEEECCCCCCHHHHHHHHHHhCCcCCCCCCccccCCCCHHHHHHHHHHHHH
Confidence            555555555555 5789999999999987665543   3444554332   366777888888876

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.91  E-value=5.1e-25  Score=173.49  Aligned_cols=166  Identities=19%  Similarity=0.105  Sum_probs=107.2

Q ss_pred             hhhcCCCCcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCC
Q psy6316          11 KIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGP   90 (259)
Q Consensus        11 ~~~~~~~~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (259)
                      ..+..++..+..+..+|+++|.+|+|||||+|+|++..+...+..+.+..+. .......     ..             
T Consensus        11 ~~~~~~q~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~-----~~-------------   71 (201)
T 3oes_A           11 RENLYFQGMPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYS-KIVTLGK-----DE-------------   71 (201)
T ss_dssp             ------------CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEEE-EEEC---------C-------------
T ss_pred             cccCCCCCCCCCCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEEE-EEEEECC-----EE-------------
Confidence            3445555566677788999999999999999999998876555444433221 1111000     00             


Q ss_pred             CCCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCccccc
Q psy6316          91 LEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTM  165 (259)
Q Consensus        91 ~~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~  165 (259)
                         ..+.||||||++.+...+..+++.+|++++|+|+++..+.... .++..+..    .++|+++|+||+|+.... ..
T Consensus        72 ---~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~-~v  147 (201)
T 3oes_A           72 ---FHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPER-EV  147 (201)
T ss_dssp             ---EEEEEEEECCCCTTCCCCGGGTTTCCEEEEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGC-CS
T ss_pred             ---EEEEEEECCCccchHHHHHHHHhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCcccc-cc
Confidence               1289999999999988888999999999999999875444333 34444443    368999999999987421 11


Q ss_pred             chhhHHHHHhhhhccccccccccccccCcceeEEeecC
Q psy6316         166 NRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .    ......+....+++++++||++|.|+++++..+
T Consensus       148 ~----~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l  181 (201)
T 3oes_A          148 Q----AVEGKKLAESWGATFMESSARENQLTQGIFTKV  181 (201)
T ss_dssp             C----HHHHHHHHHHHTCEEEECCTTCHHHHHHHHHHH
T ss_pred             C----HHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHH
Confidence            1    222334444556788999999999998865544

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=99.90  E-value=1.1e-24  Score=170.42  Aligned_cols=156  Identities=22%  Similarity=0.222  Sum_probs=108.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+......+++.+..........     ..                ..+.||||||
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~----------------~~~~i~Dt~G   81 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGN-----EL----------------HKFLIWDTAG   81 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSS-----SE----------------EEEEEEEECC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCC-----EE----------------EEEEEEcCCC
Confidence            45699999999999999999998876544433333322211111110     00                1299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++++|+|+++..+.... .++..+..   .+.|+++|+||+|+... .....    +....+..
T Consensus        82 ~~~~~~~~~~~~~~~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~-~~v~~----~~~~~~~~  156 (192)
T 2fg5_A           82 QERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDI-REVPL----KDAKEYAE  156 (192)
T ss_dssp             SGGGGGGTHHHHTTCSEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGG-CCSCH----HHHHHHHH
T ss_pred             chhhHhhhHHhhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccc-cccCH----HHHHHHHH
Confidence            999999889999999999999999886544433 34455544   37899999999999632 11122    22344444


Q ss_pred             cccccccccccccCcceeEEeecCCC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      ..+++++++||++|.|+++++..+..
T Consensus       157 ~~~~~~~~~Sa~~~~gi~~l~~~l~~  182 (192)
T 2fg5_A          157 SIGAIVVETSAKNAINIEELFQGISR  182 (192)
T ss_dssp             TTTCEEEECBTTTTBSHHHHHHHHHH
T ss_pred             HcCCEEEEEeCCCCcCHHHHHHHHHH
Confidence            55678899999999999886665543

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=99.90  E-value=1.3e-24  Score=166.07  Aligned_cols=154  Identities=23%  Similarity=0.194  Sum_probs=98.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+.....++++.+..........     ..+                .+.+|||||
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~l~i~Dt~G   64 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGG-----KRV----------------NLAIWDTAG   64 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSS-----CEE----------------EEEEEECCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECC-----EEE----------------EEEEEECCC
Confidence            35699999999999999999998876554444443322211111110     000                289999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++++|+|+++..+.... .++..+..   .+.|+++|+||+|+.... ....+    ....+..
T Consensus        65 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-~~~~~----~~~~~~~  139 (170)
T 1z08_A           65 QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKER-HVSIQ----EAESYAE  139 (170)
T ss_dssp             C-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGC-CSCHH----HHHHHHH
T ss_pred             cHhhhhhHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECccccccc-ccCHH----HHHHHHH
Confidence            999999888999999999999999875444333 24444433   578999999999997421 11222    2333444


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+++++++||++|.|+++++..+
T Consensus       140 ~~~~~~~~~Sa~~~~gi~~l~~~l  163 (170)
T 1z08_A          140 SVGAKHYHTSAKQNKGIEELFLDL  163 (170)
T ss_dssp             HTTCEEEEEBTTTTBSHHHHHHHH
T ss_pred             HcCCeEEEecCCCCCCHHHHHHHH
Confidence            456788999999999998755433

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=99.90  E-value=1.2e-24  Score=165.50  Aligned_cols=154  Identities=19%  Similarity=0.158  Sum_probs=103.4

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      |+..+|+++|++|+|||||+++|++..+.....++...... ......     ....                .+.+|||
T Consensus         1 m~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~-~~~~~~-----~~~~----------------~~~l~D~   58 (167)
T 1kao_A            1 MREYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYR-KEIEVD-----SSPS----------------VLEILDT   58 (167)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEET-----TEEE----------------EEEEEEC
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcceeEE-EEEEEC-----CEEE----------------EEEEEEC
Confidence            34567999999999999999999988765444333322110 000000     0000                2899999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      ||++.+...+..+++.+|++++|+|+++..+.... .++..+.    ..+.|+++|+||+|+.... ....    .....
T Consensus        59 ~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~-~~~~----~~~~~  133 (167)
T 1kao_A           59 AGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESER-EVSS----SEGRA  133 (167)
T ss_dssp             CCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGC-CSCH----HHHHH
T ss_pred             CCchhhHHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccccc-cCCH----HHHHH
Confidence            99999999999999999999999999875443332 2333332    2479999999999986321 1112    22233


Q ss_pred             hhccccccccccccccCcceeEEeec
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      +....+++++++||++|.|+++++..
T Consensus       134 ~~~~~~~~~~~~Sa~~~~gi~~l~~~  159 (167)
T 1kao_A          134 LAEEWGCPFMETSAKSKTMVDELFAE  159 (167)
T ss_dssp             HHHHHTSCEEEECTTCHHHHHHHHHH
T ss_pred             HHHHhCCCEEEecCCCCcCHHHHHHH
Confidence            33444678899999999999875443

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=99.90  E-value=1.3e-24  Score=165.43  Aligned_cols=154  Identities=18%  Similarity=0.139  Sum_probs=103.8

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      |+..+|+++|.+|+|||||+++|++..+...+.++.+...... ....     ...                ..+.+|||
T Consensus         1 m~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~-~~~~-----~~~----------------~~~~l~D~   58 (167)
T 1c1y_A            1 MREYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQ-VEVD-----CQQ----------------CMLEILDT   58 (167)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEE-EESS-----SCE----------------EEEEEEEE
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceEEEE-EEEC-----CEE----------------EEEEEEEC
Confidence            3456799999999999999999998876554444333222110 0000     000                12899999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      ||++.+...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+... .....++.    ..
T Consensus        59 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~-~~~~~~~~----~~  133 (167)
T 1c1y_A           59 AGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDE-RVVGKEQG----QN  133 (167)
T ss_dssp             CSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGG-CCSCHHHH----HH
T ss_pred             CChHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECcccccc-ccCCHHHH----HH
Confidence            99999999999999999999999999875433332 23333332    47999999999999742 11122222    23


Q ss_pred             hhccc-cccccccccccCcceeEEeec
Q psy6316         177 QESSV-QTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       177 ~~~~~-~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      +...+ +.+++++||++|.|+++++..
T Consensus       134 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~  160 (167)
T 1c1y_A          134 LARQWCNCAFLESSAKSKINVNEIFYD  160 (167)
T ss_dssp             HHHHTTSCEEEECBTTTTBSHHHHHHH
T ss_pred             HHHHccCCcEEEecCCCCCCHHHHHHH
Confidence            33333 578889999999999875543

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=99.90  E-value=1.4e-24  Score=165.79  Aligned_cols=155  Identities=23%  Similarity=0.187  Sum_probs=107.0

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+++|.+|+|||||+|+|++..+.....++.+.+..........     ...                .+.+||||
T Consensus         5 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~----------------~~~~~Dt~   63 (170)
T 1z0j_A            5 RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQN-----ELH----------------KFLIWDTA   63 (170)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETT-----EEE----------------EEEEEEEC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECC-----eEE----------------EEEEEcCC
Confidence            456699999999999999999998887554444443332211111110     001                28999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      |++.+...+..+++.+|++++|+|+++..+.... .++..+..   .+.|+++|+||+|+.... ...    .+....+.
T Consensus        64 G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~-~v~----~~~~~~~~  138 (170)
T 1z0j_A           64 GLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVR-EVM----ERDAKDYA  138 (170)
T ss_dssp             CSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGC-CSC----HHHHHHHH
T ss_pred             CchhhhcccHhhCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCcccccc-ccC----HHHHHHHH
Confidence            9999998888999999999999999876554443 34455543   367899999999997421 111    22233344


Q ss_pred             ccccccccccccccCcceeEEeecC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ...+++++++||++|.|+++++..+
T Consensus       139 ~~~~~~~~~~Sa~~~~~i~~l~~~i  163 (170)
T 1z0j_A          139 DSIHAIFVETSAKNAININELFIEI  163 (170)
T ss_dssp             HHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             HHcCCEEEEEeCCCCcCHHHHHHHH
Confidence            4456788999999999998765544

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=99.90  E-value=3.6e-24  Score=164.78  Aligned_cols=153  Identities=19%  Similarity=0.214  Sum_probs=101.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+.....++.+.+..........     ..+                .+.+|||||
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~----------------~~~i~Dt~G   65 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDG-----HFV----------------TMQIWDTAG   65 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETT-----EEE----------------EEEEEECCC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECC-----EEE----------------EEEEEeCCC
Confidence            45699999999999999999998876544444433322111111110     001                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh-------CCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS-------KKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~-------~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      ++.+...+..+++.+|++++|+|+++..+.... .++..+..       .+.|+++|+||+|+..  .....++......
T Consensus        66 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~--~~~~~~~~~~~~~  143 (177)
T 1wms_A           66 QERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE--RQVSTEEAQAWCR  143 (177)
T ss_dssp             CGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS--CSSCHHHHHHHHH
T ss_pred             chhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCcccc--cccCHHHHHHHHH
Confidence            999999999999999999999999875443332 23333332       5689999999999862  1112222222222


Q ss_pred             hhhccccccccccccccCcceeEEeec
Q psy6316         176 SQESSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       176 ~~~~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      .   ..+++++++||++|.|+++++..
T Consensus       144 ~---~~~~~~~~~Sa~~~~gi~~l~~~  167 (177)
T 1wms_A          144 D---NGDYPYFETSAKDATNVAAAFEE  167 (177)
T ss_dssp             H---TTCCCEEECCTTTCTTHHHHHHH
T ss_pred             h---cCCceEEEEeCCCCCCHHHHHHH
Confidence            1   34578899999999999875543

>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.90  E-value=2.9e-24  Score=188.16  Aligned_cols=143  Identities=24%  Similarity=0.279  Sum_probs=102.3

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHHHH
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVRDI  173 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~~~  173 (259)
                      .+.|||||||++|...+..+++.+|++|+|+|++++...+..+++..+...+.| +++|+||+|+... .....+.+...
T Consensus       105 ~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~qt~~~l~~~~~~~~~~iIvviNK~Dl~~~-~~~~~~~i~~~  183 (434)
T 1zun_B          105 KFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSYIASLLGIKHIVVAINKMDLNGF-DERVFESIKAD  183 (434)
T ss_dssp             EEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEEECTTTTTS-CHHHHHHHHHH
T ss_pred             eEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEEcCcCCcc-cHHHHHHHHHH
Confidence            399999999999999999999999999999999999988998888888888875 8999999999742 11112234444


Q ss_pred             Hhhhhcccc-----ccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHH
Q psy6316         174 IKSQESSVQ-----THKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQL  248 (259)
Q Consensus       174 ~~~~~~~~~-----~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~  248 (259)
                      +..+...++     ++++++||++|.|+++++..    .+|+.+..              ..+.++. ++.+.+..+.+|
T Consensus       184 ~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~~~~----~~w~~g~~--------------L~~~l~~-i~~~~~~~~~~~  244 (434)
T 1zun_B          184 YLKFAEGIAFKPTTMAFVPMSALKGDNVVNKSER----SPWYAGQS--------------LMEILET-VEIASDRNYTDL  244 (434)
T ss_dssp             HHHHHHTTTCCCSEEEEEECCTTTCTTTSSCCTT----CTTCCSCC--------------TTHHHHH-SCCTTCCCSSSC
T ss_pred             HHHHHHHhCCCccCceEEEEeccCCCCccccccc----CccccCch--------------HHHHHhc-CCCcccCCCCCc
Confidence            555444444     67889999999999885543    33332110              1112222 345556667788


Q ss_pred             HHHHHHhhc
Q psy6316         249 MVDLKKVFQ  257 (259)
Q Consensus       249 ~~~i~~~~~  257 (259)
                      +++|+++|+
T Consensus       245 ~~~v~~v~~  253 (434)
T 1zun_B          245 RFPVQYVNR  253 (434)
T ss_dssp             EEECCEEEC
T ss_pred             EEEEEEEec
Confidence            888887764

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=99.90  E-value=3.6e-24  Score=168.67  Aligned_cols=154  Identities=15%  Similarity=0.137  Sum_probs=107.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+++|++..+......+++.+..........     ...                .+.||||||+
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~l~Dt~G~   67 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRND-----KRI----------------KLQIWDTAGL   67 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETT-----EEE----------------EEEEEEECCS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECC-----eEE----------------EEEEEECCCc
Confidence            4699999999999999999998877554444433222211111110     011                2999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      +.+...+..+++.+|++|+|+|+++..+.... .++..+..   .+.|+++|+||+|+.... ....    .....+...
T Consensus        68 ~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~-~~~~----~~~~~~~~~  142 (203)
T 1zbd_A           68 ERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDER-VVSS----ERGRQLADH  142 (203)
T ss_dssp             GGGHHHHHTTGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSC-CSCH----HHHHHHHHH
T ss_pred             hhhcchHHHhhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCccc-ccCH----HHHHHHHHH
Confidence            99999999999999999999999875443332 34455544   478999999999996421 1112    223334444


Q ss_pred             ccccccccccccCcceeEEeecCC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      .+++++++||++|.|+++++..+.
T Consensus       143 ~~~~~~~~Sa~~~~gi~~l~~~l~  166 (203)
T 1zbd_A          143 LGFEFFEASAKDNINVKQTFERLV  166 (203)
T ss_dssp             HTCEEEECBTTTTBSSHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            467889999999999988665543

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=99.90  E-value=2e-24  Score=166.35  Aligned_cols=153  Identities=16%  Similarity=0.157  Sum_probs=105.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+......+.+.+..........     ...                .+.+|||||
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~l~Dt~G   73 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSG-----QKI----------------KLQIWDTAG   73 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETT-----EEE----------------EEEEEECTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECC-----eEE----------------EEEEEECCC
Confidence            45699999999999999999998876544433333222111111100     001                289999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++++|+|+++..+.... .++..+..   .+.|+++|+||+|+.... ....    +..+.+..
T Consensus        74 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-~~~~----~~~~~~~~  148 (179)
T 1z0f_A           74 QERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQR-DVTY----EEAKQFAE  148 (179)
T ss_dssp             GGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC-CSCH----HHHHHHHH
T ss_pred             ChHhhhhHHHHhccCCEEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccc-ccCH----HHHHHHHH
Confidence            999999999999999999999999876444333 24444433   578999999999996321 1122    22333444


Q ss_pred             cccccccccccccCcceeEEeec
Q psy6316         180 SVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ..+++++++||++|.|+++++..
T Consensus       149 ~~~~~~~~~Sa~~~~gi~~l~~~  171 (179)
T 1z0f_A          149 ENGLLFLEASAKTGENVEDAFLE  171 (179)
T ss_dssp             HTTCEEEECCTTTCTTHHHHHHH
T ss_pred             HcCCEEEEEeCCCCCCHHHHHHH
Confidence            45678899999999999875543

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=99.90  E-value=2.8e-24  Score=166.75  Aligned_cols=153  Identities=20%  Similarity=0.164  Sum_probs=105.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+++|++..+......+.+.+..........     ...                .+.+|||||
T Consensus        10 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~----------------~~~l~Dt~G   68 (186)
T 2bme_A           10 LFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGG-----KYV----------------KLQIWDTAG   68 (186)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETT-----EEE----------------EEEEEEECC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECC-----EEE----------------EEEEEeCCC
Confidence            45699999999999999999998887655544444333221111110     001                289999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHH---hCCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILK---SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~---~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++++|+|+++..+.... .++..+.   ..+.|+++|+||+|+.... .....    ....+..
T Consensus        69 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-~~~~~----~~~~~~~  143 (186)
T 2bme_A           69 QERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADR-EVTFL----EASRFAQ  143 (186)
T ss_dssp             SGGGHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC-CSCHH----HHHHHHH
T ss_pred             cHHHHHHHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccc-ccCHH----HHHHHHH
Confidence            999999999999999999999999875443332 2443333   3578999999999996321 11222    2233344


Q ss_pred             cccccccccccccCcceeEEeec
Q psy6316         180 SVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ..+++++++||++|.|+++++..
T Consensus       144 ~~~~~~~~~Sa~~~~gi~~l~~~  166 (186)
T 2bme_A          144 ENELMFLETSALTGENVEEAFVQ  166 (186)
T ss_dssp             HTTCEEEECCTTTCTTHHHHHHH
T ss_pred             HcCCEEEEecCCCCCCHHHHHHH
Confidence            45678899999999999775443

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.90  E-value=3.7e-24  Score=168.74  Aligned_cols=153  Identities=18%  Similarity=0.190  Sum_probs=105.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+...+..+++.++.........     ..+                .+.||||||
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~l~l~Dt~G   84 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEING-----EKV----------------KLQIWDTAG   84 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETT-----EEE----------------EEEEEEECC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECC-----EEE----------------EEEEEECCC
Confidence            45699999999999999999998887655544444333221111110     001                289999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++++|+|+++..+... ..++..+..   .+.|+++|+||+|+... .....+    ..+.+..
T Consensus        85 ~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~-~~v~~~----~~~~~~~  159 (201)
T 2ew1_A           85 QERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAER-REVSQQ----RAEEFSE  159 (201)
T ss_dssp             SGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGG-CSSCHH----HHHHHHH
T ss_pred             cHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccc-cccCHH----HHHHHHH
Confidence            99999999999999999999999987544332 234444443   46899999999999632 111122    2233334


Q ss_pred             cccccccccccccCcceeEEeec
Q psy6316         180 SVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ..+++++++||++|.|+++++..
T Consensus       160 ~~~~~~~~~Sa~~g~gv~~l~~~  182 (201)
T 2ew1_A          160 AQDMYYLETSAKESDNVEKLFLD  182 (201)
T ss_dssp             HHTCCEEECCTTTCTTHHHHHHH
T ss_pred             HcCCEEEEEeCCCCCCHHHHHHH
Confidence            44678899999999999875543

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=99.90  E-value=3.2e-24  Score=163.20  Aligned_cols=154  Identities=14%  Similarity=0.116  Sum_probs=101.9

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      |+..+|+++|.+|+|||||+++|++..+.....++........ ...     .....                .+.+|||
T Consensus         2 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~-~~~-----~~~~~----------------~~~l~D~   59 (168)
T 1u8z_A            2 LALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKK-VVL-----DGEEV----------------QIDILDT   59 (168)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEE-EEE-----TTEEE----------------EEEEEEC
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEEEEE-EEE-----CCEEE----------------EEEEEEC
Confidence            4556799999999999999999998876544433333222100 000     00001                2899999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      ||++.+...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+.... ....+    ....
T Consensus        60 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~-~~~~~----~~~~  134 (168)
T 1u8z_A           60 AGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKR-QVSVE----EAKN  134 (168)
T ss_dssp             CC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGC-CSCHH----HHHH
T ss_pred             CCcchhHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccC-ccCHH----HHHH
Confidence            99999999999999999999999999875443332 23333332    378999999999997421 11222    2333


Q ss_pred             hhccccccccccccccCcceeEEeec
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      +....+++++++||++|.|+++++..
T Consensus       135 ~~~~~~~~~~~~Sa~~~~gi~~l~~~  160 (168)
T 1u8z_A          135 RADQWNVNYVETSAKTRANVDKVFFD  160 (168)
T ss_dssp             HHHHHTCEEEECCTTTCTTHHHHHHH
T ss_pred             HHHHcCCeEEEeCCCCCCCHHHHHHH
Confidence            33445678899999999999875543

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.90  E-value=1e-23  Score=164.63  Aligned_cols=152  Identities=17%  Similarity=0.173  Sum_probs=105.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      .++|+++|.+|+|||||+|+|++...... ....+     ++.......        .           ..++.+|||||
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~-~~~~~-----~t~~~~~~~--------~-----------~~~~~i~Dt~G   77 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNRKIAFV-SKTPG-----KTRSINFYL--------V-----------NSKYYFVDLPG   77 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTSCCSCC-CSSCC-----CCCCEEEEE--------E-----------TTTEEEEECCC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCccccc-cCCCC-----CccCeEEEE--------E-----------CCcEEEEECCC
Confidence            46799999999999999999998763211 11111     111110000        0           01299999999


Q ss_pred             ----------CcchHHHHHhhccC---CCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhH
Q psy6316         104 ----------HESFSNLRNRGSSL---CDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDV  170 (259)
Q Consensus       104 ----------~~~~~~~~~~~~~~---ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~  170 (259)
                                +..+...+..+++.   +|++++|+|+++.........+..+...+.|+++|+||+|+....   .....
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~---~~~~~  154 (195)
T 3pqc_A           78 YGYAKVSKKERMLWKRLVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSLNIPFTIVLTKMDKVKMS---ERAKK  154 (195)
T ss_dssp             BSSSCCCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCCEEEEEECGGGSCGG---GHHHH
T ss_pred             CccccCChhhHHHHHHHHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHcCCCEEEEEEChhcCChH---HHHHH
Confidence                      45566666666654   499999999988888888888888888899999999999997421   23344


Q ss_pred             HHHHhhhhcc-ccccccccccccCcceeEEeecC
Q psy6316         171 RDIIKSQESS-VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       171 ~~~~~~~~~~-~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+.+...... ..++++++||++|.|+++++..+
T Consensus       155 ~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l  188 (195)
T 3pqc_A          155 LEEHRKVFSKYGEYTIIPTSSVTGEGISELLDLI  188 (195)
T ss_dssp             HHHHHHHHHSSCCSCEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHHHHHhhcCCCceEEEecCCCCCHHHHHHHH
Confidence            4445554444 34688899999999998855443

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=99.90  E-value=3.3e-24  Score=167.12  Aligned_cols=159  Identities=16%  Similarity=0.171  Sum_probs=105.8

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEE
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLII   99 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li   99 (259)
                      ..++..+|+++|.+|+|||||+++|++..+......+++.+..........     ...                .+.||
T Consensus        16 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~l~   74 (189)
T 1z06_A           16 SRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDG-----ERI----------------KIQLW   74 (189)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETT-----EEE----------------EEEEE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECC-----EEE----------------EEEEE
Confidence            345667899999999999999999998877654444433222211111110     001                29999


Q ss_pred             eCCCCcchH-HHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHH----hCCCCEEEEEecccccCcccccchhhHHHH
Q psy6316         100 DTPGHESFS-NLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDI  173 (259)
Q Consensus       100 DtpG~~~~~-~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~  173 (259)
                      ||||++.+. ..+..+++.+|++|+|+|+++..+... ..++..+.    ..+.|+++|+||+|+.... ...    ...
T Consensus        75 Dt~G~~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~-~v~----~~~  149 (189)
T 1z06_A           75 DTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAI-QVP----TDL  149 (189)
T ss_dssp             ECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGC-CSC----HHH
T ss_pred             ECCCchhhhhhhhHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc-eeC----HHH
Confidence            999999888 778888999999999999987544333 22334333    3478999999999996321 111    222


Q ss_pred             HhhhhccccccccccccccC---cceeEEeecCC
Q psy6316         174 IKSQESSVQTHKTVESARKG---QEICIKIEPIP  204 (259)
Q Consensus       174 ~~~~~~~~~~~~i~~Sa~~g---~gv~~~l~~i~  204 (259)
                      .+.+....+++++++||++|   .|+.+++..+.
T Consensus       150 ~~~~~~~~~~~~~~~Sa~~~~~~~~i~~l~~~l~  183 (189)
T 1z06_A          150 AQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLA  183 (189)
T ss_dssp             HHHHHHHTTCCEEECCSSSGGGGSCHHHHHHHHC
T ss_pred             HHHHHHHcCCEEEEEeCCcCCcccCHHHHHHHHH
Confidence            33444445678899999999   78777665554

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=99.90  E-value=2.1e-24  Score=168.92  Aligned_cols=157  Identities=15%  Similarity=0.102  Sum_probs=109.6

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      .+..+|+++|.+|+|||||+++|++..+...+.++.+..+... ...     ....+                .+.+|||
T Consensus        21 ~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~-~~~-----~~~~~----------------~~~i~Dt   78 (194)
T 3reg_A           21 KKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSHV-MKY-----KNEEF----------------ILHLWDT   78 (194)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEE-EEE-----TTEEE----------------EEEEEEE
T ss_pred             ceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeEEE-EEE-----CCEEE----------------EEEEEEC
Confidence            3456699999999999999999999887655544444333211 000     00001                1799999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHhC--CCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKSK--KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~~--~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      ||++.+...+..+++.+|++++|+|+++..+....  .++..+...  +.|+++|+||+|+.....   .....+....+
T Consensus        79 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~---~~~~~~~~~~~  155 (194)
T 3reg_A           79 AGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTVLVGLKVDLRKDGS---DDVTKQEGDDL  155 (194)
T ss_dssp             CCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSEEEEEEECGGGCCTTT---TCCCHHHHHHH
T ss_pred             CCcHHHHHHhHhhccCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccCCC---CcccHHHHHHH
Confidence            99999999999999999999999999886555442  345555443  689999999999974311   12223334444


Q ss_pred             hcccccc-ccccccccCcceeEEeecC
Q psy6316         178 ESSVQTH-KTVESARKGQEICIKIEPI  203 (259)
Q Consensus       178 ~~~~~~~-~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ....++. ++++||++|.|+++++..+
T Consensus       156 ~~~~~~~~~~~~Sa~~~~gi~~l~~~l  182 (194)
T 3reg_A          156 CQKLGCVAYIEASSVAKIGLNEVFEKS  182 (194)
T ss_dssp             HHHHTCSCEEECBTTTTBSHHHHHHHH
T ss_pred             HHhcCCCEEEEeecCCCCCHHHHHHHH
Confidence            4455666 8899999999998865444

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=99.90  E-value=4.8e-24  Score=166.29  Aligned_cols=161  Identities=19%  Similarity=0.099  Sum_probs=105.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeecc-ccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIG-ATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      ..+|+++|.+|+|||||+++|++..+......+++.++. ..........  ....          .......+.+||||
T Consensus        11 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~~----------~~~~~~~~~l~Dt~   78 (195)
T 3bc1_A           11 LIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGP--DGAV----------GRGQRIHLQLWDTA   78 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSC--CCSS----------CCCEEEEEEEEEEC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCc--cccc----------ccCcEEEEEEEeCC
Confidence            356999999999999999999988775544444433222 1111100000  0000          00001139999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      |++.+...+..+++.+|++++|+|+++..+... ..++..+..    .+.|+++|+||+|+.... ...    .+....+
T Consensus        79 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~-~~~----~~~~~~~  153 (195)
T 3bc1_A           79 GLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQR-AVK----EEEAREL  153 (195)
T ss_dssp             CSGGGHHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGC-CSC----HHHHHHH
T ss_pred             CcHHHHHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc-ccC----HHHHHHH
Confidence            999999999999999999999999987544443 334444443    578999999999986421 111    2223334


Q ss_pred             hccccccccccccccCcceeEEee
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      ....+++++++||++|.|+++++.
T Consensus       154 ~~~~~~~~~~~Sa~~~~~v~~l~~  177 (195)
T 3bc1_A          154 AEKYGIPYFETSAANGTNISHAIE  177 (195)
T ss_dssp             HHHHTCCEEECCTTTCTTHHHHHH
T ss_pred             HHHcCCCEEEEECCCCCCHHHHHH
Confidence            444467889999999999977443

>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain, beta-barrel, translational GTPase, D structural genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*

Probab=99.90  E-value=3.1e-24  Score=190.28  Aligned_cols=151  Identities=19%  Similarity=0.225  Sum_probs=103.4

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCC-------CCHHHHHHHHHHHhCCC-CEEEEEecccccCcccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG-------LEPQTIESINILKSKKT-PFVVALNKIDRLYNWNTMN  166 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~-------~~~~~~~~l~~~~~~~~-piivv~NK~D~~~~~~~~~  166 (259)
                      .+.|||||||++|...+..+++.+|++|+|+|++++       ...+..+++..+...+. |+|+|+||+|+.. +....
T Consensus       112 ~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~~~~~iIvviNK~Dl~~-~~~~~  190 (483)
T 3p26_A          112 NFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVD-WSQQR  190 (483)
T ss_dssp             EEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHTTCCCEEEEEECGGGGT-TCHHH
T ss_pred             eEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHcCCCcEEEEEECcCccc-chHHH
Confidence            499999999999999999999999999999999886       45677888888888775 5999999999974 22222


Q ss_pred             hhhHHHHHhhhhccc-----cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHh--
Q psy6316         167 RRDVRDIIKSQESSV-----QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRD--  239 (259)
Q Consensus       167 ~~~~~~~~~~~~~~~-----~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~--  239 (259)
                      .+++...+..+....     .++++++||++|.|++++..... ..+|+.+.           ...+.++.+.+..+.  
T Consensus       191 ~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~el~~~~~-~~~wy~g~-----------~L~~~L~~i~~~~~~~~  258 (483)
T 3p26_A          191 FEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKIEYTDE-VRQWYNGP-----------NLMSTLENAAFKISKEN  258 (483)
T ss_dssp             HHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSSSCCCHH-HHHHCCSC-----------CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCccccCcccc-cccccCCC-----------CHHHHHHHHHhhccccc
Confidence            334444444443322     45778999999999987432110 01222111           112344444333443  


Q ss_pred             hcCchhhHHHHHHHHhhcc
Q psy6316         240 DLQKTDWQLMVDLKKVFQI  258 (259)
Q Consensus       240 ~~~~~~~~~~~~i~~~~~~  258 (259)
                      +.+..+.||+|+|+++|++
T Consensus       259 p~~~~~~p~r~~v~~v~~~  277 (483)
T 3p26_A          259 EGINKDDPFLFSVLEIIPS  277 (483)
T ss_dssp             TTCCSSSCCEEEEEEEEC-
T ss_pred             ccccCCCceEEEEEEEEcc
Confidence            5677889999999999875

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=99.90  E-value=1.4e-24  Score=167.21  Aligned_cols=156  Identities=17%  Similarity=0.197  Sum_probs=105.7

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      |+..+|+++|++|+|||||+++|++..+.....++.+.+..........     ...                .+.+|||
T Consensus        12 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~----------------~~~~~Dt   70 (179)
T 2y8e_A           12 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLED-----RTV----------------RLQLWDT   70 (179)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETT-----EEE----------------EEEEEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECC-----eEE----------------EEEEEEC
Confidence            4556799999999999999999998877554444433222111111110     000                2999999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      ||++.+...+..+++.+|++++|+|+++..+... ..++..+..   .+.|+++|+||+|+.... .....+    ....
T Consensus        71 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~-~~~~~~----~~~~  145 (179)
T 2y8e_A           71 AGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKR-QVSTEE----GERK  145 (179)
T ss_dssp             CCSGGGGGGSHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGC-CSCHHH----HHHH
T ss_pred             CCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccC-cCCHHH----HHHH
Confidence            9999999888899999999999999987433332 234444432   478999999999987421 111222    2233


Q ss_pred             hccccccccccccccCcceeEEeecC
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ....+++++++||++|.|+++++..+
T Consensus       146 ~~~~~~~~~~~Sa~~~~~i~~l~~~l  171 (179)
T 2y8e_A          146 AKELNVMFIETSAKAGYNVKQLFRRV  171 (179)
T ss_dssp             HHHHTCEEEEEBTTTTBSHHHHHHHH
T ss_pred             HHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            33446788999999999998866544

>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation factor, protein synthesis, antibiotic, GTP-binding, nucleotide-binding; HET: GNP PUL; 1.4A {Thermus thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z* 2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A* 2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...

Probab=99.90  E-value=1.5e-24  Score=188.38  Aligned_cols=204  Identities=22%  Similarity=0.236  Sum_probs=134.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCC---CCcc--------eeeccccccCccccccccccccCCCCCCCCCCCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGE---AGGI--------TQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLE   92 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~---~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (259)
                      ..+|+++|++|+|||||+++|++.....+.   ....        ....+.+ ......     ..           ...
T Consensus        11 ~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiT-i~~~~~-----~~-----------~~~   73 (405)
T 2c78_A           11 HVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGIT-INTAHV-----EY-----------ETA   73 (405)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCC-CSCEEE-----EE-----------ECS
T ss_pred             eEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCC-EEeeee-----Ee-----------ccC
Confidence            456999999999999999999874211110   0000        0000110 000000     00           111


Q ss_pred             CCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHH
Q psy6316          93 IPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVR  171 (259)
Q Consensus        93 ~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~  171 (259)
                      ...+.|||||||++|...+..+++.+|++|+|+|++++...+..+++..+...++| +++++||+|+....  ...+.+.
T Consensus        74 ~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~~~l~~~~~~~ip~iivviNK~Dl~~~~--~~~~~~~  151 (405)
T 2c78_A           74 KRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDP--ELLDLVE  151 (405)
T ss_dssp             SCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHTTCCCEEEEEECGGGCCCH--HHHHHHH
T ss_pred             CeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEECccccCcH--HHHHHHH
Confidence            22499999999999999999999999999999999999999999999999889999 88999999997321  0112222


Q ss_pred             HHHhhhhccc-----cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhh
Q psy6316         172 DIIKSQESSV-----QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDW  246 (259)
Q Consensus       172 ~~~~~~~~~~-----~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~  246 (259)
                      ..+..+....     .++++++||++|.|+...-..       ... .   ...+ .+-+.+.++.+.++++.+.+..+.
T Consensus       152 ~~~~~~l~~~~~~~~~~~~i~~SA~~g~~v~~~~~~-------~~~-~---~~~~-~~~i~~Ll~~l~~~lp~p~~~~~~  219 (405)
T 2c78_A          152 MEVRDLLNQYEFPGDEVPVIRGSALLALEQMHRNPK-------TRR-G---ENEW-VDKIWELLDAIDEYIPTPVRDVDK  219 (405)
T ss_dssp             HHHHHHHHHTTSCTTTSCEEECCHHHHHHHHHHCTT-------CCT-T---SCHH-HHHHHHHHHHHHHHSCCCCCCCSS
T ss_pred             HHHHHHHHHhcccccCCCEEEccHHHhhhhhccccc-------ccc-C---CCcc-cccHHHHHHHHHhhcCCCCCCCCC
Confidence            3333333332     357889999999986431000       000 0   0112 223467778888888888888889


Q ss_pred             HHHHHHHHhhcc
Q psy6316         247 QLMVDLKKVFQI  258 (259)
Q Consensus       247 ~~~~~i~~~~~~  258 (259)
                      +|+++|+++|++
T Consensus       220 p~~~~v~~v~~~  231 (405)
T 2c78_A          220 PFLMPVEDVFTI  231 (405)
T ss_dssp             CCEEECCEEEEE
T ss_pred             CcEEEEEEEEEc
Confidence            999999998874

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.90  E-value=2.2e-24  Score=168.69  Aligned_cols=153  Identities=16%  Similarity=0.205  Sum_probs=99.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+......+++.+..........     ..+                .+.+|||||
T Consensus        26 ~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~l~l~Dt~G   84 (192)
T 2il1_A           26 KLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRG-----KKI----------------RLQIWDTAG   84 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETT-----EEE----------------EEEEEEECC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECC-----eEE----------------EEEEEeCCC
Confidence            45699999999999999999998876544433333222211111100     001                289999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++|+|+|+++..+.... .++..+..   .+.|+++|+||+|+.... ....++    .+.+..
T Consensus        85 ~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~-~v~~~~----~~~~~~  159 (192)
T 2il1_A           85 QERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDR-EITRQQ----GEKFAQ  159 (192)
T ss_dssp             SGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC-CSCHHH----HHHHHH
T ss_pred             cHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccc-ccCHHH----HHHHHH
Confidence            999999999999999999999999876544443 23344433   478999999999986421 112222    223333


Q ss_pred             c-ccccccccccccCcceeEEeec
Q psy6316         180 S-VQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       180 ~-~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      . .++.++++||++|.|+++++..
T Consensus       160 ~~~~~~~~~~SA~~g~gi~~l~~~  183 (192)
T 2il1_A          160 QITGMRFCEASAKDNFNVDEIFLK  183 (192)
T ss_dssp             TSTTCEEEECBTTTTBSHHHHHHH
T ss_pred             hcCCCeEEEEeCCCCCCHHHHHHH
Confidence            3 2578889999999999875543

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=99.90  E-value=1.7e-24  Score=164.98  Aligned_cols=153  Identities=15%  Similarity=0.180  Sum_probs=103.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+++|++..+...+..+++.+..........     ...                .+.+|||||
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~l~Dt~G   63 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVND-----EDV----------------RLMLWDTAG   63 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETT-----EEE----------------EEEEECCTT
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECC-----EEE----------------EEEEEcCCC
Confidence            35699999999999999999998876554444333222111111100     001                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh--CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS--KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ++.+...+..+++.+|++++|+|+++..+.... .++..+..  .+.|+++|+||+|+.... ....    ...+.+...
T Consensus        64 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~-~~~~----~~~~~~~~~  138 (168)
T 1z2a_A           64 QEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLLDDS-CIKN----EEAEGLAKR  138 (168)
T ss_dssp             GGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCCEEEEEECGGGGGGC-SSCH----HHHHHHHHH
T ss_pred             cHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccCccc-ccCH----HHHHHHHHH
Confidence            998888888899999999999999875433322 34444433  478999999999987421 1112    223334444


Q ss_pred             ccccccccccccCcceeEEeec
Q psy6316         181 VQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      .+++++++||++|.|+++++..
T Consensus       139 ~~~~~~~~Sa~~~~~i~~l~~~  160 (168)
T 1z2a_A          139 LKLRFYRTSVKEDLNVSEVFKY  160 (168)
T ss_dssp             HTCEEEECBTTTTBSSHHHHHH
T ss_pred             cCCeEEEEecCCCCCHHHHHHH
Confidence            5678899999999999775443

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=99.90  E-value=2e-24  Score=168.33  Aligned_cols=152  Identities=15%  Similarity=0.113  Sum_probs=104.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+......+.+.++.........     ...                .+.+|||||
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~l~Dt~G   80 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHD-----KRI----------------KLQIWDTAG   80 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETT-----EEE----------------EEEEEECCS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECC-----eEE----------------EEEEEeCCC
Confidence            35699999999999999999998877544433333222111111100     011                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++++|+|+++..+... ..++..+..   .+.|+++|+||+|+.... ...    ....+.+..
T Consensus        81 ~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~-~~~----~~~~~~~~~  155 (189)
T 2gf9_A           81 QERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDER-VVP----AEDGRRLAD  155 (189)
T ss_dssp             CCSSCCSGGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC-CSC----HHHHHHHHH
T ss_pred             cHHHhhhHHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccccccc-CCC----HHHHHHHHH
Confidence            99998888899999999999999987544333 235555554   378999999999986421 111    222334444


Q ss_pred             cccccccccccccCcceeEEee
Q psy6316         180 SVQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      ..+++++++||++|.|+++++.
T Consensus       156 ~~~~~~~~~Sa~~g~gi~~l~~  177 (189)
T 2gf9_A          156 DLGFEFFEASAKENINVKQVFE  177 (189)
T ss_dssp             HHTCEEEECBTTTTBSHHHHHH
T ss_pred             HcCCeEEEEECCCCCCHHHHHH
Confidence            4567899999999999977543

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.90  E-value=4.2e-24  Score=167.91  Aligned_cols=172  Identities=19%  Similarity=0.156  Sum_probs=106.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccc----------cccccccCCC------CCCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIR----------ENTKHVRGPG------GEVGG   87 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~------~~~~~   87 (259)
                      ..+|+++|++|+|||||+|+|++..+.....++++..+...........          .....+....      .....
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQHNNY   86 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC-------------------------------CC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCccccccccccccccccccccccccccccccccc
Confidence            3459999999999999999999988765555444433322211111100          0000000000      00000


Q ss_pred             CCCCCCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh-CCCCEEEEEecccccCccccc
Q psy6316          88 PGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS-KKTPFVVALNKIDRLYNWNTM  165 (259)
Q Consensus        88 ~~~~~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~-~~~piivv~NK~D~~~~~~~~  165 (259)
                      +.......+.||||||++.+...+..+++.+|++++|+|++++.+.... .++..+.. .+.|+++|+||+| .. ....
T Consensus        87 ~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~piilv~NK~D-~~-~~~~  164 (208)
T 3clv_A           87 NENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSNYIIILVANKID-KN-KFQV  164 (208)
T ss_dssp             CTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCCEEEEEEECTT-CC--CCS
T ss_pred             cCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCCCcEEEEEECCC-cc-cccC
Confidence            0000112499999999999999899999999999999999876554443 34555544 4689999999999 32 1222


Q ss_pred             chhhHHHHHhhhhccccccccccccccCcceeEEee
Q psy6316         166 NRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      ..++    +..+....+++++++||++|.|+++++.
T Consensus       165 ~~~~----~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  196 (208)
T 3clv_A          165 DILE----VQKYAQDNNLLFIQTSAKTGTNIKNIFY  196 (208)
T ss_dssp             CHHH----HHHHHHHTTCEEEEECTTTCTTHHHHHH
T ss_pred             CHHH----HHHHHHHcCCcEEEEecCCCCCHHHHHH
Confidence            2233    3334444567889999999999977543

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=99.90  E-value=3.7e-24  Score=168.68  Aligned_cols=153  Identities=17%  Similarity=0.151  Sum_probs=100.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|.+..+...+..+++.++.........     ..+                .+.||||||
T Consensus        29 ~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~l~i~Dt~G   87 (201)
T 2hup_A           29 LFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQG-----KRV----------------KLQIWDTAG   87 (201)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETT-----EEE----------------EEEEECCTT
T ss_pred             ceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECC-----EEE----------------EEEEEECCC
Confidence            45699999999999999999998876544433333222111111100     001                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++|+|+|+++..+... ..++..+..   .+.|+++|+||+|+... .....+    ..+.+..
T Consensus        88 ~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~-~~v~~~----~~~~~~~  162 (201)
T 2hup_A           88 QERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSEL-REVSLA----EAQSLAE  162 (201)
T ss_dssp             CGGGHHHHHHHHTTCSEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG-CCSCHH----HHHHHHH
T ss_pred             cHhHHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccccc-cccCHH----HHHHHHH
Confidence            99999999999999999999999987544333 234555543   46899999999999742 111222    2333444


Q ss_pred             cccc-cccccccccCcceeEEeec
Q psy6316         180 SVQT-HKTVESARKGQEICIKIEP  202 (259)
Q Consensus       180 ~~~~-~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ..++ +++++||++|.|+++++..
T Consensus       163 ~~~~~~~~~~SA~~g~gi~~l~~~  186 (201)
T 2hup_A          163 HYDILCAIETSAKDSSNVEEAFLR  186 (201)
T ss_dssp             HTTCSEEEECBTTTTBSHHHHHHH
T ss_pred             HcCCCEEEEEeCCCCCCHHHHHHH
Confidence            4566 7889999999999875543

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.90  E-value=1.7e-24  Score=166.95  Aligned_cols=152  Identities=14%  Similarity=0.120  Sum_probs=103.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+......+.+.+...........     ..                .+.+|||||
T Consensus         9 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~----------------~~~i~Dt~G   67 (181)
T 3tw8_B            9 LFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGE-----KV----------------KLQIWDTAG   67 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTE-----EE----------------EEEEEEETT
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCE-----EE----------------EEEEEcCCC
Confidence            356999999999999999999988765544444433332221111110     01                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh--CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS--KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ++.+...+..+++.+|++++|+|+++..+..... ++..+..  .+.|+++|+||+|+.... ...    ......+...
T Consensus        68 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~-~~~----~~~~~~~~~~  142 (181)
T 3tw8_B           68 QERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCDDVCRILVGNKNDDPERK-VVE----TEDAYKFAGQ  142 (181)
T ss_dssp             GGGCSSCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHCTTSEEEEEEECTTCGGGC-CSC----HHHHHHHHHH
T ss_pred             chhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECCCCchhc-ccC----HHHHHHHHHH
Confidence            9999888889999999999999998854444432 4444444  358999999999987421 111    1223334444


Q ss_pred             ccccccccccccCcceeEEee
Q psy6316         181 VQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      .+++++++||++|.|+++++.
T Consensus       143 ~~~~~~~~Sa~~~~gi~~l~~  163 (181)
T 3tw8_B          143 MGIQLFETSAKENVNVEEMFN  163 (181)
T ss_dssp             HTCCEEECBTTTTBSHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHH
Confidence            467889999999999987543

>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger, initiate translation, tRNA binding, mRNA bindin binding; HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB: 3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A* 3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*

Probab=99.89  E-value=1e-23  Score=182.97  Aligned_cols=169  Identities=22%  Similarity=0.194  Sum_probs=104.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+|+|++......... .....+..... ............. .............+.||||||
T Consensus         8 ~~~I~vvG~~~~GKSTLi~~L~~~~~~~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~-~~~~~~~~~~~~~~~iiDtPG   84 (403)
T 3sjy_A            8 EVNIGVVGHVDHGKTTLVQAITGIWTSKKLGY-AETNIGVCESC-KKPEAYVTEPSCK-SCGSDDEPKFLRRISFIDAPG   84 (403)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHSCCCCSSSEE-EEEEEEECTTS-CTTTTEESSSCCG-GGTCCSCCEEEEEEEEEECCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCcccccccCc-cccceeecccc-ccccceecccccc-cccccccccccceEEEEECCC
Confidence            45599999999999999999987543321100 11111110000 0000000000000 000000001112499999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCC-CHHHHHHHHHHHhCCC-CEEEEEecccccCcccccchhhHHHHHhhhhcc-
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGL-EPQTIESINILKSKKT-PFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS-  180 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~-~~~~~~~l~~~~~~~~-piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~-  180 (259)
                      |++|...+..++..+|++++|+|++++. ..+..+++..+...+. |+++|+||+|+....   ......+.+...... 
T Consensus        85 h~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~---~~~~~~~~i~~~l~~~  161 (403)
T 3sjy_A           85 HEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDVVSKE---EALSQYRQIKQFTKGT  161 (403)
T ss_dssp             CGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCHH---HHHHHHHHHHHHHTTS
T ss_pred             cHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcCCCCEEEEEECccccchH---HHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999986 7788888888877664 899999999997421   112222233333222 


Q ss_pred             --ccccccccccccCcceeE
Q psy6316         181 --VQTHKTVESARKGQEICI  198 (259)
Q Consensus       181 --~~~~~i~~Sa~~g~gv~~  198 (259)
                        ..++++++||++|.|+++
T Consensus       162 ~~~~~~ii~vSA~~g~gi~~  181 (403)
T 3sjy_A          162 WAENVPIIPVSALHKINIDS  181 (403)
T ss_dssp             TTTTCCEEECBTTTTBSHHH
T ss_pred             CCCCCEEEEEECCCCcChHH
Confidence              146788999999999854

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=99.89  E-value=1.1e-23  Score=164.83  Aligned_cols=155  Identities=15%  Similarity=0.108  Sum_probs=99.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCc------ceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeE
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGG------ITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLL   97 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (259)
                      ..+|+++|.+|+|||||++.+.+..........      ...+.+........     ..+           ......+.
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~-----~~~-----------~~~~~~~~   77 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDI-----GEV-----------KGFKTRFH   77 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHTSCGGGBCCCEEEECSSCEEEEEEECCSSC-----CCS-----------SSCEEEEE
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhhccccccccccccccccccceeeeeccccc-----ccc-----------cCCceEEE
Confidence            355999999999999999888765432211100      00111111111000     000           00111299


Q ss_pred             EEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHH----Hh-----CCCCEEEEEecccccCcccccchh
Q psy6316          98 IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL----KS-----KKTPFVVALNKIDRLYNWNTMNRR  168 (259)
Q Consensus        98 liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~----~~-----~~~piivv~NK~D~~~~~~~~~~~  168 (259)
                      +|||||++.+...+..+++.+|++|+|+|++++....+.+.+..+    ..     .+.|+++|+||+|+...   ..  
T Consensus        78 i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~piilv~NK~Dl~~~---~~--  152 (198)
T 3t1o_A           78 LYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVPIVIQVNKRDLPDA---LP--  152 (198)
T ss_dssp             EEECCSCCSCSHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCCTTSSCEEEEEECTTSTTC---CC--
T ss_pred             EEeCCChHHHHHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccccCCCCEEEEEEchhcccc---cC--
Confidence            999999999999999999999999999999865444443333222    21     47899999999998642   12  


Q ss_pred             hHHHHHhhhhccccc-cccccccccCcceeEEee
Q psy6316         169 DVRDIIKSQESSVQT-HKTVESARKGQEICIKIE  201 (259)
Q Consensus       169 ~~~~~~~~~~~~~~~-~~i~~Sa~~g~gv~~~l~  201 (259)
                        .+.++.+....++ +++++||++|.|+++++.
T Consensus       153 --~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  184 (198)
T 3t1o_A          153 --VEMVRAVVDPEGKFPVLEAVATEGKGVFETLK  184 (198)
T ss_dssp             --HHHHHHHHCTTCCSCEEECBGGGTBTHHHHHH
T ss_pred             --HHHHHHHHHhcCCceEEEEecCCCcCHHHHHH
Confidence              2234444555667 889999999999977544

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=99.89  E-value=4.2e-24  Score=164.80  Aligned_cols=155  Identities=17%  Similarity=0.143  Sum_probs=104.8

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      .+..+|+++|.+|+|||||+++|++..+.....++....+. .......     ...                .+.+|||
T Consensus         7 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~-----~~~----------------~~~~~Dt   64 (181)
T 2fn4_A            7 SETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDG-----IPA----------------RLDILDT   64 (181)
T ss_dssp             SCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETT-----EEE----------------EEEEEEC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECC-----EEE----------------EEEEEEC
Confidence            44567999999999999999999988765544444333221 0000000     001                2899999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHH----HhCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINIL----KSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~----~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      ||++.+...+..+++.+|++++|+|+++..+.... .++..+    ...+.|+++|+||+|+.... ...    ......
T Consensus        65 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-~v~----~~~~~~  139 (181)
T 2fn4_A           65 AGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQR-QVP----RSEASA  139 (181)
T ss_dssp             CCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGC-CSC----HHHHHH
T ss_pred             CCchhhHHHHHHHHhhCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc-ccC----HHHHHH
Confidence            99999988888899999999999999875443332 233333    23578999999999997421 111    122333


Q ss_pred             hhccccccccccccccCcceeEEeecC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +....+++++++||++|.|+++++..+
T Consensus       140 ~~~~~~~~~~~~Sa~~~~gv~~l~~~l  166 (181)
T 2fn4_A          140 FGASHHVAYFEASAKLRLNVDEAFEQL  166 (181)
T ss_dssp             HHHHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             HHHHcCCeEEEecCCCCCCHHHHHHHH
Confidence            334446788999999999998755433

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.89  E-value=4.1e-24  Score=164.88  Aligned_cols=153  Identities=16%  Similarity=0.185  Sum_probs=95.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCC-CCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQD-GEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      ..+|+++|.+|+|||||+++|++..+.. ...++.+.++.........     ...                .+.+||||
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~~~Dt~   68 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDG-----VKV----------------KLQMWDTA   68 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETT-----EEE----------------EEEEEECC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECC-----EEE----------------EEEEEeCC
Confidence            4569999999999999999999887642 2222222222111111100     001                28999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      |++.+...+..+++.+|++++|+|+++..+... ..++..+..   .+.|+++|+||+|+.... ....++    ...+.
T Consensus        69 G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~-~~~~~~----~~~~~  143 (180)
T 2g6b_A           69 GQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHER-VVKRED----GEKLA  143 (180)
T ss_dssp             CC--------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCC-CSCHHH----HHHHH
T ss_pred             CcHHHHHHHHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCccc-ccCHHH----HHHHH
Confidence            999999999999999999999999987544333 234444443   578999999999997421 112222    23333


Q ss_pred             ccccccccccccccCcceeEEeec
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ...+++++++||++|.|+++++..
T Consensus       144 ~~~~~~~~~~Sa~~~~gi~~l~~~  167 (180)
T 2g6b_A          144 KEYGLPFMETSAKTGLNVDLAFTA  167 (180)
T ss_dssp             HHHTCCEEECCTTTCTTHHHHHHH
T ss_pred             HHcCCeEEEEeCCCCCCHHHHHHH
Confidence            344678899999999999875543

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=99.89  E-value=1e-24  Score=166.59  Aligned_cols=150  Identities=17%  Similarity=0.145  Sum_probs=99.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++|+|||||+++|++..+.....++++.++.........     ...                .+.+|||||+
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~----------------~~~l~D~~G~   62 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDING-----KKV----------------KLQIWDTAGQ   62 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSS-----CEE----------------EEEEECCTTG
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECC-----EEE----------------EEEEEeCCCC
Confidence            4599999999999999999998876544333333222211111110     000                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      +.+...+..+++.+|++++|+|+++..+... ..++..+..   .+.|+++|+||+|+...  ...    .+....+...
T Consensus        63 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~--~~~----~~~~~~~~~~  136 (170)
T 1g16_A           63 ERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETR--VVT----ADQGEALAKE  136 (170)
T ss_dssp             GGTSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTC--CSC----HHHHHHHHHH
T ss_pred             hhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCCcC--ccC----HHHHHHHHHH
Confidence            9888888888999999999999987544333 234444443   37899999999998421  112    2223333444


Q ss_pred             ccccccccccccCcceeEEee
Q psy6316         181 VQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      .+++++++||++|.|+++++.
T Consensus       137 ~~~~~~~~Sa~~~~gv~~l~~  157 (170)
T 1g16_A          137 LGIPFIESSAKNDDNVNEIFF  157 (170)
T ss_dssp             HTCCEEECBTTTTBSHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHH
Confidence            467889999999999977544

>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=99.89  E-value=2.9e-24  Score=167.85  Aligned_cols=155  Identities=19%  Similarity=0.206  Sum_probs=107.1

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ++..+|+++|.+|+|||||+++|++..+......+++.+..........     ...                .+.||||
T Consensus        13 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~i~Dt   71 (195)
T 1x3s_A           13 LTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDG-----NKA----------------KLAIWDT   71 (195)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETT-----EEE----------------EEEEEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECC-----eEE----------------EEEEEeC
Confidence            4456799999999999999999998877655444443332211111110     001                2999999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      ||++.+...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+...  ....++    ...
T Consensus        72 ~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~--~~~~~~----~~~  145 (195)
T 1x3s_A           72 AGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENR--EVDRNE----GLK  145 (195)
T ss_dssp             CSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSC--CSCHHH----HHH
T ss_pred             CCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCccc--ccCHHH----HHH
Confidence            99999998899999999999999999875443332 34455544    36899999999998521  112222    233


Q ss_pred             hhccccccccccccccCcceeEEeecC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +....+++++++||++|.|+++++..+
T Consensus       146 ~~~~~~~~~~~~Sa~~~~gi~~l~~~l  172 (195)
T 1x3s_A          146 FARKHSMLFIEASAKTCDGVQCAFEEL  172 (195)
T ss_dssp             HHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHcCCEEEEecCCCCCCHHHHHHHH
Confidence            334456788999999999998866554

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=99.89  E-value=1.1e-23  Score=162.65  Aligned_cols=155  Identities=19%  Similarity=0.219  Sum_probs=93.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+.....++++.+..........                    .....+.+|||||
T Consensus         8 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------~~~~~~~l~Dt~G   67 (182)
T 1ky3_A            8 ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDG--------------------DKVATMQVWDTAG   67 (182)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSS--------------------SCCEEEEEECCC-
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcC--------------------CcEEEEEEEECCC
Confidence            45699999999999999999998876544433333222111111100                    0001289999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh-------CCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS-------KKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~-------~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      ++.+...+..+++.+|++++|+|+++..+.... .++..+..       .+.|+++|+||+|+.........++.    .
T Consensus        68 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~----~  143 (182)
T 1ky3_A           68 QERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSA----Q  143 (182)
T ss_dssp             ---------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHH----H
T ss_pred             ChHhhhhhHHHhhcCCEEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHH----H
Confidence            999999999999999999999999875443332 23333332       56899999999998643222222222    2


Q ss_pred             hhhc-cccccccccccccCcceeEEeec
Q psy6316         176 SQES-SVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       176 ~~~~-~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      .+.. ..+.+++++||++|.|+++++..
T Consensus       144 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  171 (182)
T 1ky3_A          144 ELAKSLGDIPLFLTSAKNAINVDTAFEE  171 (182)
T ss_dssp             HHHHHTTSCCEEEEBTTTTBSHHHHHHH
T ss_pred             HHHHhcCCCeEEEEecCCCCCHHHHHHH
Confidence            2222 34578889999999999875543

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=99.89  E-value=1.4e-24  Score=170.75  Aligned_cols=159  Identities=17%  Similarity=0.197  Sum_probs=100.5

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+++|.+|+|||||+++|++..+......+.+.++.........     ...                .+.|||||
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~l~i~Dt~   85 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDG-----ERT----------------VLQLWDTA   85 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETT-----EEE----------------EEEEEECT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECC-----EEE----------------EEEEEECC
Confidence            356799999999999999999998876543333333222111111110     001                28999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccc-cchhhHHHHHhhh
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNT-MNRRDVRDIIKSQ  177 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~-~~~~~~~~~~~~~  177 (259)
                      |++.+...+..+++.+|++|+|+|+++..+.... .++..+..   .+.|+++|+||+|+...... ............+
T Consensus        86 G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~  165 (199)
T 2p5s_A           86 GQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKL  165 (199)
T ss_dssp             TCTTCHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHH
T ss_pred             CCcchhhhHHHHHhhCCEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccccccccCHHHHHHH
Confidence            9999999999999999999999999875444432 34444443   37899999999998632100 0011112223334


Q ss_pred             hccccccccccccccCcceeEEeec
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ....+++++++||++|.|+++++..
T Consensus       166 ~~~~~~~~~~~SA~~g~gv~el~~~  190 (199)
T 2p5s_A          166 AMTYGALFCETSAKDGSNIVEAVLH  190 (199)
T ss_dssp             HHHHTCEEEECCTTTCTTHHHHHHH
T ss_pred             HHHcCCeEEEeeCCCCCCHHHHHHH
Confidence            4445678899999999999875543

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=99.89  E-value=3.8e-24  Score=167.21  Aligned_cols=152  Identities=17%  Similarity=0.131  Sum_probs=104.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+|+|.+|+|||||+++|++..+......+++.+..........     ...                .+.||||||
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~i~Dt~G   83 (193)
T 2oil_A           25 VFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGT-----AAV----------------KAQIWDTAG   83 (193)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETT-----EEE----------------EEEEEEESC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECC-----EEE----------------EEEEEeCCC
Confidence            45699999999999999999998877654444433322211111110     001                289999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++|+|+|+++..+... ..++..+..   .+.|+++|+||+|+.... ...    ......+..
T Consensus        84 ~~~~~~~~~~~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~-~~~----~~~~~~~~~  158 (193)
T 2oil_A           84 LERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAR-EVP----TEEARMFAE  158 (193)
T ss_dssp             CCTTCTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGGC-CSC----HHHHHHHHH
T ss_pred             chhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCccccc-ccC----HHHHHHHHH
Confidence            99999889999999999999999987544332 335555544   368999999999997421 111    222333344


Q ss_pred             cccccccccccccCcceeEEee
Q psy6316         180 SVQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      ..++.++++||++|.|+++++.
T Consensus       159 ~~~~~~~~~Sa~~~~gi~~l~~  180 (193)
T 2oil_A          159 NNGLLFLETSALDSTNVELAFE  180 (193)
T ss_dssp             HTTCEEEEECTTTCTTHHHHHH
T ss_pred             HcCCEEEEEeCCCCCCHHHHHH
Confidence            4567889999999999977443

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.89  E-value=3.6e-24  Score=167.50  Aligned_cols=154  Identities=15%  Similarity=0.134  Sum_probs=107.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+......+.+.+...........     .+                .+.||||||
T Consensus        16 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~----------------~~~i~Dt~G   74 (196)
T 3tkl_A           16 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGK-----TI----------------KLQIWDTAG   74 (196)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTE-----EE----------------EEEEEEECC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCE-----EE----------------EEEEEECCC
Confidence            356999999999999999999988776555444443332222211110     01                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++++|+|+++..+... ..++..+..   .+.|+++|+||+|+.... ...    ......+..
T Consensus        75 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~-~~~----~~~~~~~~~  149 (196)
T 3tkl_A           75 QERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKK-VVD----YTTAKEFAD  149 (196)
T ss_dssp             SGGGCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTC-CSC----HHHHHHHHH
T ss_pred             cHhhhhhHHHHHhhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccccccc-ccC----HHHHHHHHH
Confidence            99999999999999999999999987544332 234444433   378999999999987431 111    122344445


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+++++++||++|.|+++++..+
T Consensus       150 ~~~~~~~~~Sa~~g~gv~~l~~~l  173 (196)
T 3tkl_A          150 SLGIPFLETSAKNATNVEQSFMTM  173 (196)
T ss_dssp             HTTCCEEEECTTTCTTHHHHHHHH
T ss_pred             HcCCcEEEEeCCCCCCHHHHHHHH
Confidence            556789999999999998855444

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=99.89  E-value=3.7e-24  Score=163.35  Aligned_cols=151  Identities=21%  Similarity=0.210  Sum_probs=95.9

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      |+..+|+++|++|+|||||+|+|.+..+.....++.       +.......     +.           +....+.+|||
T Consensus         1 m~~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~-------t~~~~~~~-----~~-----------~~~~~l~i~Dt   57 (165)
T 2wji_A            1 MKSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGV-------TVEKKEGE-----FE-----------YNGEKFKVVDL   57 (165)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHCCSSSCC------------CCCCCEEE-----EE-----------ETTEEEEEEEC
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCc-------ceeeeEEE-----EE-----------ECCcEEEEEEC
Confidence            345679999999999999999999876532221111       11110000     00           00012999999


Q ss_pred             CCCcchH------HHHHhhcc--CCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHH
Q psy6316         102 PGHESFS------NLRNRGSS--LCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDI  173 (259)
Q Consensus       102 pG~~~~~------~~~~~~~~--~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~  173 (259)
                      ||+..+.      .....++.  .+|++++|+|+++.  .....++..+.+.+.|+++|+||+|+...... . .+    
T Consensus        58 ~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~--~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~-~-~~----  129 (165)
T 2wji_A           58 PGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATAL--ERNLYLTLQLMEMGANLLLALNKMDLAKSLGI-E-ID----  129 (165)
T ss_dssp             CCCSCSSSSSHHHHHHHHHHHHHCCSEEEEEEETTCH--HHHHHHHHHHHHTTCCEEEEEECHHHHHHTTC-C-CC----
T ss_pred             CCcccCCCcchhHHHHHHHHhcCCCCEEEEEecCCch--hHhHHHHHHHHhcCCCEEEEEEchHhccccCh-h-hH----
Confidence            9987764      33344443  89999999999762  23344666667778999999999998632111 1 11    


Q ss_pred             HhhhhccccccccccccccCcceeEEeecC
Q psy6316         174 IKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       174 ~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+.+...++++++++||++|.|+++++..+
T Consensus       130 ~~~~~~~~~~~~~~~SA~~~~~v~~l~~~l  159 (165)
T 2wji_A          130 VDKLEKILGVKVVPLSAAKKMGIEELKKAI  159 (165)
T ss_dssp             HHHHHHHHTSCEEECBGGGTBSHHHHHHHH
T ss_pred             HHHHHHHhCCCEEEEEcCCCCCHHHHHHHH
Confidence            222333345788999999999998865443

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=99.89  E-value=3.6e-24  Score=170.39  Aligned_cols=162  Identities=16%  Similarity=0.113  Sum_probs=110.2

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEE
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLII   99 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li   99 (259)
                      +.++..+|+++|.+|+|||||+++|++..+...+.++++..+... .....     ..+                .+.||
T Consensus        23 ~~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~~~~-~~~~~-----~~~----------------~l~i~   80 (214)
T 3q3j_B           23 PVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTAC-LETEE-----QRV----------------ELSLW   80 (214)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEE-EEC-------CEE----------------EEEEE
T ss_pred             CccceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeEEEE-EEECC-----EEE----------------EEEEE
Confidence            345556799999999999999999999887665555554433110 00000     001                28999


Q ss_pred             eCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH--HHHHHHHHhC--CCCEEEEEecccccCccc-------ccchh
Q psy6316         100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT--IESINILKSK--KTPFVVALNKIDRLYNWN-------TMNRR  168 (259)
Q Consensus       100 DtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~--~~~l~~~~~~--~~piivv~NK~D~~~~~~-------~~~~~  168 (259)
                      ||||++.+...+..+++.+|++|+|+|+++..+...  ..++..+...  +.|+++|+||+|+.....       ...+.
T Consensus        81 Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~  160 (214)
T 3q3j_B           81 DTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVLLIGCKTDLRTDLSTLMELSHQKQAP  160 (214)
T ss_dssp             EECCSGGGTTTGGGGCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHHCTTSEEEEEEECGGGGGCHHHHHHHHHTTCCC
T ss_pred             ECCCCHhHHHHHHHHcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccchhhhhhhcccccCc
Confidence            999999999999999999999999999998665554  3455666554  789999999999974200       00011


Q ss_pred             hHHHHHhhhhccccc-cccccccccCcc-eeEEeecC
Q psy6316         169 DVRDIIKSQESSVQT-HKTVESARKGQE-ICIKIEPI  203 (259)
Q Consensus       169 ~~~~~~~~~~~~~~~-~~i~~Sa~~g~g-v~~~l~~i  203 (259)
                      ...+....+...+++ .++++||++|.| +++++..+
T Consensus       161 v~~~~~~~~~~~~~~~~~~e~SA~~g~g~v~~lf~~l  197 (214)
T 3q3j_B          161 ISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTA  197 (214)
T ss_dssp             CCHHHHHHHHHHHTCSEEEECCTTTCHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHcCCCEEEEeccCCCcccHHHHHHHH
Confidence            122333444555567 788999999998 98755444

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=99.89  E-value=1.6e-23  Score=163.38  Aligned_cols=155  Identities=20%  Similarity=0.230  Sum_probs=102.4

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccc-cCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEE
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTN-VQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLII   99 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li   99 (259)
                      ..+..+|+++|.+|+|||||+++|++.. +......+++....    ..     .                +....+.||
T Consensus        18 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~~~~~----~~-----~----------------~~~~~~~l~   72 (190)
T 2h57_A           18 GSKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIGFSIE----KF-----K----------------SSSLSFTVF   72 (190)
T ss_dssp             ---CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSSEEEE----EE-----E----------------CSSCEEEEE
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccceeEE----EE-----E----------------ECCEEEEEE
Confidence            3445679999999999999999998876 33222222221110    00     0                001139999


Q ss_pred             eCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh------CCCCEEEEEecccccCcccccchhhHHH
Q psy6316         100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS------KKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       100 DtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~------~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      ||||++.+...+..+++.+|++++|+|+++..+.... .++..+..      .+.|+++|+||+|+...   ...+++.+
T Consensus        73 Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~---~~~~~~~~  149 (190)
T 2h57_A           73 DMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDA---VTSVKVSQ  149 (190)
T ss_dssp             EECCSTTTGGGGGGGGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTC---CCHHHHHH
T ss_pred             ECCCCHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccC---CCHHHHHH
Confidence            9999999999999999999999999999875433332 34444332      47899999999999742   12333443


Q ss_pred             HHh-hhhccccccccccccccCcceeEEeecC
Q psy6316         173 IIK-SQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       173 ~~~-~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+. ......++.++++||++|.|+++++..+
T Consensus       150 ~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  181 (190)
T 2h57_A          150 LLCLENIKDKPWHICASDAIKGEGLQEGVDWL  181 (190)
T ss_dssp             HHTGGGCCSSCEEEEECBTTTTBTHHHHHHHH
T ss_pred             HhChhhccCCceEEEEccCCCCcCHHHHHHHH
Confidence            332 1112235788899999999998755443

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.89  E-value=1.4e-24  Score=167.24  Aligned_cols=157  Identities=18%  Similarity=0.156  Sum_probs=102.5

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ++..+|+++|++|+|||||+++|.+..+...+.++++.+..........    ....                .+.+|||
T Consensus         4 ~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~----~~~~----------------~~~~~Dt   63 (178)
T 2hxs_A            4 MRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPG----NLNV----------------TLQIWDI   63 (178)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETT----TEEE----------------EEEEEEC
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCC----CCEE----------------EEEEEEC
Confidence            3456699999999999999999998765322222222111101000000    0001                2999999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh-----CCCC-EEEEEecccccCcccccchhhHHHHH
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS-----KKTP-FVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~-----~~~p-iivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      ||++.+...+..+++.+|++++|+|+++..+.... .++..+..     .+.| +++|+||+|+.... ....    +..
T Consensus        64 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~-~~~~----~~~  138 (178)
T 2hxs_A           64 GGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMR-TIKP----EKH  138 (178)
T ss_dssp             TTCCTTCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGC-SSCH----HHH
T ss_pred             CCCccccchhhHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEcccccccc-ccCH----HHH
Confidence            99999998899999999999999999875444333 34444443     2566 78999999996421 1112    223


Q ss_pred             hhhhccccccccccccccCcceeEEeecC
Q psy6316         175 KSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       175 ~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+....+++++++||++|.|+++++..+
T Consensus       139 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  167 (178)
T 2hxs_A          139 LRFCQENGFSSHFVSAKTGDSVFLCFQKV  167 (178)
T ss_dssp             HHHHHHHTCEEEEECTTTCTTHHHHHHHH
T ss_pred             HHHHHHcCCcEEEEeCCCCCCHHHHHHHH
Confidence            33334446788999999999998865544

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=99.89  E-value=1.8e-23  Score=162.92  Aligned_cols=155  Identities=13%  Similarity=0.138  Sum_probs=106.9

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      .+..+|+++|.+|+|||||+++|++..+......+++..+..    ...     ...                .+.||||
T Consensus        20 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~----~~~-----~~~----------------~~~l~Dt   74 (188)
T 1zd9_A           20 KEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK----ITK-----GNV----------------TIKLWDI   74 (188)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE----EEE-----TTE----------------EEEEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEEE----EEe-----CCE----------------EEEEEEC
Confidence            335679999999999999999999887764443333332211    000     011                2999999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      ||++.+...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+....   ..+++...+..
T Consensus        75 ~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~---~~~~~~~~~~~  151 (188)
T 1zd9_A           75 GGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGAL---DEKELIEKMNL  151 (188)
T ss_dssp             CCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCC---CHHHHHHHTTG
T ss_pred             CCCHhHHHHHHHHHccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccCC---CHHHHHHHhCh
Confidence            99999999899999999999999999876554443 34444432    578999999999997421   22233332221


Q ss_pred             -hhccccccccccccccCcceeEEeecCC
Q psy6316         177 -QESSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       177 -~~~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                       .....+++++++||++|.|+++++..+.
T Consensus       152 ~~~~~~~~~~~~~SA~~g~gv~~l~~~l~  180 (188)
T 1zd9_A          152 SAIQDREICCYSISCKEKDNIDITLQWLI  180 (188)
T ss_dssp             GGCCSSCEEEEECCTTTCTTHHHHHHHHH
T ss_pred             hhhccCCeeEEEEECCCCCCHHHHHHHHH
Confidence             1223356788999999999988665543

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=99.89  E-value=1.3e-23  Score=162.58  Aligned_cols=154  Identities=21%  Similarity=0.226  Sum_probs=103.9

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      ..+..+|+++|.+|+|||||+++|++..+. .    ...+.+.......     ..                ...+.+||
T Consensus        18 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~----~~~t~~~~~~~~~-----~~----------------~~~~~i~D   71 (181)
T 2h17_A           18 GSQEHKVIIVGLDNAGKTTILYQFSMNEVV-H----TSPTIGSNVEEIV-----IN----------------NTRFLMWD   71 (181)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHTTSCE-E----EECCSSSSCEEEE-----ET----------------TEEEEEEE
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHhcCCCC-c----cCCcCceeeEEEE-----EC----------------CEEEEEEE
Confidence            345567999999999999999999987651 1    1111111111000     00                01299999


Q ss_pred             CCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316         101 TPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus       101 tpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      |||++.+...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+...   ...+++.+.+.
T Consensus        72 t~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~---~~~~~i~~~~~  148 (181)
T 2h17_A           72 IGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC---MTVAEISQFLK  148 (181)
T ss_dssp             ESSSGGGTCGGGGGGTTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC---CCHHHHHHHTT
T ss_pred             CCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccC---CCHHHHHHHhC
Confidence            999999998889999999999999999987665543 34444433    57899999999999742   12233333332


Q ss_pred             h-hhccccccccccccccCcceeEEeecC
Q psy6316         176 S-QESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       176 ~-~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      . .....++.++++||++|.|+++++..+
T Consensus       149 ~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l  177 (181)
T 2h17_A          149 LTSIKDHQWHIQACCALTGEGLCQGLEWM  177 (181)
T ss_dssp             GGGCCSSCEEEEECBTTTTBTHHHHHHHH
T ss_pred             cccccCCceEEEEccCCCCcCHHHHHHHH
Confidence            1 123345688899999999998866544

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=99.89  E-value=5e-24  Score=165.02  Aligned_cols=155  Identities=17%  Similarity=0.184  Sum_probs=105.6

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      .++..+|+++|.+|+|||||+|+|++..+......+.+..+. .......     ..+                .+.+||
T Consensus        15 ~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~-----~~~----------------~l~i~D   72 (183)
T 3kkq_A           15 NLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSYL-KHTEIDN-----QWA----------------ILDVLD   72 (183)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETT-----EEE----------------EEEEEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceeE-EEEEeCC-----cEE----------------EEEEEE
Confidence            344566999999999999999999988765554444433221 1111100     000                177899


Q ss_pred             CCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHH----HhCCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316         101 TPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINIL----KSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus       101 tpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~----~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      |||++.+...+..+++.+|++++|+|+++..+.... .++..+    ...+.|+++|+||+|+... ....    ....+
T Consensus        73 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~-~~v~----~~~~~  147 (183)
T 3kkq_A           73 TAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHL-RKVT----RDQGK  147 (183)
T ss_dssp             CCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTT-CCSC----HHHHH
T ss_pred             CCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhc-cCcC----HHHHH
Confidence            999999999899999999999999999875443322 233333    2357899999999998642 1112    22334


Q ss_pred             hhhccccccccccccc-cCcceeEEeec
Q psy6316         176 SQESSVQTHKTVESAR-KGQEICIKIEP  202 (259)
Q Consensus       176 ~~~~~~~~~~i~~Sa~-~g~gv~~~l~~  202 (259)
                      .+...++++++++||+ +|.|+++++..
T Consensus       148 ~~~~~~~~~~~~~Sa~~~~~~v~~l~~~  175 (183)
T 3kkq_A          148 EMATKYNIPYIETSAKDPPLNVDKTFHD  175 (183)
T ss_dssp             HHHHHHTCCEEEEBCSSSCBSHHHHHHH
T ss_pred             HHHHHhCCeEEEeccCCCCCCHHHHHHH
Confidence            4444556889999999 99999875543

>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=99.89  E-value=2.5e-24  Score=166.44  Aligned_cols=154  Identities=18%  Similarity=0.162  Sum_probs=103.9

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+++|.+|+|||||+++|++..+.....++.+..+. .......     ..+                .+.+||||
T Consensus         5 ~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~-----~~~----------------~~~l~Dt~   62 (181)
T 3t5g_A            5 KSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFT-KLITVNG-----QEY----------------HLQLVDTA   62 (181)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEEE-EEEEETT-----EEE----------------EEEEEECC
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccEE-EEEEECC-----EEE----------------EEEEEeCC
Confidence            4567999999999999999999977765554444333221 1111000     001                28999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHH----HhCCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINIL----KSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~----~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      |++.+...+..+++.+|++++|+|+++..+..... ++..+    ...+.|+++|+||+|+... ....    ......+
T Consensus        63 G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~-~~~~----~~~~~~~  137 (181)
T 3t5g_A           63 GQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHME-RVIS----YEEGKAL  137 (181)
T ss_dssp             CCCTTCCCCGGGTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTT-CCSC----HHHHHHH
T ss_pred             CchhhhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhc-ceec----HHHHHHH
Confidence            99999888888999999999999998754443332 33333    2347899999999998632 1112    2334444


Q ss_pred             hccccccccccccccCcceeEEeecC
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ...++++++++||++|.|+++++..+
T Consensus       138 ~~~~~~~~~~~Sa~~~~~v~~l~~~l  163 (181)
T 3t5g_A          138 AESWNAAFLESSAKENQTAVDVFRRI  163 (181)
T ss_dssp             HHHTTCEEEECCTTSHHHHHHHHHHH
T ss_pred             HHHhCCcEEEEecCCCCCHHHHHHHH
Confidence            45556789999999999998866544

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=99.89  E-value=1.8e-24  Score=168.93  Aligned_cols=154  Identities=19%  Similarity=0.127  Sum_probs=102.6

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+++|.+|+|||||+++|++..+......+++.+..........     ..+                .+.|||||
T Consensus        20 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~i~Dt~   78 (191)
T 2a5j_A           20 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDG-----KQI----------------KLQIWDTA   78 (191)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETT-----EEE----------------EEEEECCT
T ss_pred             cceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECC-----EEE----------------EEEEEECC
Confidence            346699999999999999999998876544333333222111111100     001                28999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      |++.+...+..+++.+|++++|+|+++..+... ..++..+..   .+.|+++|+||+|+.... ....    ...+.+.
T Consensus        79 G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~-~v~~----~~~~~~~  153 (191)
T 2a5j_A           79 GQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRR-DVKR----EEGEAFA  153 (191)
T ss_dssp             TGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC-CSCH----HHHHHHH
T ss_pred             CchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCcc-ccCH----HHHHHHH
Confidence            999988888889999999999999987544333 234445543   378999999999996321 1112    2233344


Q ss_pred             ccccccccccccccCcceeEEeec
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ...++.++++||++|.|+++++..
T Consensus       154 ~~~~~~~~~~Sa~~~~gi~~l~~~  177 (191)
T 2a5j_A          154 REHGLIFMETSAKTACNVEEAFIN  177 (191)
T ss_dssp             HHHTCEEEEECTTTCTTHHHHHHH
T ss_pred             HHcCCEEEEEeCCCCCCHHHHHHH
Confidence            445678899999999999875443

>1f60_A Elongation factor EEF1A; protein-protein complex, translation; 1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A

Probab=99.89  E-value=1.2e-24  Score=191.44  Aligned_cols=156  Identities=23%  Similarity=0.272  Sum_probs=105.0

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCH-------HHHHHHHHHHhCCCC-EEEEEecccccCcccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEP-------QTIESINILKSKKTP-FVVALNKIDRLYNWNTMN  166 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~-------~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~  166 (259)
                      .+.|||||||++|...+..+++.+|++|+|+|++++..+       ++.+++..+...++| +++++||+|+.. ++...
T Consensus        86 ~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~~~v~~iivviNK~Dl~~-~~~~~  164 (458)
T 1f60_A           86 QVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDSVK-WDESR  164 (458)
T ss_dssp             EEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTCCEEEEEEECGGGGT-TCHHH
T ss_pred             eEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHHcCCCeEEEEEEcccccc-CCHHH
Confidence            499999999999999999999999999999999876433       677777777778887 899999999973 11112


Q ss_pred             hhhHHHHHhhhhcccc-----ccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhc
Q psy6316         167 RRDVRDIIKSQESSVQ-----THKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDL  241 (259)
Q Consensus       167 ~~~~~~~~~~~~~~~~-----~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~  241 (259)
                      .+.+...+..+....+     ++++++||++|.|+.+....    .+++......-.....  -....+++++. +..+.
T Consensus       165 ~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~~~~----~~~~~~~~~~~~tg~~--~~~~Ll~~l~~-~~~p~  237 (458)
T 1f60_A          165 FQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEATTN----APWYKGWEKETKAGVV--KGKTLLEAIDA-IEQPS  237 (458)
T ss_dssp             HHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBCCSS----CTTCCCEEEECSSSEE--EESSHHHHHHT-SCCCC
T ss_pred             HHHHHHHHHHHHHHcCCCccCceEEEeecccCcCccccccc----Cchhhccccccccccc--chHHHHHHhhc-cCCCc
Confidence            2334444444433332     57889999999999875432    3333221110000000  00124444443 56677


Q ss_pred             CchhhHHHHHHHHhhcc
Q psy6316         242 QKTDWQLMVDLKKVFQI  258 (259)
Q Consensus       242 ~~~~~~~~~~i~~~~~~  258 (259)
                      +..+.+++|+|+++|++
T Consensus       238 ~~~~~p~r~~i~~v~~~  254 (458)
T 1f60_A          238 RPTDKPLRLPLQDVYKI  254 (458)
T ss_dssp             CCTTSCCEEEEEEEEEE
T ss_pred             ccCCCCcEEEEEEEEEe
Confidence            78889999999999874

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=99.89  E-value=8e-24  Score=160.59  Aligned_cols=153  Identities=20%  Similarity=0.139  Sum_probs=103.3

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      |+..+|+++|.+|+|||||+++|++..+.....++....... ....     .....                .+.+|||
T Consensus         1 m~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~-~~~~-----~~~~~----------------~~~~~D~   58 (166)
T 2ce2_X            1 MTEYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYRK-QVVI-----DGETC----------------LLDILDT   58 (166)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEEEE-EEEE-----TTEEE----------------EEEEEEC
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHhCcCccccCCccceEEEE-EEEE-----CCEEE----------------EEEEEEC
Confidence            344569999999999999999999887654443333221110 0000     00001                2899999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      ||+..+...+..++..+|++++|+|+++..+... ..++..+..    .+.|+++|+||+|+...  .    ........
T Consensus        59 ~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~~--~----~~~~~~~~  132 (166)
T 2ce2_X           59 AGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAAR--T----VESRQAQD  132 (166)
T ss_dssp             CCCSSCCHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCC--C----SCHHHHHH
T ss_pred             CCchhhhHHHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhhc--c----cCHHHHHH
Confidence            9999999999999999999999999987544333 234444433    37999999999998741  1    11222333


Q ss_pred             hhccccccccccccccCcceeEEeec
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      +....+++++++||++|.|+++++..
T Consensus       133 ~~~~~~~~~~~~Sa~~~~gi~~l~~~  158 (166)
T 2ce2_X          133 LARSYGIPYIETSAKTRQGVEDAFYT  158 (166)
T ss_dssp             HHHHHTCCEEEECTTTCTTHHHHHHH
T ss_pred             HHHHcCCeEEEecCCCCCCHHHHHHH
Confidence            44445678999999999999775443

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=99.89  E-value=3.2e-24  Score=187.86  Aligned_cols=145  Identities=27%  Similarity=0.299  Sum_probs=103.5

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCC-------CCHHHHHHHHHHHhCCC-CEEEEEecccccCc-cccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG-------LEPQTIESINILKSKKT-PFVVALNKIDRLYN-WNTM  165 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~-------~~~~~~~~l~~~~~~~~-piivv~NK~D~~~~-~~~~  165 (259)
                      .+.|||||||++|...+..+++.+|++|+|+|++++       +..+..+++..+...+. |+++++||+|+... ++..
T Consensus        85 ~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~~~~~  164 (435)
T 1jny_A           85 FFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPYDEK  164 (435)
T ss_dssp             EEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSSTTCHH
T ss_pred             EEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCCCccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCCccccHH
Confidence            499999999999999999999999999999999987       56677888888888886 58999999999742 1111


Q ss_pred             chhhHHHHHhhhhcccc-----ccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhh
Q psy6316         166 NRRDVRDIIKSQESSVQ-----THKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDD  240 (259)
Q Consensus       166 ~~~~~~~~~~~~~~~~~-----~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~  240 (259)
                      ..+.+.+.+..+....+     ++++++||++|.|+.+....    .+++.+              ...++++.. +..|
T Consensus       165 ~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~~----~~~~~g--------------~~Ll~~l~~-~~~p  225 (435)
T 1jny_A          165 RYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSEN----MKWYNG--------------PTLEEYLDQ-LELP  225 (435)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCSS----CTTCCS--------------CCHHHHHTT-CCCC
T ss_pred             HHHHHHHHHHHHHHHcCCCcCCceEEEeecccCccccccccc----cccccc--------------hhHHHHHhc-cCCC
Confidence            22334444555444333     56889999999999875542    233221              123334433 3445


Q ss_pred             cCchhhHHHHHHHHhhcc
Q psy6316         241 LQKTDWQLMVDLKKVFQI  258 (259)
Q Consensus       241 ~~~~~~~~~~~i~~~~~~  258 (259)
                      .+..+.+++++|+++|++
T Consensus       226 ~~~~~~~~~~~v~~v~~~  243 (435)
T 1jny_A          226 PKPVDKPLRIPIQDVYSI  243 (435)
T ss_dssp             CCGGGSCCBEEEEEEEEE
T ss_pred             CCCCCCCeEEEEEEEEEe
Confidence            566677888888888875

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli}

Probab=99.89  E-value=2.5e-24  Score=189.72  Aligned_cols=157  Identities=40%  Similarity=0.584  Sum_probs=117.7

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      |+++|+++|++|+|||||+++|.+..+...+.++++.+.+......                       ....++|||||
T Consensus         3 R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~-----------------------~~~~i~~iDTP   59 (501)
T 1zo1_I            3 RAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVET-----------------------ENGMITFLDTP   59 (501)
T ss_dssp             CCCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCT-----------------------TSSCCCEECCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEE-----------------------CCEEEEEEECC
Confidence            5678999999999999999999887765555444544443322211                       11239999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHh---hhhc
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK---SQES  179 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~---~~~~  179 (259)
                      ||++|..++..+++.+|++++|+|++++...++.+.+..+...++|+++++||+|+.....    +.+...+.   ....
T Consensus        60 Ghe~f~~~~~~~~~~aD~aILVVda~~g~~~qT~e~l~~~~~~~vPiIVviNKiDl~~~~~----~~v~~~l~~~~~~~~  135 (501)
T 1zo1_I           60 GHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQHAKAAQVPVVVAVNKIDKPEADP----DRVKNELSQYGILPE  135 (501)
T ss_dssp             TTTCCTTSBCSSSBSCSSEEEEEETTTBSCTTTHHHHHHHHHTTCCEEEEEECSSSSTTCC----CCTTCCCCCCCCCTT
T ss_pred             CcHHHHHHHHHHHhhCCEEEEEeecccCccHHHHHHHHHHHhcCceEEEEEEeccccccCH----HHHHHHHHHhhhhHH
Confidence            9999999998999999999999999998888899999988889999999999999974211    11111111   1112


Q ss_pred             cc--cccccccccccCcceeEEeecCCCC
Q psy6316         180 SV--QTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       180 ~~--~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      .+  .++++++||++|.|+++++..+...
T Consensus       136 ~~~~~~~~v~vSAktG~gI~eLle~I~~~  164 (501)
T 1zo1_I          136 EWGGESQFVHVSAKAGTGIDELLDAILLQ  164 (501)
T ss_dssp             CCSSSCEEEECCTTTCTTCTTHHHHTTTT
T ss_pred             HhCCCccEEEEeeeeccCcchhhhhhhhh
Confidence            22  2578899999999999988887653

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.89  E-value=2e-23  Score=162.33  Aligned_cols=152  Identities=22%  Similarity=0.229  Sum_probs=100.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+. ...++    .+.......     ..                ...+.+|||||
T Consensus        16 ~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t----~~~~~~~~~-----~~----------------~~~~~i~Dt~G   69 (187)
T 1zj6_A           16 EHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPT----IGSNVEEIV-----IN----------------NTRFLMWDIGG   69 (187)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTTSCE-EEECC----SCSSCEEEE-----ET----------------TEEEEEEECCC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCC----CccceEEEE-----EC----------------CEEEEEEECCC
Confidence            456999999999999999999977653 11111    111100000     00                11299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhh-
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ-  177 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~-  177 (259)
                      ++.+...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+...   ...+++.+.+... 
T Consensus        70 ~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~---~~~~~i~~~~~~~~  146 (187)
T 1zj6_A           70 QESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC---MTVAEISQFLKLTS  146 (187)
T ss_dssp             ----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC---CCHHHHHHHHTGGG
T ss_pred             CHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCC---CCHHHHHHHhChhh
Confidence            999988888899999999999999987665543 34444443    47899999999999742   1233344433322 


Q ss_pred             hccccccccccccccCcceeEEeecCC
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ....++.++++||++|.|+++++..+.
T Consensus       147 ~~~~~~~~~~~Sa~~g~gi~~l~~~l~  173 (187)
T 1zj6_A          147 IKDHQWHIQACCALTGEGLCQGLEWMM  173 (187)
T ss_dssp             CCSSCEEEEECBTTTTBTHHHHHHHHH
T ss_pred             hcCCCcEEEEccCCCCcCHHHHHHHHH
Confidence            233467889999999999988665543

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=99.89  E-value=5.3e-23  Score=157.21  Aligned_cols=150  Identities=20%  Similarity=0.116  Sum_probs=102.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|.+..+... .++++...    ....                     +....+.+|||||
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~-~~t~~~~~----~~~~---------------------~~~~~~~~~Dt~G   60 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVGEVVTT-IPTIGFNV----ETVT---------------------YKNLKFQVWDLGG   60 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSSCCCC-CCCSSEEE----EEEE---------------------ETTEEEEEEEECC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCCCCCc-CCcCccce----EEEE---------------------ECCEEEEEEECCC
Confidence            45699999999999999999988766421 11111111    0000                     0011299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHh-hh
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIK-SQ  177 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~-~~  177 (259)
                      ++.+...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+....   ...++...+. ..
T Consensus        61 ~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~  137 (171)
T 1upt_A           61 LTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAM---TSSEMANSLGLPA  137 (171)
T ss_dssp             CGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC---CHHHHHHHHTGGG
T ss_pred             ChhhhHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCC---CHHHHHHHhCchh
Confidence            999999999999999999999999887665543 33444332    478999999999997431   2233333332 22


Q ss_pred             hccccccccccccccCcceeEEeec
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ....+++++++||++|.|+++++..
T Consensus       138 ~~~~~~~~~~~Sa~~~~gi~~l~~~  162 (171)
T 1upt_A          138 LKDRKWQIFKTSATKGTGLDEAMEW  162 (171)
T ss_dssp             CTTSCEEEEECCTTTCTTHHHHHHH
T ss_pred             ccCCceEEEECcCCCCcCHHHHHHH
Confidence            3334668889999999999875543

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=99.89  E-value=5.1e-24  Score=168.27  Aligned_cols=154  Identities=17%  Similarity=0.134  Sum_probs=106.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+++|.+..+...+.++++.++.........     ..+                .+.||||||
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~l~Dt~G   66 (206)
T 2bcg_Y            8 LFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDG-----KTV----------------KLQIWDTAG   66 (206)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETT-----EEE----------------EEEEECCTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECC-----EEE----------------EEEEEeCCC
Confidence            35699999999999999999998887655444443332211111110     001                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++++|+|+++..+.... .++..+..   .+.|+++|+||+|+.... ....    .....+..
T Consensus        67 ~~~~~~~~~~~~~~~d~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~-~~~~----~~~~~~~~  141 (206)
T 2bcg_Y           67 QERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKR-VVEY----DVAKEFAD  141 (206)
T ss_dssp             TTTTTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTC-CSCH----HHHHHHHH
T ss_pred             hHHHHHHHHHhccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcccc-ccCH----HHHHHHHH
Confidence            999988888999999999999999875544443 24444443   468999999999997421 1112    22233334


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+++++++||++|.|+++++..+
T Consensus       142 ~~~~~~~~~Sa~~g~gi~~l~~~l  165 (206)
T 2bcg_Y          142 ANKMPFLETSALDSTNVEDAFLTM  165 (206)
T ss_dssp             HTTCCEEECCTTTCTTHHHHHHHH
T ss_pred             HcCCeEEEEeCCCCCCHHHHHHHH
Confidence            456788999999999998866554

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=99.89  E-value=9.7e-24  Score=166.35  Aligned_cols=157  Identities=15%  Similarity=0.138  Sum_probs=107.1

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEE
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLII   99 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li   99 (259)
                      +.++..+|+|+|.+|+|||||+++|++..+...+.++.+...... ....     ...+                .+.||
T Consensus        10 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~-~~~~-----~~~~----------------~~~l~   67 (206)
T 2bov_A           10 NSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKK-VVLD-----GEEV----------------QIDIL   67 (206)
T ss_dssp             -CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEEEEE-EEET-----TEEE----------------EEEEE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEE-EEEC-----CEEE----------------EEEEE
Confidence            345567799999999999999999998876554444333222100 0000     0001                28999


Q ss_pred             eCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316         100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus       100 DtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      ||||++.+...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+.... ....++    .
T Consensus        68 Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~-~~~~~~----~  142 (206)
T 2bov_A           68 DTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKR-QVSVEE----A  142 (206)
T ss_dssp             ECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGC-CSCHHH----H
T ss_pred             cCCChhhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccc-cccHHH----H
Confidence            9999999999999999999999999999875443332 23344433    378999999999987421 112222    3


Q ss_pred             hhhhccccccccccccccCcceeEEeecC
Q psy6316         175 KSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       175 ~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+....+++++++||++|.|+++++..+
T Consensus       143 ~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l  171 (206)
T 2bov_A          143 KNRAEQWNVNYVETSAKTRANVDKVFFDL  171 (206)
T ss_dssp             HHHHHHHTCEEEEECTTTCTTHHHHHHHH
T ss_pred             HHHHHHhCCeEEEEeCCCCCCHHHHHHHH
Confidence            33334456788999999999998866544

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=99.89  E-value=5.4e-23  Score=156.20  Aligned_cols=149  Identities=17%  Similarity=0.135  Sum_probs=101.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||+++|++..+... .++++    .....          +.           .....+.+|||||++
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~~~~~~-~~t~~----~~~~~----------~~-----------~~~~~~~i~Dt~G~~   55 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG----FNVET----------VE-----------YKNISFTVWDVGGQD   55 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHCSSCC-CCCSS----CCEEE----------EE-----------CSSCEEEEEECCCCG
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCcCcc-cCcCc----eeEEE----------EE-----------ECCEEEEEEEcCCCh
Confidence            599999999999999999988776421 11111    00000          00           011139999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHh-hhhc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIK-SQES  179 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~-~~~~  179 (259)
                      .+...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+....   ..+++...+. ....
T Consensus        56 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~~~  132 (164)
T 1r8s_A           56 KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM---NAAEITDKLGLHSLR  132 (164)
T ss_dssp             GGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC---CHHHHHHHTTGGGCS
T ss_pred             hhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCCC---CHHHHHHHhCccccc
Confidence            9999999999999999999999886554433 34444433    378999999999997421   2233333222 1222


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+++++++||++|.|+++++..+
T Consensus       133 ~~~~~~~~~Sa~~~~gi~~l~~~l  156 (164)
T 1r8s_A          133 HRNWYIQATCATSGDGLYEGLDWL  156 (164)
T ss_dssp             SCCEEEEECBTTTTBTHHHHHHHH
T ss_pred             CccEEEEEcccCCCcCHHHHHHHH
Confidence            345678899999999998765443

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.89  E-value=7.1e-24  Score=169.40  Aligned_cols=173  Identities=16%  Similarity=0.138  Sum_probs=108.8

Q ss_pred             hhhhhhhhhhcCCCCcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCC
Q psy6316           4 VFNKRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGG   83 (259)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (259)
                      .|.+....+.+.+..    +.++|+++|.+|+|||||+|+|++.......    ....+ ++......     ...    
T Consensus        13 ~~~~~~~~~~~~~~~----~~~~i~v~G~~~~GKSslin~l~~~~~~~~~----~~~~~-~t~~~~~~-----~~~----   74 (223)
T 4dhe_A           13 RFFTTVNHLRDLPPT----VQPEIAFAGRSNAGKSTAINVLCNQKRLAFA----SKTPG-RTQHINYF-----SVG----   74 (223)
T ss_dssp             EEEEEECSGGGSCCC----CSCEEEEEESCHHHHHHHHHHHTTCSSSSCT----TCCCC-SCCCEEEE-----EES----
T ss_pred             hHHhcccchhhCCCC----CCCEEEEEcCCCCCHHHHHHHHhCCCcceee----cCCCC-cccceEEE-----Eec----
Confidence            344444455444433    2466999999999999999999987621110    10111 11111000     000    


Q ss_pred             CCCCCCCCCCCCeEEEeCCCCc----------chHHHHHhhcc---CCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEE
Q psy6316          84 EVGGPGPLEIPGLLIIDTPGHE----------SFSNLRNRGSS---LCDIAILVVDIMHGLEPQTIESINILKSKKTPFV  150 (259)
Q Consensus        84 ~~~~~~~~~~~~~~liDtpG~~----------~~~~~~~~~~~---~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pii  150 (259)
                            ......+.||||||+.          .+...+..++.   .+|++++|+|++++.+..+..++..+...++|++
T Consensus        75 ------~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~l~~~~~p~i  148 (223)
T 4dhe_A           75 ------PAAEPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSYLQTRPQLCGMILMMDARRPLTELDRRMIEWFAPTGKPIH  148 (223)
T ss_dssp             ------CTTSCSEEEEECCCCCSSCCCSTHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHGGGCCCEE
T ss_pred             ------CCCCCcEEEEcCCCCCcccCChhhHHHHHHHHHHHHhcCcCcCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEE
Confidence                  0111239999999952          33444445554   4788999999999888888888888888899999


Q ss_pred             EEEecccccCcccccchhhHHHHHhhhh-c------cccccccccccccCcceeEEeecC
Q psy6316         151 VALNKIDRLYNWNTMNRRDVRDIIKSQE-S------SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       151 vv~NK~D~~~~~~~~~~~~~~~~~~~~~-~------~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +|+||+|+....   ........+.+.. .      ...++++++||++|.|+++++..+
T Consensus       149 ~v~nK~Dl~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l  205 (223)
T 4dhe_A          149 SLLTKCDKLTRQ---ESINALRATQKSLDAYRDAGYAGKLTVQLFSALKRTGLDDAHALI  205 (223)
T ss_dssp             EEEECGGGSCHH---HHHHHHHHHHHHHHHHHHHTCCSCEEEEEEBTTTTBSHHHHHHHH
T ss_pred             EEEeccccCChh---hHHHHHHHHHHHHHhhhhcccCCCCeEEEeecCCCcCHHHHHHHH
Confidence            999999997421   1111222222221 1      245678899999999998866544

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=99.89  E-value=1.2e-24  Score=168.55  Aligned_cols=153  Identities=17%  Similarity=0.121  Sum_probs=76.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+.....++++.++.........     ...                .+.||||||
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~l~Dt~G   66 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDG-----KRI----------------KLQIWDTAG   66 (183)
T ss_dssp             EEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETT-----EEE----------------EEEEEEC--
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECC-----EEE----------------EEEEEcCCC
Confidence            35699999999999999999987766433333333222111111100     001                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++++|+|+++..+.... .++..+..   .+.|+++|+||+|+.... ....    +....+..
T Consensus        67 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~-~v~~----~~~~~~~~  141 (183)
T 2fu5_C           67 QERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKR-QVSK----ERGEKLAL  141 (183)
T ss_dssp             -------CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCC-CSCH----HHHHHHHH
T ss_pred             ChhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCccC-cCCH----HHHHHHHH
Confidence            999988888899999999999999875443333 34555544   368999999999996421 1122    22333444


Q ss_pred             cccccccccccccCcceeEEeec
Q psy6316         180 SVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ..+++++++||++|.|+++++..
T Consensus       142 ~~~~~~~~~Sa~~~~~i~~l~~~  164 (183)
T 2fu5_C          142 DYGIKFMETSAKANINVENAFFT  164 (183)
T ss_dssp             HHTCEEEECCC---CCHHHHHHH
T ss_pred             HcCCeEEEEeCCCCCCHHHHHHH
Confidence            45678899999999999875443

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=99.89  E-value=6.5e-24  Score=164.04  Aligned_cols=160  Identities=17%  Similarity=0.142  Sum_probs=99.9

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      .+..+|+++|++|+|||||++++.+..+...+.+++...+... ...          .+           ....+.+|||
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~~~-~~~----------~~-----------~~~~~~i~Dt   63 (182)
T 3bwd_D            6 SRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSAN-VVV----------NG-----------ATVNLGLWDT   63 (182)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CBCC-CC----------------------------CEEECC
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEEEE-EEE----------CC-----------EEEEEEEEEC
Confidence            3456699999999999999999998776443333322111100 000          00           0012789999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH--HHHHHHh--CCCCEEEEEecccccCccccc-----chhhHHH
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE--SINILKS--KKTPFVVALNKIDRLYNWNTM-----NRRDVRD  172 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~--~l~~~~~--~~~piivv~NK~D~~~~~~~~-----~~~~~~~  172 (259)
                      ||++.+...+..+++.+|++++|+|+++..+.....  ++..+..  .+.|+++|+||+|+.......     .......
T Consensus        64 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~  143 (182)
T 3bwd_D           64 AGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTV  143 (182)
T ss_dssp             CC-CTTTTTGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHHTCHHHHHHC--CCCCCHH
T ss_pred             CCChhhhhhHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhhcCcccccccccCCCCCHH
Confidence            999999988889999999999999998755544432  5555554  378999999999987421100     0000122


Q ss_pred             HHhhhhccccc-cccccccccCcceeEEeecC
Q psy6316         173 IIKSQESSVQT-HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       173 ~~~~~~~~~~~-~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ....+....+. +++++||++|.|+++++..+
T Consensus       144 ~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  175 (182)
T 3bwd_D          144 QGEELKKLIGAPAYIECSSKSQENVKGVFDAA  175 (182)
T ss_dssp             HHHHHHHHHTCSEEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHHHHHcCCCEEEEEECCCCCCHHHHHHHH
Confidence            23334444454 78899999999998765443

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.89  E-value=4e-24  Score=169.51  Aligned_cols=153  Identities=16%  Similarity=0.142  Sum_probs=103.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+++|++..+......+++.++.........     ..+                .+.||||||
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~----------------~~~l~Dt~G   78 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDING-----KKV----------------KLQLWDTAG   78 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETT-----EEE----------------EEEEECCTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECC-----EEE----------------EEEEEeCCC
Confidence            45699999999999999999998876544433333222211111110     001                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++++|+|+++..+... ..++..+..   .+.|+++|+||+|+..  .....    .....+..
T Consensus        79 ~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~--~~~~~----~~~~~~~~  152 (213)
T 3cph_A           79 QERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET--RVVTA----DQGEALAK  152 (213)
T ss_dssp             GGGGTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTCSS--CCSCH----HHHHHHHH
T ss_pred             cHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcc--cccCH----HHHHHHHH
Confidence            99988888889999999999999987544333 234444443   3689999999999842  11112    22233334


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+++++++||++|.|+++++..+
T Consensus       153 ~~~~~~~~~Sa~~~~gi~~l~~~l  176 (213)
T 3cph_A          153 ELGIPFIESSAKNDDNVNEIFFTL  176 (213)
T ss_dssp             HHTCCEEECBTTTTBSSHHHHHHH
T ss_pred             HcCCEEEEEeCCCCCCHHHHHHHH
Confidence            446788999999999998865544

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=99.89  E-value=2.1e-23  Score=163.94  Aligned_cols=154  Identities=16%  Similarity=0.171  Sum_probs=98.6

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      .+..+|+++|++|||||||+++|.+..+.. ..++++.    +..   ..  ....                ..+.+|||
T Consensus        23 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~-~~~t~~~----~~~---~~--~~~~----------------~~l~i~Dt   76 (198)
T 1f6b_A           23 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQ-HVPTLHP----TSE---EL--TIAG----------------MTFTTFDL   76 (198)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCC----SCE---EE--EETT----------------EEEEEEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCCCCc-cCCCCCc----eeE---EE--EECC----------------EEEEEEEC
Confidence            345679999999999999999998776531 1111111    100   00  0000                12999999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      ||++.+...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+..   ....+++.+.+..
T Consensus        77 ~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~---~~~~~~~~~~~~~  153 (198)
T 1f6b_A           77 GGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE---AISEERLREMFGL  153 (198)
T ss_dssp             CC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT---CCCHHHHHHHHTC
T ss_pred             CCcHhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccc---cCCHHHHHHHhCc
Confidence            99999988888899999999999999886555443 34444432    4789999999999974   2234444444432


Q ss_pred             hh-------------ccccccccccccccCcceeEEeecCC
Q psy6316         177 QE-------------SSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       177 ~~-------------~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ..             ....++++++||++|.|+++++..+.
T Consensus       154 ~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~  194 (198)
T 1f6b_A          154 YGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMA  194 (198)
T ss_dssp             TTTCCCSSCCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHH
T ss_pred             ccccccccccccccccCceEEEEEEECCCCCCHHHHHHHHH
Confidence            21             01346788999999999988665543

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=99.89  E-value=1.4e-23  Score=162.69  Aligned_cols=155  Identities=15%  Similarity=0.124  Sum_probs=104.0

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEE
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLII   99 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li   99 (259)
                      ..++..+|+++|.+|+|||||+++|++..+...+..+........ ...     .....                .+.||
T Consensus        14 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~-~~~-----~~~~~----------------~~~l~   71 (187)
T 2a9k_A           14 NSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKK-VVL-----DGEEV----------------QIDIL   71 (187)
T ss_dssp             ---CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEEEEE-EEE-----TTEEE----------------EEEEE
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEEEEE-EEE-----CCEEE----------------EEEEE
Confidence            345667799999999999999999998876544433333222110 000     00001                28999


Q ss_pred             eCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316         100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus       100 DtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      ||||+..+...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+.... ....    ...
T Consensus        72 Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~-~~~~----~~~  146 (187)
T 2a9k_A           72 DTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKR-QVSV----EEA  146 (187)
T ss_dssp             ECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGC-CSCH----HHH
T ss_pred             ECCCCcccHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccC-ccCH----HHH
Confidence            9999999999999999999999999999875443332 23333332    378999999999986421 1122    223


Q ss_pred             hhhhccccccccccccccCcceeEEee
Q psy6316         175 KSQESSVQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       175 ~~~~~~~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      ..+....+++++++||++|.|+++++.
T Consensus       147 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~  173 (187)
T 2a9k_A          147 KNRAEQWNVNYVETSAKTRANVDKVFF  173 (187)
T ss_dssp             HHHHHHTTCEEEECCTTTCTTHHHHHH
T ss_pred             HHHHHHcCCeEEEeCCCCCCCHHHHHH
Confidence            334444567889999999999987544

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=99.89  E-value=6.5e-24  Score=167.55  Aligned_cols=153  Identities=22%  Similarity=0.213  Sum_probs=103.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+...+..+++.+..........     ...                .+.||||||
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~l~Dt~G   66 (207)
T 1vg8_A            8 LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDD-----RLV----------------TMQIWDTAG   66 (207)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSS-----CEE----------------EEEEEEECS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECC-----EEE----------------EEEEEeCCC
Confidence            45699999999999999999998887655444443332211111110     000                289999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh-------CCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS-------KKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~-------~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      ++.+...+..+++.+|++|+|+|+++..+.... .++..+..       .+.|+++|+||+|+...  ....++    ..
T Consensus        67 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~~----~~  140 (207)
T 1vg8_A           67 QERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENR--QVATKR----AQ  140 (207)
T ss_dssp             SGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCC--CSCHHH----HH
T ss_pred             cHHHHHhHHHHHhCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCccc--ccCHHH----HH
Confidence            999888888899999999999999875443332 23333322       46899999999999721  112222    22


Q ss_pred             hhhc-cccccccccccccCcceeEEeecC
Q psy6316         176 SQES-SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       176 ~~~~-~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+.. ..+++++++||++|.|+++++..+
T Consensus       141 ~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l  169 (207)
T 1vg8_A          141 AWCYSKNNIPYFETSAKEAINVEQAFQTI  169 (207)
T ss_dssp             HHHHHTTSCCEEECBTTTTBSHHHHHHHH
T ss_pred             HHHHhcCCceEEEEeCCCCCCHHHHHHHH
Confidence            2222 346788999999999998866544

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.89  E-value=1.7e-24  Score=169.12  Aligned_cols=153  Identities=16%  Similarity=0.094  Sum_probs=104.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+......+.+.+........     ....                ..+.||||||
T Consensus        23 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-----~~~~----------------~~~~i~Dt~G   81 (191)
T 3dz8_A           23 MFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYR-----HEKR----------------VKLQIWDTAG   81 (191)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEE-----TTTT----------------EEEEEECHHH
T ss_pred             eeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEE-----CCEE----------------EEEEEEeCCC
Confidence            356999999999999999999987764433222221111111100     0000                1299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++++|+|+++..+... ..++..+..   .+.|+++|+||+|+....     .......+.+..
T Consensus        82 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~-----~~~~~~~~~~~~  156 (191)
T 3dz8_A           82 QERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEER-----VVPTEKGQLLAE  156 (191)
T ss_dssp             HHHCHHHHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC-----CSCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcccc-----ccCHHHHHHHHH
Confidence            99999999999999999999999987544332 335555544   478999999999986321     112223344444


Q ss_pred             cccccccccccccCcceeEEeec
Q psy6316         180 SVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ..+++++++||++|.|+++++..
T Consensus       157 ~~~~~~~~~Sa~~~~gi~~l~~~  179 (191)
T 3dz8_A          157 QLGFDFFEASAKENISVRQAFER  179 (191)
T ss_dssp             HHTCEEEECBTTTTBSHHHHHHH
T ss_pred             HcCCeEEEEECCCCCCHHHHHHH
Confidence            55678999999999999875543

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=99.89  E-value=3.7e-24  Score=176.51  Aligned_cols=154  Identities=20%  Similarity=0.239  Sum_probs=102.5

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      |+..+|+++|.+|+|||||+|+|++..+..+..++.       +.....     ..+           .+....+.+|||
T Consensus         1 M~~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~-------t~~~~~-----~~~-----------~~~~~~~~liDt   57 (274)
T 3i8s_A            1 MKKLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGV-------TVERKE-----GQF-----------STTDHQVTLVDL   57 (274)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTS-------SSEEEE-----EEE-----------ECSSCEEEEEEC
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCe-------eEEEEE-----EEE-----------EeCCCceEEEEC
Confidence            445679999999999999999999876532221111       111100     000           011123999999


Q ss_pred             CCCcchHH----------HHHhh--ccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhh
Q psy6316         102 PGHESFSN----------LRNRG--SSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRD  169 (259)
Q Consensus       102 pG~~~~~~----------~~~~~--~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~  169 (259)
                      ||+.++..          ....+  .+.+|++++|+|+++  ......+..++.+.++|+++|+||+|+....      .
T Consensus        58 pG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~ii~VvD~~~--~~~~~~~~~~l~~~~~p~ivv~NK~Dl~~~~------~  129 (274)
T 3i8s_A           58 PGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASN--LERNLYLTLQLLELGIPCIVALNMLDIAEKQ------N  129 (274)
T ss_dssp             CCCSCSCC----CCHHHHHHHHHHHHTCCSEEEEEEEGGG--HHHHHHHHHHHHHHTCCEEEEEECHHHHHHT------T
T ss_pred             cCCCccccccccCCHHHHHHHHHHhhcCCCEEEEEecCCC--hHHHHHHHHHHHhcCCCEEEEEECccchhhh------h
Confidence            99776551          12223  279999999999987  3445667777888899999999999987321      1


Q ss_pred             HHHHHhhhhccccccccccccccCcceeEEeecCCCC
Q psy6316         170 VRDIIKSQESSVQTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       170 ~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      .......+...++++++++||++|.|+++++..+...
T Consensus       130 ~~~~~~~l~~~lg~~~i~~SA~~g~gi~el~~~i~~~  166 (274)
T 3i8s_A          130 IRIEIDALSARLGCPVIPLVSTRGRGIEALKLAIDRY  166 (274)
T ss_dssp             EEECHHHHHHHHTSCEEECCCGGGHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            1111233334456899999999999999977666443

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=99.89  E-value=1.3e-23  Score=161.21  Aligned_cols=153  Identities=15%  Similarity=0.088  Sum_probs=92.6

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+++|++|+|||||+++|.+..+..... +.+.+........     .....                .+.+||||
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~~-~~~~~~~~~~~~~-----~~~~~----------------~~~~~D~~   60 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLFAGKQERDLHE-QLGEDVYERTLTV-----DGEDT----------------TLVVVDTW   60 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCC-----CC-CSSSSEEEEEEEE-----TTEEE----------------EEEEECCC
T ss_pred             eEEEEEEECCCCccHHHHHHHHhcCCCccccC-ccccceeEEEEEE-----CCEEE----------------EEEEEecC
Confidence            34569999999999999999999876643211 1111110000000     00001                28999999


Q ss_pred             CCcc--hHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHhC----CCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316         103 GHES--FSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKSK----KTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus       103 G~~~--~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~~----~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      |+..  +......+++.+|++++|+|+++..+.... .++..+...    +.|+++|+||+|+.... ....+    ...
T Consensus        61 g~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~-~v~~~----~~~  135 (175)
T 2nzj_A           61 EAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCR-EVSVE----EGR  135 (175)
T ss_dssp             -------CHHHHHTTTSCSEEEEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTC-CSCHH----HHH
T ss_pred             CCCccchhhhHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhcccc-ccCHH----HHH
Confidence            9887  556667788999999999999875444433 344555543    78999999999997431 11122    222


Q ss_pred             hhhccccccccccccccCcceeEEeec
Q psy6316         176 SQESSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       176 ~~~~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      .+....+++++++||++|.|+++++..
T Consensus       136 ~~~~~~~~~~~~~Sa~~g~gi~~l~~~  162 (175)
T 2nzj_A          136 ACAVVFDCKFIETSATLQHNVAELFEG  162 (175)
T ss_dssp             HHHHHHTSEEEECBTTTTBSHHHHHHH
T ss_pred             HHHHHcCCeEEEEecCCCCCHHHHHHH
Confidence            333344678899999999999875543

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=99.89  E-value=1.5e-23  Score=163.42  Aligned_cols=155  Identities=20%  Similarity=0.146  Sum_probs=94.0

Q ss_pred             cccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEE
Q psy6316          19 ENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLI   98 (259)
Q Consensus        19 ~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   98 (259)
                      .+.|+..+|+++|.+|+|||||+++|++..+......+....... ....     .....                .+.|
T Consensus        16 ~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~-~~~~-----~~~~~----------------~~~l   73 (190)
T 3con_A           16 FQGMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRK-QVVI-----DGETC----------------LLDI   73 (190)
T ss_dssp             ---CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEEEE-EEEE-----TTEEE----------------EEEE
T ss_pred             ccccceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceEEEE-EEEE-----CCEEE----------------EEEE
Confidence            345777789999999999999999999877654433332221110 0000     00001                2899


Q ss_pred             EeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHH
Q psy6316          99 IDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDI  173 (259)
Q Consensus        99 iDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~  173 (259)
                      |||||++.+...+..+++.+|++++|+|+++..+..+.. ++..+..    .+.|+++|+||+|+...  ...    ...
T Consensus        74 ~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~--~~~----~~~  147 (190)
T 3con_A           74 LDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPTR--TVD----TKQ  147 (190)
T ss_dssp             EECCC-----------CTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCC--CSC----HHH
T ss_pred             EECCChHHHHHHHHHhhCcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCcc--cCC----HHH
Confidence            999999999999999999999999999998754443332 3334333    37899999999998741  112    222


Q ss_pred             HhhhhccccccccccccccCcceeEEee
Q psy6316         174 IKSQESSVQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       174 ~~~~~~~~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      ..++....+++++++||++|.|+++++.
T Consensus       148 ~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  175 (190)
T 3con_A          148 AHELAKSYGIPFIETSAKTRQGVEDAFY  175 (190)
T ss_dssp             HHHHHHHHTCCEEECCTTTCTTHHHHHH
T ss_pred             HHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            3334444567889999999999977443

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=99.89  E-value=7.6e-24  Score=164.12  Aligned_cols=160  Identities=16%  Similarity=0.160  Sum_probs=106.0

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      |+..+|+++|.+|+|||||+++|++..+...+.++........ ...     ....+                .+.+|||
T Consensus         3 ~~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~-~~~-----~~~~~----------------~~~i~Dt   60 (186)
T 1mh1_A            3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSAN-VMV-----DGKPV----------------NLGLWDT   60 (186)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEEEEE-EEE-----TTEEE----------------EEEEECC
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCcccceeEEE-EEE-----CCEEE----------------EEEEEEC
Confidence            4556799999999999999999998776544433333222110 000     00011                2889999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHhC--CCCEEEEEecccccCcccccc-------hhhH
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKSK--KTPFVVALNKIDRLYNWNTMN-------RRDV  170 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~~--~~piivv~NK~D~~~~~~~~~-------~~~~  170 (259)
                      ||++.+...+..+++.+|++++|+|+++..+....  .++..+...  +.|+++|+||+|+........       ....
T Consensus        61 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~  140 (186)
T 1mh1_A           61 AGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPIT  140 (186)
T ss_dssp             CCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCC
T ss_pred             CCCHhHHHHHHHhccCCcEEEEEEECCChhhHHHHHHHHHHHHHHhCCCCCEEEEeEcccccccchhhhhhcccccccCC
Confidence            99999988888899999999999999876555444  355555543  799999999999974311000       0001


Q ss_pred             HHHHhhhhccccc-cccccccccCcceeEEeecC
Q psy6316         171 RDIIKSQESSVQT-HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       171 ~~~~~~~~~~~~~-~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ......+....+. +++++||++|.|+++++..+
T Consensus       141 ~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l  174 (186)
T 1mh1_A          141 YPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEA  174 (186)
T ss_dssp             HHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHhcCCcEEEEecCCCccCHHHHHHHH
Confidence            1122233333444 78899999999998865544

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.89  E-value=2.2e-23  Score=157.80  Aligned_cols=147  Identities=16%  Similarity=0.196  Sum_probs=99.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ++|+++|.+|+|||||+++|.+..+...      .....++.........                .....+.+|||||+
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~------~~~~~~~~~~~~~~~~----------------~~~~~~~l~Dt~G~   59 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVV------ADVPGVTRDLKEGVVE----------------TDRGRFLLVDTGGL   59 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------------CCEEEEEE----------------ETTEEEEEEECGGG
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeec------cCCCCceecceEEEEE----------------eCCceEEEEECCCC
Confidence            4699999999999999999998764211      0111111111100000                00112999999998


Q ss_pred             cc-------hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         105 ES-------FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       105 ~~-------~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      ..       +...+..+++.+|++++|+|++++.+.....+...+...+.|+++|+||+|+...     .    ....++
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~-----~----~~~~~~  130 (161)
T 2dyk_A           60 WSGDKWEKKIQEKVDRALEDAEVVLFAVDGRAELTQADYEVAEYLRRKGKPVILVATKVDDPKH-----E----LYLGPL  130 (161)
T ss_dssp             CSSSSCCHHHHHHHHHHTTTCSEEEEEEESSSCCCHHHHHHHHHHHHHTCCEEEEEECCCSGGG-----G----GGCGGG
T ss_pred             CCccchHHHHHHHHHHHHHhCCEEEEEEECCCcccHhHHHHHHHHHhcCCCEEEEEECcccccc-----h----HhHHHH
Confidence            76       4556677889999999999999888877777777777788999999999999742     1    112223


Q ss_pred             hccccc-cccccccccCcceeEEeecC
Q psy6316         178 ESSVQT-HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       178 ~~~~~~-~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      . ..+. +++++||++|.|+++++..+
T Consensus       131 ~-~~~~~~~~~~Sa~~~~gv~~l~~~l  156 (161)
T 2dyk_A          131 Y-GLGFGDPIPTSSEHARGLEELLEAI  156 (161)
T ss_dssp             G-GGSSCSCEECBTTTTBSHHHHHHHH
T ss_pred             H-hCCCCCeEEEecccCCChHHHHHHH
Confidence            3 3445 78899999999998865543

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.89  E-value=1.4e-23  Score=160.36  Aligned_cols=153  Identities=14%  Similarity=0.153  Sum_probs=103.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+|+|++..+......+.+...... ...     .....                .+.+|||||+
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~-~~~-----~~~~~----------------~~~~~Dt~G~   61 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQV-ISC-----DKSIC----------------TLQITDTTGS   61 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEEEE-EEE-----TTEEE----------------EEEEEECCSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccEEEE-EEE-----CCEEE----------------EEEEEECCCc
Confidence            4599999999999999999998776544333333222110 000     00000                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh-----CCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS-----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~-----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      .++...+..+++.+|++++|+|+++..+... ..++..+..     .+.|+++|+||+|+..... ...    .....+.
T Consensus        62 ~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~-v~~----~~~~~~~  136 (172)
T 2erx_A           62 HQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSRE-VQS----SEAEALA  136 (172)
T ss_dssp             SSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCC-SCH----HHHHHHH
T ss_pred             hhhHHHHHHhcccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccc-cCH----HHHHHHH
Confidence            9999999999999999999999987543332 234444433     3689999999999874311 111    1222333


Q ss_pred             ccccccccccccccCcceeEEeecCC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ...+++++++||++|.|+++++..+.
T Consensus       137 ~~~~~~~~~~Sa~~~~gi~~l~~~l~  162 (172)
T 2erx_A          137 RTWKCAFMETSAKLNHNVKELFQELL  162 (172)
T ss_dssp             HHHTCEEEECBTTTTBSHHHHHHHHH
T ss_pred             HHhCCeEEEecCCCCcCHHHHHHHHH
Confidence            34467889999999999988766554

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.89  E-value=2.7e-24  Score=191.00  Aligned_cols=158  Identities=38%  Similarity=0.530  Sum_probs=117.6

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      |+++|+++|++|+|||||+++|.+..+...+.++++..++........                      ...++|||||
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~----------------------g~~i~~iDTP   60 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPS----------------------GEKITFLDTP   60 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSC----------------------SSCCBCEECS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeCC----------------------CCEEEEEECC
Confidence            467899999999999999999998876555544454444333222110                      1139999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccc-
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV-  181 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~-  181 (259)
                      ||+.|..++..+++.+|++|+|+|++++..+++.+.+..+...++|+++++||+|+...........+ .........+ 
T Consensus        61 Ghe~f~~~~~~~~~~aD~vILVVDa~dg~~~qt~e~l~~~~~~~vPiIVViNKiDl~~~~~~~v~~~l-~~~~~~~e~~~  139 (537)
T 3izy_P           61 GHAAFSAMRARGTQVTDIVILVVAADDGVMKQTVESIQHAKDAHVPIVLAINKCDKAEADPEKVKKEL-LAYDVVCEDYG  139 (537)
T ss_dssp             SSCCTTTSBBSSSBSBSSCEEECBSSSCCCHHHHHHHHHHHTTTCCEEECCBSGGGTTTSCCSSSSHH-HHTTSCCCCSS
T ss_pred             ChHHHHHHHHHHHccCCEEEEEEECCCCccHHHHHHHHHHHHcCCcEEEEEecccccccchHHHHHHH-HhhhhhHHhcC
Confidence            99999999999999999999999999999999999999999999999999999999743221112222 1121122222 


Q ss_pred             -cccccccccccCcceeEEeecC
Q psy6316         182 -QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       182 -~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                       .++++++||++|.|+++++..+
T Consensus       140 ~~~~iv~vSAktG~GI~eLle~I  162 (537)
T 3izy_P          140 GDVQAVHVSALTGENMMALAEAT  162 (537)
T ss_dssp             SSEEECCCCSSSSCSSHHHHHHH
T ss_pred             CCceEEEEECCCCCCchhHHHHH
Confidence             3578899999999998866544

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=99.88  E-value=4.4e-23  Score=160.16  Aligned_cols=151  Identities=20%  Similarity=0.150  Sum_probs=102.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++.. .....++++....    ....     ..                ..+.+|||||
T Consensus        18 ~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~~~~~----~~~~-----~~----------------~~~~~~Dt~G   71 (186)
T 1ksh_A           18 ELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLGFNIK----TLEH-----RG----------------FKLNIWDVGG   71 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSSEEEE----EEEE-----TT----------------EEEEEEEECC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCccceE----EEEE-----CC----------------EEEEEEECCC
Confidence            4569999999999999999999876 3222222221111    0000     00                1299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhh-h
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS-Q  177 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~-~  177 (259)
                      ++.+...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+....   ..+++.+.+.. .
T Consensus        72 ~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~  148 (186)
T 1ksh_A           72 QKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGAL---SCNAIQEALELDS  148 (186)
T ss_dssp             SHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC---CHHHHHHHTTGGG
T ss_pred             CHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCC---CHHHHHHHhChhh
Confidence            999998888999999999999999886655443 34444433    478999999999997431   22333333221 1


Q ss_pred             hccccccccccccccCcceeEEeecC
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ....+++++++||++|.|+++++..+
T Consensus       149 ~~~~~~~~~~~Sa~~~~gi~~l~~~l  174 (186)
T 1ksh_A          149 IRSHHWRIQGCSAVTGEDLLPGIDWL  174 (186)
T ss_dssp             CCSSCEEEEECCTTTCTTHHHHHHHH
T ss_pred             ccCCceEEEEeeCCCCCCHHHHHHHH
Confidence            22345688899999999998755433

>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase, EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.88  E-value=3.5e-23  Score=179.98  Aligned_cols=201  Identities=21%  Similarity=0.237  Sum_probs=113.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcccc---CCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCC-CCCCeEEE
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNV---QDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPL-EIPGLLII   99 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~li   99 (259)
                      ..+|+++|++++|||||+++|++...   .....++++...+..............+ ............+ ....+.||
T Consensus         8 ~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y-~~~~~~~~~g~~~~~~~~i~ii   86 (408)
T 1s0u_A            8 EVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTY-TTKPRCPNCLAETEFLRRVSFV   86 (408)
T ss_dssp             CEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCE-ESSSBCTTSCCBCEEEEEEEEE
T ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccc-cccccccccCcccccccEEEEE
Confidence            35699999999999999999986532   1222222222222111111000000000 0000000000000 01239999


Q ss_pred             eCCCCcchHHHHHhhccCCCeEEEEEeCCCCC-CHHHHHHHHHHHhCCC-CEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGL-EPQTIESINILKSKKT-PFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       100 DtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~-~~~~~~~l~~~~~~~~-piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      |||||++|...+...+..+|++|+|+|++++. ..+..+++..+...+. |+++++||+|+.....   .....+.+..+
T Consensus        87 DtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~l~~~~iivv~NK~Dl~~~~~---~~~~~~~i~~~  163 (408)
T 1s0u_A           87 DSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMALEILGIDKIIIVQNKIDLVDEKQ---AEENYEQIKEF  163 (408)
T ss_dssp             ECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECTTSSCTTT---TTTHHHHHHHH
T ss_pred             ECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHHcCCCeEEEEEEccCCCCHHH---HHHHHHHHHHH
Confidence            99999999999999999999999999999886 7888888887777665 7999999999975321   11222223333


Q ss_pred             hcc---ccccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHHHHHHHH
Q psy6316         178 ESS---VQTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQLMVDLKK  254 (259)
Q Consensus       178 ~~~---~~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~  254 (259)
                      ...   ..++++++||++|.|++++                              ++.+.+.+..+.++.+.+++++|++
T Consensus       164 l~~~~~~~~~~i~vSA~~g~gi~~L------------------------------~~~l~~~i~~~~~~~~~~~~~~v~~  213 (408)
T 1s0u_A          164 VKGTIAENAPIIPISAHHEANIDVL------------------------------LKAIQDFIPTPKRDPDATPRMYVAR  213 (408)
T ss_dssp             HTTSTTTTCCEEEC------CHHHH------------------------------HHHHHHHSCCCCCCTTSCCEEEEEE
T ss_pred             HhhcCCCCCeEEEeeCCCCCCHHHH------------------------------HHHHHHhCCCCcccCCCCeEEEEEE
Confidence            222   2568889999999988543                              2333333445555556666667766


Q ss_pred             hhcc
Q psy6316         255 VFQI  258 (259)
Q Consensus       255 ~~~~  258 (259)
                      +|+|
T Consensus       214 ~f~v  217 (408)
T 1s0u_A          214 SFDI  217 (408)
T ss_dssp             EECC
T ss_pred             EEee
Confidence            6654

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=99.88  E-value=2.6e-23  Score=161.54  Aligned_cols=153  Identities=13%  Similarity=0.102  Sum_probs=101.8

Q ss_pred             CcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeE
Q psy6316          18 DENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLL   97 (259)
Q Consensus        18 ~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (259)
                      ....++..+|+++|.+|+|||||++++++..+...+..+.. .+. .....     ....+                .+.
T Consensus        14 ~~~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t~~-~~~-~~~~~-----~~~~~----------------~l~   70 (184)
T 3ihw_A           14 LYFQGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPEGG-RFK-KEIVV-----DGQSY----------------LLL   70 (184)
T ss_dssp             --CCCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTTCE-EEE-EEEEE-----TTEEE----------------EEE
T ss_pred             CCCCCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCCcc-eEE-EEEEE-----CCEEE----------------EEE
Confidence            33456677899999999999999999998877554433311 110 00000     00011                188


Q ss_pred             EEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh----CCCCEEEEEecccccCcc-cccchhhHH
Q psy6316          98 IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS----KKTPFVVALNKIDRLYNW-NTMNRRDVR  171 (259)
Q Consensus        98 liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~----~~~piivv~NK~D~~~~~-~~~~~~~~~  171 (259)
                      +|||||++.+.     +++.+|++++|+|+++..+... ..++..+..    .+.|+++|+||+|+.... .....++  
T Consensus        71 i~Dt~G~~~~~-----~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~--  143 (184)
T 3ihw_A           71 IRDEGGPPELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSR--  143 (184)
T ss_dssp             EEECSSSCCHH-----HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHH--
T ss_pred             EEECCCChhhh-----eecCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHH--
Confidence            99999998876     6778999999999998665555 446666655    368999999999985321 1122222  


Q ss_pred             HHHhhhhcccc-ccccccccccCcceeEEeec
Q psy6316         172 DIIKSQESSVQ-THKTVESARKGQEICIKIEP  202 (259)
Q Consensus       172 ~~~~~~~~~~~-~~~i~~Sa~~g~gv~~~l~~  202 (259)
                        ...+....+ +.++++||++|.|+++++..
T Consensus       144 --~~~~~~~~~~~~~~e~Sa~~~~gv~~lf~~  173 (184)
T 3ihw_A          144 --ARKLSTDLKRCTYYETCATYGLNVERVFQD  173 (184)
T ss_dssp             --HHHHHHHTTTCEEEEEBTTTTBTHHHHHHH
T ss_pred             --HHHHHHHcCCCeEEEecCCCCCCHHHHHHH
Confidence              333333343 67889999999999875543

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=99.88  E-value=3.7e-24  Score=174.72  Aligned_cols=151  Identities=22%  Similarity=0.164  Sum_probs=102.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ++|+++|.+|+|||||+|+|++.....+..++.+.+.       ......                +....+.||||||+
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~-------~~~~~~----------------~~~~~~~lvDtpG~   58 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEK-------KTGEFL----------------LGEHLIEITDLPGV   58 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEE-------EEEEEE----------------ETTEEEEEEECCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEE-------EEEEEE----------------ECCeEEEEEeCCCc
Confidence            4799999999999999999998765322222211111       000000                01112999999998


Q ss_pred             cchHH----------HHHhhc--cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHH
Q psy6316         105 ESFSN----------LRNRGS--SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       105 ~~~~~----------~~~~~~--~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      ..+..          ....++  ..+|++++|+|+++  ......+..++.+.++|+++|+||+|+.....      ...
T Consensus        59 ~~~~~~~~~~~~~e~i~~~~~~~~~~d~vi~VvDas~--~~~~~~l~~~l~~~~~pvilv~NK~Dl~~~~~------~~~  130 (256)
T 3iby_A           59 YSLVANAEGISQDEQIAAQSVIDLEYDCIINVIDACH--LERHLYLTSQLFELGKPVVVALNMMDIAEHRG------ISI  130 (256)
T ss_dssp             SSCC------CHHHHHHHHHHHHSCCSEEEEEEEGGG--HHHHHHHHHHHTTSCSCEEEEEECHHHHHHTT------CEE
T ss_pred             ccccccccCCCHHHHHHHHHHhhCCCCEEEEEeeCCC--chhHHHHHHHHHHcCCCEEEEEEChhcCCcCC------cHH
Confidence            76653          344455  88999999999987  34456677788888999999999999874211      111


Q ss_pred             HHhhhhccccccccccccccCcceeEEeecCCCC
Q psy6316         173 IIKSQESSVQTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       173 ~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      ....+...++++++++||++|.|+++++..+...
T Consensus       131 ~~~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~~  164 (256)
T 3iby_A          131 DTEKLESLLGCSVIPIQAHKNIGIPALQQSLLHC  164 (256)
T ss_dssp             CHHHHHHHHCSCEEECBGGGTBSHHHHHHHHHTC
T ss_pred             HHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            1223334446899999999999999987766544

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=99.88  E-value=1.3e-23  Score=163.26  Aligned_cols=151  Identities=20%  Similarity=0.146  Sum_probs=100.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+|+|++..+.....++........ ....     ....                .+.+|||||+
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~-~~~~-----~~~~----------------~~~i~Dt~G~   62 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQ-VVID-----GETC----------------LLDILDTAGQ   62 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCCEEEEEE-EEET-----TEEE----------------EEEEEECCCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCchheEEEE-EEEC-----CcEE----------------EEEEEECCCc
Confidence            4599999999999999999998876544433332111100 0000     0000                1789999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      +.+...+..+++.+|++++|+|+++..+..... ++..+..    .+.|+++|+||+|+...      .........+..
T Consensus        63 ~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~------~~~~~~~~~~~~  136 (189)
T 4dsu_A           63 EEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSR------TVDTKQAQDLAR  136 (189)
T ss_dssp             ---CTTHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSSC------SSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCccc------ccCHHHHHHHHH
Confidence            999999999999999999999998754433322 3333333    47899999999999732      122233344444


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+++++++||++|.|+++++..+
T Consensus       137 ~~~~~~~~~Sa~~g~gi~~l~~~l  160 (189)
T 4dsu_A          137 SYGIPFIETSAKTRQGVDDAFYTL  160 (189)
T ss_dssp             HHTCCEEECCTTTCTTHHHHHHHH
T ss_pred             HcCCeEEEEeCCCCCCHHHHHHHH
Confidence            556789999999999998855433

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=99.88  E-value=1.1e-23  Score=164.10  Aligned_cols=154  Identities=12%  Similarity=0.067  Sum_probs=100.9

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      ..+..+|+++|.+|+|||||+++|++..+...+.++++..+... ...     ....+                .+.|||
T Consensus        18 ~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~-~~~-----~~~~~----------------~l~i~D   75 (187)
T 3c5c_A           18 GPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSSE-ETV-----DHQPV----------------HLRVMD   75 (187)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEEEEE-EEE-----TTEEE----------------EEEEEE
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceeeEE-EEE-----CCEEE----------------EEEEEE
Confidence            34556799999999999999999998887655544444332110 000     00011                289999


Q ss_pred             CCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh------CCCCEEEEEecccccCcccccchhhHHHH
Q psy6316         101 TPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS------KKTPFVVALNKIDRLYNWNTMNRRDVRDI  173 (259)
Q Consensus       101 tpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~------~~~piivv~NK~D~~~~~~~~~~~~~~~~  173 (259)
                      |||++.+... ..+++.+|++++|+|+++..+..... ++..+..      .+.|+++|+||+|+.... ....    +.
T Consensus        76 t~G~~~~~~~-~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~-~v~~----~~  149 (187)
T 3c5c_A           76 TADLDTPRNC-ERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYR-QVTK----AE  149 (187)
T ss_dssp             CCC---CCCT-HHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGC-SSCH----HH
T ss_pred             CCCCCcchhH-HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcC-ccCH----HH
Confidence            9998887664 56889999999999998754444332 4444443      479999999999996321 1122    22


Q ss_pred             Hhhhhcccccccccccc-ccCcceeEEeec
Q psy6316         174 IKSQESSVQTHKTVESA-RKGQEICIKIEP  202 (259)
Q Consensus       174 ~~~~~~~~~~~~i~~Sa-~~g~gv~~~l~~  202 (259)
                      ...+....++.++++|| ++|.|+++++..
T Consensus       150 ~~~~~~~~~~~~~e~Sa~~~g~gv~~lf~~  179 (187)
T 3c5c_A          150 GVALAGRFGCLFFEVSACLDFEHVQHVFHE  179 (187)
T ss_dssp             HHHHHHHHTCEEEECCSSSCSHHHHHHHHH
T ss_pred             HHHHHHHcCCcEEEEeecCccccHHHHHHH
Confidence            33344445678899999 899999875543

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=99.88  E-value=5.5e-23  Score=160.52  Aligned_cols=152  Identities=16%  Similarity=0.129  Sum_probs=102.7

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+++|++|+|||||+++|.+..+.. ..++++...    ...     ....                ..+.+||||
T Consensus        22 ~~~ki~~vG~~~vGKSsli~~l~~~~~~~-~~~t~~~~~----~~~-----~~~~----------------~~~~i~Dt~   75 (190)
T 1m2o_B           22 KHGKLLFLGLDNAGKTTLLHMLKNDRLAT-LQPTWHPTS----EEL-----AIGN----------------IKFTTFDLG   75 (190)
T ss_dssp             --CEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCCSCEE----EEE-----EETT----------------EEEEEEECC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCCc-cccCCCCCe----EEE-----EECC----------------EEEEEEECC
Confidence            34569999999999999999999876532 111121111    000     0000                129999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      |++.+...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+..   ....+++.+.+...
T Consensus        76 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~---~~~~~~~~~~~~~~  152 (190)
T 1m2o_B           76 GHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN---AVSEAELRSALGLL  152 (190)
T ss_dssp             CSGGGTTSGGGGCTTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT---CCCHHHHHHHTTCS
T ss_pred             CCHHHHHHHHHHHhcCCEEEEEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcC---CCCHHHHHHHhCCc
Confidence            9999988888899999999999999987655443 34444432    5789999999999974   12333444433322


Q ss_pred             h--------ccccccccccccccCcceeEEeecC
Q psy6316         178 E--------SSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       178 ~--------~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .        ...+++++++||++|.|+++++..+
T Consensus       153 ~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l  186 (190)
T 1m2o_B          153 NTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWL  186 (190)
T ss_dssp             SCCC---CCSSCCEEEEECBTTTTBSHHHHHHHH
T ss_pred             cccccccccccceEEEEEeECCcCCCHHHHHHHH
Confidence            1        2235678899999999998866544

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.88  E-value=1.7e-23  Score=165.99  Aligned_cols=160  Identities=16%  Similarity=0.154  Sum_probs=105.5

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+++|.+|+|||||+++|.+..+...+.++++..+... ...     ....+                .+.|||||
T Consensus         8 ~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~-~~~-----~~~~~----------------~~~i~Dt~   65 (212)
T 2j0v_A            8 KFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSAN-VAV-----DGQIV----------------NLGLWDTA   65 (212)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCEEEE-EEC-----SSCEE----------------EEEEECCC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeEEEE-EEE-----CCEEE----------------EEEEEECC
Confidence            456799999999999999999998876544433333221100 000     00001                29999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHhC--CCCEEEEEecccccCccccc---chhhHHHHHh
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKSK--KTPFVVALNKIDRLYNWNTM---NRRDVRDIIK  175 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~~--~~piivv~NK~D~~~~~~~~---~~~~~~~~~~  175 (259)
                      |++.+...+..+++.+|++++|+|+++..+....  .++..+...  +.|+++|+||+|+.......   ..........
T Consensus        66 G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~  145 (212)
T 2j0v_A           66 GQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGE  145 (212)
T ss_dssp             CCCCCCC--CGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHH
T ss_pred             CcHHHHHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeCHHhhhCccccccccCCCCHHHHH
Confidence            9999999999999999999999999876554443  355555553  79999999999987421100   0000122233


Q ss_pred             hhhccccc-cccccccccCcceeEEeecCC
Q psy6316         176 SQESSVQT-HKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       176 ~~~~~~~~-~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      .+...++. +++++||++|.|+++++..+.
T Consensus       146 ~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~  175 (212)
T 2j0v_A          146 ELRKQIGAAAYIECSSKTQQNVKAVFDTAI  175 (212)
T ss_dssp             HHHHHHTCSEEEECCTTTCTTHHHHHHHHH
T ss_pred             HHHHHcCCceEEEccCCCCCCHHHHHHHHH
Confidence            33444454 788999999999998766553

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.88  E-value=7.5e-24  Score=167.16  Aligned_cols=159  Identities=18%  Similarity=0.145  Sum_probs=75.8

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc--ccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEE
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT--NVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLII   99 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li   99 (259)
                      .+..+|+++|.+|+|||||+++|++.  .+.....++.+.+............   ...                .+.||
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~---~~~----------------~~~l~   78 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTT---VSV----------------ELFLL   78 (208)
T ss_dssp             EEEEEEEEC----------------------------------CEEEECTTSS---EEE----------------EEEEE
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcc---cEE----------------EEEEE
Confidence            34567999999999999999999887  5433332222211111111110000   001                29999


Q ss_pred             eCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh------CCCCEEEEEecccccCcccccchhhHHH
Q psy6316         100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS------KKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       100 DtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~------~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      ||||++.+...+..+++.+|++++|+|+++..+... ..++..+..      .+.|+++|+||+|+.........+    
T Consensus        79 Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~----  154 (208)
T 2yc2_C           79 DTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLD----  154 (208)
T ss_dssp             ETTTTHHHHHHHSTTCCCCCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CCCHH----
T ss_pred             ECCCcHHHHHHHHHHHhhCcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccCCHH----
Confidence            999999999999999999999999999987654433 335555544      478999999999997411111222    


Q ss_pred             HHhhhhcccccccccccccc-CcceeEEeecC
Q psy6316         173 IIKSQESSVQTHKTVESARK-GQEICIKIEPI  203 (259)
Q Consensus       173 ~~~~~~~~~~~~~i~~Sa~~-g~gv~~~l~~i  203 (259)
                      ....+....+++++++||++ |.|+++++..+
T Consensus       155 ~~~~~~~~~~~~~~~~Sa~~~~~gi~~l~~~i  186 (208)
T 2yc2_C          155 MAQDWATTNTLDFFDVSANPPGKDADAPFLSI  186 (208)
T ss_dssp             HHHHHHHHTTCEEEECCC-------CHHHHHH
T ss_pred             HHHHHHHHcCCEEEEeccCCCCcCHHHHHHHH
Confidence            23334444567889999999 99998855443

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=99.88  E-value=2.4e-23  Score=158.49  Aligned_cols=150  Identities=15%  Similarity=0.090  Sum_probs=83.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+++|.+....... ...+    .+. .. .........                .+.+|||||+
T Consensus         3 ~ki~~vG~~~~GKSsli~~l~~~~~~~~~-~~~~----~~~-~~-~~~~~~~~~----------------~~~i~D~~g~   59 (166)
T 3q72_A            3 YKVLLLGAPGVGKSALARIFGGVEDGPEA-EAAG----HTY-DR-SIVVDGEEA----------------SLMVYDIWEQ   59 (166)
T ss_dssp             CEEEEEESTTSSHHHHHHHHCCC---------------CEE-EE-EEEETTEEE----------------EEEEEECC--
T ss_pred             EEEEEECCCCCCHHHHHHHHcCccccCCC-Cccc----cce-EE-EEEECCEEE----------------EEEEEECCCC
Confidence            35999999999999999999876543211 1111    111 00 000000011                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      +.+...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+.... ...    ......+..
T Consensus        60 ~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~-~~~----~~~~~~~~~  134 (166)
T 3q72_A           60 DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSR-EVS----VDEGRACAV  134 (166)
T ss_dssp             -------------CCEEEEEEETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSC-CSC----HHHHHHHHH
T ss_pred             ccchhhhhhhhhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEecccccccc-ccC----HHHHHHHHH
Confidence            99999999999999999999999875444333 34444443    368999999999987431 111    222333444


Q ss_pred             cccccccccccccCcceeEEeec
Q psy6316         180 SVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ..+++++++||++|.|+++++..
T Consensus       135 ~~~~~~~~~Sa~~~~gi~~l~~~  157 (166)
T 3q72_A          135 VFDCKFIETSAALHHNVQALFEG  157 (166)
T ss_dssp             HTTCEEEECBGGGTBSHHHHHHH
T ss_pred             HhCCcEEEeccCCCCCHHHHHHH
Confidence            45678899999999999875543

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=99.88  E-value=1.6e-23  Score=164.94  Aligned_cols=157  Identities=17%  Similarity=0.153  Sum_probs=103.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|.+..+...+.++.+..+... ...     ....+                .+.||||||
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~-~~~-----~~~~~----------------~l~i~Dt~G   82 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIAD-IEV-----DGKQV----------------ELALWDTAG   82 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCEEE-EEE-----TTEEE----------------EEEEECCCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEEEE-EEE-----CCEEE----------------EEEEEECCC
Confidence            36799999999999999999998877544433333222100 000     00001                289999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHhC--CCCEEEEEecccccCcccccc-------hhhHHH
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKSK--KTPFVVALNKIDRLYNWNTMN-------RRDVRD  172 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~~--~~piivv~NK~D~~~~~~~~~-------~~~~~~  172 (259)
                      ++.+...+..+++.+|++++|+|+++..+....  .++..+...  +.|+++|+||+|+........       ......
T Consensus        83 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~  162 (201)
T 2gco_A           83 QEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSE  162 (201)
T ss_dssp             SGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHH
T ss_pred             chhHHHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEecHHhhcCccchhhhcccccCcCCHH
Confidence            999998888999999999999999875444443  355555543  799999999999974311000       000111


Q ss_pred             HHhhhhccccc-cccccccccCcceeEEeec
Q psy6316         173 IIKSQESSVQT-HKTVESARKGQEICIKIEP  202 (259)
Q Consensus       173 ~~~~~~~~~~~-~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ....+....+. .++++||++|.|+++++..
T Consensus       163 ~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~  193 (201)
T 2gco_A          163 EGRDMANRISAFGYLECSAKTKEGVREVFEM  193 (201)
T ss_dssp             HHHHHHHHTTCSEEEECCTTTCTTHHHHHHH
T ss_pred             HHHHHHHhCCCcEEEEeeCCCCCCHHHHHHH
Confidence            22233333344 6789999999999875543

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=99.88  E-value=9.9e-24  Score=161.07  Aligned_cols=152  Identities=13%  Similarity=0.117  Sum_probs=90.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+++|.+.........+.+.+........     .....                .+.+|||||+
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~----------------~~~i~D~~g~   61 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMV-----DKEEV----------------TLIVYDIWEQ   61 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEE-----TTEEE----------------EEEEECCCCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEE-----CCeEE----------------EEEEEECCCc
Confidence            35999999999999999999876543322221111111000000     00001                2889999999


Q ss_pred             cchHH-HHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         105 ESFSN-LRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       105 ~~~~~-~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      +.+.. .+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+... .    .........+.
T Consensus        62 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~-~----~~~~~~~~~~~  136 (169)
T 3q85_A           62 GDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARS-R----EVSLEEGRHLA  136 (169)
T ss_dssp             --------CHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGG-C----CSCHHHHHHHH
T ss_pred             cccchhhhhhhhccCCEEEEEEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhc-c----cCCHHHHHHHH
Confidence            88876 566677889999999999875443332 34444433    37899999999998632 1    11223334444


Q ss_pred             ccccccccccccccCcceeEEeec
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ...+++++++||++|.|+++++..
T Consensus       137 ~~~~~~~~~~Sa~~~~~v~~l~~~  160 (169)
T 3q85_A          137 GTLSCKHIETSAALHHNTRELFEG  160 (169)
T ss_dssp             HHTTCEEEECBTTTTBSHHHHHHH
T ss_pred             HHcCCcEEEecCccCCCHHHHHHH
Confidence            555678899999999999875543

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=99.88  E-value=1.7e-23  Score=165.27  Aligned_cols=160  Identities=17%  Similarity=0.159  Sum_probs=105.0

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ++..+|+++|.+|+|||||+++|++..+...+.++....+... .....     ..+                .+.||||
T Consensus        28 ~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~-~~~~~-----~~~----------------~l~i~Dt   85 (204)
T 4gzl_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSAN-VMVDG-----KPV----------------NLGLWDT   85 (204)
T ss_dssp             --CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSEEEEEEE-EECC------CEE----------------EEEEEEE
T ss_pred             CCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeecceeEEE-EEECC-----EEE----------------EEEEEEC
Confidence            4456699999999999999999998777554444333222111 00000     000                1779999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHhC--CCCEEEEEecccccCcccccch-------hhH
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKSK--KTPFVVALNKIDRLYNWNTMNR-------RDV  170 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~~--~~piivv~NK~D~~~~~~~~~~-------~~~  170 (259)
                      ||++.+...+..+++.+|++++|+|+++..+....  .++..+...  +.|+++|+||+|+.........       ...
T Consensus        86 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~  165 (204)
T 4gzl_A           86 AGLEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPIT  165 (204)
T ss_dssp             CCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCC
T ss_pred             CCchhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhccchhhhhhhhcccccccc
Confidence            99999999999999999999999999886555554  355555554  7999999999999743110000       001


Q ss_pred             HHHHhhhhccccc-cccccccccCcceeEEeecC
Q psy6316         171 RDIIKSQESSVQT-HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       171 ~~~~~~~~~~~~~-~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ......+....+. +++++||++|.|+++++..+
T Consensus       166 ~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l  199 (204)
T 4gzl_A          166 YPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEA  199 (204)
T ss_dssp             HHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHhcCCcEEEEeeCCCCCCHHHHHHHH
Confidence            1122233333343 58899999999998866544

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.88  E-value=8.6e-24  Score=169.19  Aligned_cols=155  Identities=16%  Similarity=0.158  Sum_probs=101.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+|+|++|+|||||+++|++..+...+..+++.++.........     ..+                .+.||||||
T Consensus        13 ~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~i~Dt~G   71 (223)
T 3cpj_B           13 LFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEG-----KRI----------------KAQIWDTAG   71 (223)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETT-----EEE----------------EEEEECCTT
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECC-----EEE----------------EEEEEECCC
Confidence            35699999999999999999998877544433333222111111100     001                289999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++|+|+|+++..+.... .++..+..   .+.|+++|+||+|+.... ....+    ....+..
T Consensus        72 ~~~~~~~~~~~~~~~d~vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~-~v~~~----~~~~~~~  146 (223)
T 3cpj_B           72 QERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLR-AVPTE----ESKTFAQ  146 (223)
T ss_dssp             TTTTTCCCGGGTTTCCEEEEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGGC-CSCHH----HHHHHHH
T ss_pred             ccchhhhHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccc-ccCHH----HHHHHHH
Confidence            999988888999999999999999876554443 34455544   368999999999997421 11222    2333334


Q ss_pred             cccccccccccccCcceeEEeecCC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ..+++++++||++|.|+++++..+.
T Consensus       147 ~~~~~~~~~Sa~~~~gi~~l~~~l~  171 (223)
T 3cpj_B          147 ENQLLFTETSALNSENVDKAFEELI  171 (223)
T ss_dssp             HTTCEEEECCCC-CCCHHHHHHHHH
T ss_pred             HcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            4567888999999999998765553

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=99.88  E-value=2e-23  Score=180.85  Aligned_cols=195  Identities=24%  Similarity=0.234  Sum_probs=130.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCC----------cceeeccccccCccccccccccccCCCCCCCCCCCCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAG----------GITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIP   94 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (259)
                      .+|+++|++|+|||||+++|++.....+...          ......+.+.. ....     .+           .....
T Consensus         4 ~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~-~~~~-----~~-----------~~~~~   66 (397)
T 1d2e_A            4 VNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITIN-AAHV-----EY-----------STAAR   66 (397)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEE-CEEE-----EE-----------ECSSC
T ss_pred             EEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEE-eeeE-----Ee-----------ccCCe
Confidence            4599999999999999999987421111000          00000010000 0000     00           01112


Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHHHH
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVRDI  173 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~~~  173 (259)
                      .+.|||||||++|...+..+++.+|++|+|+|++++...+..+++..+...++| +++++||+|+....  ...+.+...
T Consensus        67 ~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~--~~~~~~~~~  144 (397)
T 1d2e_A           67 HYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNKADAVQDS--EMVELVELE  144 (397)
T ss_dssp             EEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCCEEEEEECGGGCSCH--HHHHHHHHH
T ss_pred             EEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCeEEEEEECcccCCCH--HHHHHHHHH
Confidence            399999999999999999999999999999999999999999999888888999 68999999997421  011222233


Q ss_pred             Hhhhhccc-----cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchhhHH
Q psy6316         174 IKSQESSV-----QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTDWQL  248 (259)
Q Consensus       174 ~~~~~~~~-----~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~~~~  248 (259)
                      +..+....     .++++++||++|.|..        ..++            ...-+.+.++.+.++++.+.+..+.+|
T Consensus       145 ~~~~l~~~~~~~~~~~~i~~SA~~g~n~~--------~~~~------------~~g~i~~Ll~~l~~~~p~p~~~~~~p~  204 (397)
T 1d2e_A          145 IRELLTEFGYKGEETPIIVGSALCALEQR--------DPEL------------GLKSVQKLLDAVDTYIPVPTRDLEKPF  204 (397)
T ss_dssp             HHHHHHHTTSCTTTSCEEECCHHHHHTTC--------CTTT------------THHHHHHHHHHHHHHSCCCCCCTTSCC
T ss_pred             HHHHHHHcCCCcccCcEEEeehhhccccc--------CCCc------------cCCcHHHHHHHHHHhCCCCCCCCCCcE
Confidence            33333333     2578899999988721        1111            111135667777777888888888999


Q ss_pred             HHHHHHhhcc
Q psy6316         249 MVDLKKVFQI  258 (259)
Q Consensus       249 ~~~i~~~~~~  258 (259)
                      +++|+++|++
T Consensus       205 ~~~v~~v~~~  214 (397)
T 1d2e_A          205 LLPVESVYSI  214 (397)
T ss_dssp             EEECCEEEEE
T ss_pred             EEEEEEEEEe
Confidence            9999998874

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.88  E-value=2.6e-23  Score=162.63  Aligned_cols=157  Identities=17%  Similarity=0.188  Sum_probs=104.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+...+.++....+.. ....     ....+                .+.+|||||
T Consensus        18 ~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~-~~~~-----~~~~~----------------~~~i~D~~G   75 (194)
T 2atx_A           18 MLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAV-SVTV-----GGKQY----------------LLGLYDTAG   75 (194)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCEEE-EEES-----SSCEE----------------EEEEECCCC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEE-EEEE-----CCEEE----------------EEEEEECCC
Confidence            4579999999999999999999887654443333222110 0000     00001                289999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHhC--CCCEEEEEecccccCccccc-------chhhHHH
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKSK--KTPFVVALNKIDRLYNWNTM-------NRRDVRD  172 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~~--~~piivv~NK~D~~~~~~~~-------~~~~~~~  172 (259)
                      ++++...+..+++.+|++++|+|+++..+....  .++..+...  +.|+++|+||+|+.......       .+....+
T Consensus        76 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~  155 (194)
T 2atx_A           76 QEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVE  155 (194)
T ss_dssp             SSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHH
T ss_pred             CcchhHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhcccccchhhcccccCcccCHH
Confidence            999998888999999999999999876554443  355666554  79999999999997431000       0001112


Q ss_pred             HHhhhhccccc-cccccccccCcceeEEeec
Q psy6316         173 IIKSQESSVQT-HKTVESARKGQEICIKIEP  202 (259)
Q Consensus       173 ~~~~~~~~~~~-~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ....+....+. +++++||++|.|+++++..
T Consensus       156 ~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~  186 (194)
T 2atx_A          156 QGQKLAKEIGACCYVECSALTQKGLKTVFDE  186 (194)
T ss_dssp             HHHHHHHHHTCSCEEECCTTTCTTHHHHHHH
T ss_pred             HHHHHHHHcCCcEEEEeeCCCCCCHHHHHHH
Confidence            22333333444 7889999999999875543

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=99.88  E-value=7.8e-24  Score=168.64  Aligned_cols=155  Identities=16%  Similarity=0.225  Sum_probs=103.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+|+|++..+......+.+...    ............+                .+.+|||||
T Consensus        11 ~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~----~~~~~~~~~~~~~----------------~~~l~Dt~G   70 (218)
T 4djt_A           11 TYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVN----HPVTFLDDQGNVI----------------KFNVWDTAG   70 (218)
T ss_dssp             EEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEE----EEEEEEBTTSCEE----------------EEEEEEECS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceee----EEEEEEeCCCcEE----------------EEEEEecCC
Confidence            45699999999999999999997766432222222111    1110000000001                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHH---hCCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILK---SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~---~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..++..+|++|+|+|+++..+..+. .++..+.   ..+.|+++|+||+|+...     ..........+..
T Consensus        71 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-----~~~~~~~~~~~~~  145 (218)
T 4djt_A           71 QEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNR-----QKISKKLVMEVLK  145 (218)
T ss_dssp             GGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC---------CCHHHHHHHTT
T ss_pred             chhhchHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccc-----cccCHHHHHHHHH
Confidence            998888888889999999999999886554443 2334443   346899999999998742     1122233445555


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+++++++||++|.|+++++..+
T Consensus       146 ~~~~~~~~~Sa~~g~gv~~l~~~l  169 (218)
T 4djt_A          146 GKNYEYFEISAKTAHNFGLPFLHL  169 (218)
T ss_dssp             TCCCEEEEEBTTTTBTTTHHHHHH
T ss_pred             HcCCcEEEEecCCCCCHHHHHHHH
Confidence            667889999999999999866554

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=99.88  E-value=3.8e-23  Score=179.91  Aligned_cols=173  Identities=24%  Similarity=0.223  Sum_probs=105.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccC---CCCCCcceeeccccccCccccccccccccCCCCCCCCCCCC-CCCCeEEE
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQ---DGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPL-EIPGLLII   99 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~li   99 (259)
                      ..+|+++|++|+|||||+++|++....   ....++++...+.............. .............+ ....+.||
T Consensus        10 ~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~-y~~~~~~~~~g~~~~~~~~i~ii   88 (410)
T 1kk1_A           10 EVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGR-YSTSPVCPYCGHETEFVRRVSFI   88 (410)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCC-EESSSBCTTTCCBCEEEEEEEEE
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeeccccccccc-ccccccccccCcccccccEEEEE
Confidence            356999999999999999999865321   11112222222211111100000000 00000000000000 01239999


Q ss_pred             eCCCCcchHHHHHhhccCCCeEEEEEeCCCCC-CHHHHHHHHHHHhCCC-CEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGL-EPQTIESINILKSKKT-PFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       100 DtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~-~~~~~~~l~~~~~~~~-piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      |||||++|...+...+..+|++|+|+|++++. ..+..+++..+...+. |+++++||+|+....   ...+..+.+..+
T Consensus        89 DtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~~~~~~iivviNK~Dl~~~~---~~~~~~~~i~~~  165 (410)
T 1kk1_A           89 DAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELVDKE---KALENYRQIKEF  165 (410)
T ss_dssp             ECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCHH---HHHHHHHHHHHH
T ss_pred             ECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHHHHHcCCCcEEEEEECccCCCHH---HHHHHHHHHHHH
Confidence            99999999999999999999999999999886 7888888877776664 789999999997421   111222333333


Q ss_pred             hcc---ccccccccccccCcceeEEe
Q psy6316         178 ESS---VQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       178 ~~~---~~~~~i~~Sa~~g~gv~~~l  200 (259)
                      ...   ..++++++||++|.|++.++
T Consensus       166 l~~~~~~~~~~i~vSA~~g~gi~~L~  191 (410)
T 1kk1_A          166 IEGTVAENAPIIPISALHGANIDVLV  191 (410)
T ss_dssp             HTTSTTTTCCEEECBTTTTBSHHHHH
T ss_pred             HHhcCcCCCeEEEeeCCCCCCHHHHH
Confidence            322   35688899999999986533

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=99.88  E-value=5.5e-24  Score=167.49  Aligned_cols=153  Identities=19%  Similarity=0.155  Sum_probs=97.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+......+++.+..........     ...                .+.||||||
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~l~l~Dt~G   83 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGG-----KTV----------------KLQIWDTAG   83 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETT-----EEE----------------EEEEECCTT
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECC-----eee----------------EEEEEcCCC
Confidence            45699999999999999999998876544433333222111111100     001                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++|+|+|+++..+.... .++..+..   .+.|+++|+||+|+.... .....+    ...+..
T Consensus        84 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-~v~~~~----~~~~~~  158 (200)
T 2o52_A           84 QERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPER-EVTFLE----ASRFAQ  158 (200)
T ss_dssp             HHHHSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGGC-CSCHHH----HHHHHH
T ss_pred             cHhHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccc-ccCHHH----HHHHHH
Confidence            988887788889999999999999875443332 34444433   478999999999986321 111222    233334


Q ss_pred             cccccccccccccCcceeEEeec
Q psy6316         180 SVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ..+++++++||++|.|+++++..
T Consensus       159 ~~~~~~~~~SA~~g~gi~~l~~~  181 (200)
T 2o52_A          159 ENELMFLETSALTGENVEEAFLK  181 (200)
T ss_dssp             HTTCEEEEECTTTCTTHHHHHHH
T ss_pred             HcCCEEEEEeCCCCCCHHHHHHH
Confidence            45678899999999999875543

>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET: GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP: b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*

Probab=99.88  E-value=2.2e-23  Score=187.87  Aligned_cols=135  Identities=53%  Similarity=0.843  Sum_probs=96.6

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccc-cCCCCCCCCCCCCCCCCeEEE
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHV-RGPGGEVGGPGPLEIPGLLII   99 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~li   99 (259)
                      .+|+++|+++|++|+|||||+++|++..+.....++++.+.+....+........... ....      ..+....++||
T Consensus         2 ~~r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~------v~~~~~~i~li   75 (594)
T 1g7s_A            2 KIRSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFS------IRETLPGLFFI   75 (594)
T ss_dssp             EECCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCG------GGGTCCEEEEE
T ss_pred             CCCCcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccc------cccccCCEEEE
Confidence            3678899999999999999999999877655444344444443333221100000000 0000      01112239999


Q ss_pred             eCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCc
Q psy6316         100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYN  161 (259)
Q Consensus       100 DtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~  161 (259)
                      |||||.+|..++..+++.+|++|+|+|++++...++.+.+..+...++|+++++||+|+...
T Consensus        76 DTPGhe~F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~l~~~~vPiIVViNKiDl~~~  137 (594)
T 1g7s_A           76 DTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYRTPFVVAANKIDRIHG  137 (594)
T ss_dssp             CCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHTTCCEEEEEECGGGSTT
T ss_pred             ECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHHHHHcCCeEEEEecccccccc
Confidence            99999999998888899999999999999999999999999999999999999999999753

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=99.88  E-value=1.1e-23  Score=167.77  Aligned_cols=162  Identities=19%  Similarity=0.133  Sum_probs=103.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+......+++.++...............           ........+.||||||
T Consensus        25 ~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~l~l~Dt~G   93 (217)
T 2f7s_A           25 LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGS-----------SGKAFKVHLQLWDTAG   93 (217)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC------------------CCEEEEEEEEEEEES
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCcccccc-----------ccCceeEEEEEEECCC
Confidence            35699999999999999999998876433323332222111111110000000           0000011299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      ++.+...+..+++.+|++|+|+|+++..+..... ++..+..    .+.|+++|+||+|+.... ...    ....+.+.
T Consensus        94 ~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~-~v~----~~~~~~~~  168 (217)
T 2f7s_A           94 QERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQR-EVN----ERQARELA  168 (217)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGC-CSC----HHHHHHHH
T ss_pred             cHhHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCcccccc-ccC----HHHHHHHH
Confidence            9999999999999999999999998754443332 3443433    468999999999986421 111    22333444


Q ss_pred             ccccccccccccccCcceeEEee
Q psy6316         179 SSVQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      ...+++++++||++|.|+++++.
T Consensus       169 ~~~~~~~~~~Sa~~g~gi~~l~~  191 (217)
T 2f7s_A          169 DKYGIPYFETSAATGQNVEKAVE  191 (217)
T ss_dssp             HHTTCCEEEEBTTTTBTHHHHHH
T ss_pred             HHCCCcEEEEECCCCCCHHHHHH
Confidence            44567889999999999987543

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=99.88  E-value=8.6e-24  Score=174.18  Aligned_cols=152  Identities=20%  Similarity=0.206  Sum_probs=102.0

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      |+..+|+++|++|+|||||+|+|++..+..+..++.+.........                       +....+.+|||
T Consensus         1 m~~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~-----------------------~~~~~~~l~Dt   57 (271)
T 3k53_A            1 MVLKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIME-----------------------YREKEFLVVDL   57 (271)
T ss_dssp             CCCEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEE-----------------------ETTEEEEEEEC
T ss_pred             CceeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEE-----------------------ECCceEEEEeC
Confidence            4556799999999999999999998765322222222111100000                       01112899999


Q ss_pred             CCCcchHH------HHHhhc--cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCC-CCEEEEEecccccCcccccchhhHHH
Q psy6316         102 PGHESFSN------LRNRGS--SLCDIAILVVDIMHGLEPQTIESINILKSKK-TPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       102 pG~~~~~~------~~~~~~--~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~-~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      ||+..+..      ....++  ..+|++++|+|+++.  .....++.++.+.+ .|+++|+||+|+......      ..
T Consensus        58 pG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~--~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~------~~  129 (271)
T 3k53_A           58 PGIYSLTAHSIDELIARNFILDGNADVIVDIVDSTCL--MRNLFLTLELFEMEVKNIILVLNKFDLLKKKGA------KI  129 (271)
T ss_dssp             CCCSCCCSSCHHHHHHHHHHHTTCCSEEEEEEEGGGH--HHHHHHHHHHHHTTCCSEEEEEECHHHHHHHTC------CC
T ss_pred             CCccccccCCHHHHHHHHhhhccCCcEEEEEecCCcc--hhhHHHHHHHHhcCCCCEEEEEEChhcCccccc------HH
Confidence            99776554      344444  689999999999873  45566677777777 999999999998632111      11


Q ss_pred             HHhhhhccccccccccccccCcceeEEeecCC
Q psy6316         173 IIKSQESSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       173 ~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ....+...++++++++||++|.|+++++..+.
T Consensus       130 ~~~~l~~~lg~~~~~~Sa~~g~gi~~l~~~i~  161 (271)
T 3k53_A          130 DIKKMRKELGVPVIPTNAKKGEGVEELKRMIA  161 (271)
T ss_dssp             CHHHHHHHHSSCEEECBGGGTBTHHHHHHHHH
T ss_pred             HHHHHHHHcCCcEEEEEeCCCCCHHHHHHHHH
Confidence            12333344568899999999999998766553

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.88  E-value=1.5e-23  Score=165.82  Aligned_cols=160  Identities=18%  Similarity=0.177  Sum_probs=101.6

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ++..+|+++|.+|+|||||+++|++..+...+.++.+..+... ...     .....                .+.||||
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~-~~~-----~~~~~----------------~~~i~Dt   80 (207)
T 2fv8_A           23 MIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVAD-IEV-----DGKQV----------------ELALWDT   80 (207)
T ss_dssp             SEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEEEE-EEE-----TTEEE----------------EEEEEEC
T ss_pred             ccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEEEE-EEE-----CCEEE----------------EEEEEEC
Confidence            4456799999999999999999998876544333332221100 000     00001                2899999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHhC--CCCEEEEEecccccCcccccc-------hhhH
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKSK--KTPFVVALNKIDRLYNWNTMN-------RRDV  170 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~~--~~piivv~NK~D~~~~~~~~~-------~~~~  170 (259)
                      ||++.+...+..+++.+|++++|+|+++..+....  .++..+...  +.|+++|+||+|+........       ....
T Consensus        81 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~  160 (207)
T 2fv8_A           81 AGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVPIILVANKKDLRSDEHVRTELARMKQEPVR  160 (207)
T ss_dssp             TTCTTCTTTGGGGCTTCCEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCC
T ss_pred             CCcHHHHHHHHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhhhccccchhhhhhcccCCCC
Confidence            99999988888899999999999999875444433  355555543  799999999999974210000       0000


Q ss_pred             HHHHhhhhccccc-cccccccccCcceeEEeecC
Q psy6316         171 RDIIKSQESSVQT-HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       171 ~~~~~~~~~~~~~-~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ......+....+. .++++||++|.|+++++..+
T Consensus       161 ~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~~~l  194 (207)
T 2fv8_A          161 TDDGRAMAVRIQAYDYLECSAKTKEGVREVFETA  194 (207)
T ss_dssp             HHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCEEEEeeCCCCCCHHHHHHHH
Confidence            1111222223344 67899999999998865544

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=99.88  E-value=2.4e-23  Score=163.28  Aligned_cols=154  Identities=13%  Similarity=0.121  Sum_probs=98.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|.+.........+.+.+........     ....+                .+.+|||||
T Consensus        23 ~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~----------------~l~i~Dt~g   81 (195)
T 3cbq_A           23 IFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMV-----DKEEV----------------TLVVYDIWE   81 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEE-----TTEEE----------------EEEEECCCC
T ss_pred             EEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEE-----CCEEE----------------EEEEEecCC
Confidence            456999999999999999999755432111111111100000000     00001                288999999


Q ss_pred             CcchHH-HHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         104 HESFSN-LRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       104 ~~~~~~-~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      ++.+.. ++..+++.+|++++|+|+++..+... ..++..+..    .+.|+++|+||+|+.... ....++    .+.+
T Consensus        82 ~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~-~v~~~~----~~~~  156 (195)
T 3cbq_A           82 QGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSR-EVSLEE----GRHL  156 (195)
T ss_dssp             CSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTC-CSCHHH----HHHH
T ss_pred             CccchhhhHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccC-CcCHHH----HHHH
Confidence            988765 66777899999999999987544333 234444543    378999999999996421 112222    2333


Q ss_pred             hccccccccccccccCcceeEEeecC
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ....+++++++||++|.|+++++..+
T Consensus       157 a~~~~~~~~e~Sa~~~~~v~~lf~~l  182 (195)
T 3cbq_A          157 AGTLSCKHIETSAALHHNTRELFEGA  182 (195)
T ss_dssp             HHHTTCEEEEEBTTTTBSHHHHHHHH
T ss_pred             HHHhCCEEEEEcCCCCCCHHHHHHHH
Confidence            44445788999999999998866544

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=99.88  E-value=9.3e-24  Score=186.29  Aligned_cols=146  Identities=20%  Similarity=0.306  Sum_probs=90.1

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCC-------CHHHHHHHHHHHhCCCC-EEEEEecccccCc-cccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGL-------EPQTIESINILKSKKTP-FVVALNKIDRLYN-WNTM  165 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~-------~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~-~~~~  165 (259)
                      .+.|||||||++|...+..+++.+|++|+|+|++++.       ..+..+++..+...++| +++++||+|+... ++..
T Consensus       122 ~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~~~~~  201 (467)
T 1r5b_A          122 RFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQWSEE  201 (467)
T ss_dssp             EEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTTCSSCHH
T ss_pred             EEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCCCccccHH
Confidence            4999999999999999999999999999999999864       24677788888888998 9999999999631 1111


Q ss_pred             chhhHHHHHhhhhccc-------cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHH
Q psy6316         166 NRRDVRDIIKSQESSV-------QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFR  238 (259)
Q Consensus       166 ~~~~~~~~~~~~~~~~-------~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~  238 (259)
                      ..+.+...+..+....       .++++++||++|.|+.+++..  ...+|+.+.      .        .++.++. ++
T Consensus       202 ~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~~~--~~~~w~~g~------~--------L~~~l~~-i~  264 (467)
T 1r5b_A          202 RYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVDS--SVCPWYQGP------S--------LLEYLDS-MT  264 (467)
T ss_dssp             HHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCCT--TTCSSCCSC------C--------HHHHHHH-CC
T ss_pred             HHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccccc--ccCccccch------h--------HHHHHHh-CC
Confidence            2233333444443332       466889999999999886632  123443221      0        1222322 44


Q ss_pred             hhcCchhhHHHHHHHHhhc
Q psy6316         239 DDLQKTDWQLMVDLKKVFQ  257 (259)
Q Consensus       239 ~~~~~~~~~~~~~i~~~~~  257 (259)
                      .+.+..+.+|+++|+++|+
T Consensus       265 ~~~~~~~~p~~~~v~~~~~  283 (467)
T 1r5b_A          265 HLERKVNAPFIMPIASKYK  283 (467)
T ss_dssp             CCHHHHTSCCEEECCEEEE
T ss_pred             CCcCCCCCCcEEEEEEEEe
Confidence            4555567788888888775

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.88  E-value=2.5e-23  Score=163.15  Aligned_cols=154  Identities=15%  Similarity=0.174  Sum_probs=103.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+...+..+++..+... ...     .....                .+.||||||
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~-~~~-----~~~~~----------------~~~l~Dt~G   65 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYRQV-ISC-----DKSVC----------------TLQITDTTG   65 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEEEEE-EEE-----TTEEE----------------EEEEEECCG
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcCCCCCcccCccccceeEE-EEE-----CCEEE----------------EEEEEeCCC
Confidence            34599999999999999999998776544433333222110 000     00001                289999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh-----CCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS-----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~-----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      +..+...+..++..+|++++|+|+++..+.... .++..+..     .+.|+++|+||+|+...  ....    .....+
T Consensus        66 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~~--~~~~----~~~~~~  139 (199)
T 2gf0_A           66 SHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQR--EVDT----REAQAV  139 (199)
T ss_dssp             GGSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSSC--SSCH----HHHHHH
T ss_pred             hHHhHHHHHHhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCcc--ccCH----HHHHHH
Confidence            999999999999999999999999874333322 23333322     36899999999998741  1111    222333


Q ss_pred             hccccccccccccccCcceeEEeecCCC
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      ...++++++++||++|.|+++++..+..
T Consensus       140 ~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  167 (199)
T 2gf0_A          140 AQEWKCAFMETSAKMNYNVKELFQELLT  167 (199)
T ss_dssp             HHHHTCEEEECBTTTTBSHHHHHHHHHH
T ss_pred             HHHhCCeEEEEecCCCCCHHHHHHHHHH
Confidence            3444678899999999999987766643

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=99.88  E-value=1.5e-22  Score=156.73  Aligned_cols=152  Identities=18%  Similarity=0.144  Sum_probs=102.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+++|.+..+.     ....+.+........     ..                ..+.+|||||
T Consensus        16 ~~ki~ivG~~~vGKSsL~~~l~~~~~~-----~~~~t~g~~~~~~~~-----~~----------------~~l~i~Dt~G   69 (181)
T 1fzq_A           16 EVRILLLGLDNAGKTTLLKQLASEDIS-----HITPTQGFNIKSVQS-----QG----------------FKLNVWDIGG   69 (181)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCCSCCE-----EEEEETTEEEEEEEE-----TT----------------EEEEEEECSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCC-----cccCcCCeEEEEEEE-----CC----------------EEEEEEECCC
Confidence            356999999999999999999876542     112222211111000     01                1299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhh-h
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS-Q  177 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~-~  177 (259)
                      ++.+...+..+++.+|++++|+|+++..+.... .++..+.    ..+.|+++|+||+|+....   ..+++.+.+.. .
T Consensus        70 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~---~~~~~~~~~~~~~  146 (181)
T 1fzq_A           70 QRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAA---PASEIAEGLNLHT  146 (181)
T ss_dssp             CGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCC---CHHHHHHHTTGGG
T ss_pred             CHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCC---CHHHHHHHhCchh
Confidence            999999999999999999999999876555443 3444332    2478999999999997431   22233332221 1


Q ss_pred             hccccccccccccccCcceeEEeecCC
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ....+++++++||++|.|+++++..+.
T Consensus       147 ~~~~~~~~~~~Sa~~g~gi~~l~~~l~  173 (181)
T 1fzq_A          147 IRDRVWQIQSCSALTGEGVQDGMNWVC  173 (181)
T ss_dssp             CCSSCEEEEECCTTTCTTHHHHHHHHH
T ss_pred             ccCCceEEEEccCCCCCCHHHHHHHHH
Confidence            123356788999999999988665543

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=99.87  E-value=2.1e-23  Score=170.45  Aligned_cols=152  Identities=18%  Similarity=0.157  Sum_probs=101.7

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+++|.+|+|||||+|+|++..+..+..++.+       .......     +.           .....+.|||||
T Consensus         4 ~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~t-------v~~~~~~-----~~-----------~~~~~~~l~Dtp   60 (258)
T 3a1s_A            4 HMVKVALAGCPNVGKTSLFNALTGTKQYVANWPGVT-------VEKKEGV-----FT-----------YKGYTINLIDLP   60 (258)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSC-------CEEEEEE-----EE-----------ETTEEEEEEECC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCce-------EEEEEEE-----EE-----------ECCeEEEEEECC
Confidence            346799999999999999999998765322222111       1110000     00           001129999999


Q ss_pred             CCcchHH------HHHhhc--cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316         103 GHESFSN------LRNRGS--SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus       103 G~~~~~~------~~~~~~--~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      |+..+..      ....++  ..+|++++|+|+++  ......++.++.+.+.|+++|+||+|+...... .     ...
T Consensus        61 G~~~~~~~~~~e~v~~~~~~~~~~d~ii~V~D~t~--~~~~~~~~~~l~~~~~pvilv~NK~Dl~~~~~i-~-----~~~  132 (258)
T 3a1s_A           61 GTYSLGYSSIDEKIARDYLLKGDADLVILVADSVN--PEQSLYLLLEILEMEKKVILAMTAIDEAKKTGM-K-----IDR  132 (258)
T ss_dssp             CCSSCCSSSHHHHHHHHHHHHSCCSEEEEEEETTS--CHHHHHHHHHHHTTTCCEEEEEECHHHHHHTTC-C-----BCH
T ss_pred             CcCccCCCCHHHHHHHHHHhhcCCCEEEEEeCCCc--hhhHHHHHHHHHhcCCCEEEEEECcCCCCccch-H-----HHH
Confidence            9876543      223343  68999999999987  344556778888889999999999998632111 1     112


Q ss_pred             hhhhccccccccccccccCcceeEEeecCCC
Q psy6316         175 KSQESSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       175 ~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      ..+...++++++++||++|.|+++++..+..
T Consensus       133 ~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~  163 (258)
T 3a1s_A          133 YELQKHLGIPVVFTSSVTGEGLEELKEKIVE  163 (258)
T ss_dssp             HHHHHHHCSCEEECCTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHcCCCEEEEEeeCCcCHHHHHHHHHH
Confidence            3334445689999999999999997766543

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.87  E-value=1.3e-23  Score=190.28  Aligned_cols=151  Identities=19%  Similarity=0.242  Sum_probs=100.5

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCC-------CCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG-------LEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMN  166 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~-------~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~  166 (259)
                      .++|||||||++|...+..+++.+|++|+|+|++++       ...+..+++..+...++| +|+|+||+|+.. +....
T Consensus       246 ~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lgi~~iIVVvNKiDl~~-~~~~~  324 (611)
T 3izq_1          246 NFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVD-WSQQR  324 (611)
T ss_dssp             EEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTTCCEEEEEEECTTTTT-TCHHH
T ss_pred             eEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHcCCCeEEEEEecccccc-hhHHH
Confidence            499999999999999999999999999999999874       356778888888888866 999999999974 22222


Q ss_pred             hhhHHHHHhhhhccc-----cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHh--
Q psy6316         167 RRDVRDIIKSQESSV-----QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRD--  239 (259)
Q Consensus       167 ~~~~~~~~~~~~~~~-----~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~--  239 (259)
                      .+++...+..+....     .++++++||++|.|+.++.... ...+|+.+..       +    .+.++.+....+.  
T Consensus       325 ~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el~~~~-~~~~Wy~g~~-------L----~~~L~~l~~~~p~~~  392 (611)
T 3izq_1          325 FEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKIEYTD-EVRQWYNGPN-------L----MSTLENAAFKISKEN  392 (611)
T ss_dssp             HHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSCTTSC-TTCCSCCSCC-------H----HHHHTTSCCCCCCSS
T ss_pred             HHHHHHHHHHHHHhhcccccCccEEeeecccCCCccccCccc-cccccccCCc-------H----HHHHHHHhhcccccC
Confidence            333444444443322     3578899999999998753211 1123332211       1    1112111111111  


Q ss_pred             hcCchhhHHHHHHHHhhcc
Q psy6316         240 DLQKTDWQLMVDLKKVFQI  258 (259)
Q Consensus       240 ~~~~~~~~~~~~i~~~~~~  258 (259)
                      +.+..+.||+|+|+++|++
T Consensus       393 p~~~~~~p~r~~V~~v~~~  411 (611)
T 3izq_1          393 EGINKDDPFLFSVLEIIPS  411 (611)
T ss_dssp             SCCSCCSCCEEECCEEECC
T ss_pred             cccccccchhhheeeeecc
Confidence            3456788889999888875

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=99.80  E-value=3.4e-24  Score=169.08  Aligned_cols=161  Identities=16%  Similarity=0.142  Sum_probs=107.6

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+++|.+|+|||||+++|++..+...+.++........ ...          .+           ....+.+||||
T Consensus        29 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~-~~~----------~~-----------~~~~l~i~Dt~   86 (204)
T 3th5_A           29 QAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSAN-VMV----------DG-----------KPVNLGLWDTA   86 (204)
Confidence            345599999999999999999987766433322222111100 000          00           00127799999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHhC--CCCEEEEEecccccCcccccc-------hhhHH
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKSK--KTPFVVALNKIDRLYNWNTMN-------RRDVR  171 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~~--~~piivv~NK~D~~~~~~~~~-------~~~~~  171 (259)
                      |++.+...+..+++.+|++++|+|+++..+....  .++..+...  +.|+++|+||+|+........       .....
T Consensus        87 G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~~l~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~  166 (204)
T 3th5_A           87 GQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITY  166 (204)
Confidence            9999999999999999999999999886655554  355555544  789999999999974311000       01111


Q ss_pred             HHHhhhhccccc-cccccccccCcceeEEeecCCC
Q psy6316         172 DIIKSQESSVQT-HKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       172 ~~~~~~~~~~~~-~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      .....+....+. +++++||++|.|+++++..+..
T Consensus       167 ~~~~~~~~~~~~~~~~~vSA~~g~gi~~l~~~l~~  201 (204)
T 3th5_A          167 PQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIR  201 (204)
Confidence            223334444455 7889999999999998877654

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=99.87  E-value=4.8e-23  Score=163.85  Aligned_cols=160  Identities=19%  Similarity=0.169  Sum_probs=87.1

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      .+..+|+++|.+|+|||||+++|++..+...+.++....+... ...     ....+                .+.||||
T Consensus        32 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~-~~~-----~~~~~----------------~l~l~Dt   89 (214)
T 2j1l_A           32 VRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMVN-LQV-----KGKPV----------------HLHIWDT   89 (214)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEEEEE-EEE-----TTEEE----------------EEEEEEC
T ss_pred             cceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeEEEE-EEE-----CCEEE----------------EEEEEEC
Confidence            3456799999999999999999998776443333332211100 000     00001                2899999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHh--CCCCEEEEEecccccCcccccc-------hhhH
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKS--KKTPFVVALNKIDRLYNWNTMN-------RRDV  170 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~--~~~piivv~NK~D~~~~~~~~~-------~~~~  170 (259)
                      ||++.+...+..+++.+|++++|+|+++..+....  .++..+..  .+.|+++|+||+|+........       ....
T Consensus        90 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~  169 (214)
T 2j1l_A           90 AGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVT  169 (214)
T ss_dssp             ---------------CEEEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCC
T ss_pred             CCchhhhHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhhccchhhhhhcccccCccc
Confidence            99999999999999999999999999875554443  24555544  3789999999999974311000       0001


Q ss_pred             HHHHhhhhccccc-cccccccccCcceeEEeecC
Q psy6316         171 RDIIKSQESSVQT-HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       171 ~~~~~~~~~~~~~-~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ......+....+. +++++||++|.|+++++..+
T Consensus       170 ~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~~~l  203 (214)
T 2j1l_A          170 YHRGQEMARSVGAVAYLECSARLHDNVHAVFQEA  203 (214)
T ss_dssp             HHHHHHHHHHTTCSEEEECBTTTTBSHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHH
Confidence            1122333444455 78899999999998755433

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.87  E-value=1e-22  Score=178.53  Aligned_cols=157  Identities=18%  Similarity=0.235  Sum_probs=106.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|||||||+|+|++....      .......++.........                +....+.||||||
T Consensus       175 ~~ki~lvG~~nvGKSSLin~l~~~~~~------~~~~~~gtT~d~~~~~~~----------------~~~~~~~l~DT~G  232 (436)
T 2hjg_A          175 VIQFCLIGRPNVGKSSLVNAMLGEERV------IVSNVAGTTRDAVDTSFT----------------YNQQEFVIVDTAG  232 (436)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTSTTE------EEC---------CCEEEE----------------ETTEEEEETTHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCCCce------eecCCCCceeeeeEEEEE----------------ECCeEEEEEECCC
Confidence            457999999999999999999987642      111111122211110000                0111299999999


Q ss_pred             C----------cchHHHHH-hhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHH
Q psy6316         104 H----------ESFSNLRN-RGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       104 ~----------~~~~~~~~-~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      +          +.|..... .+++.+|++++|+|++++.+.++..++..+...+.|+++|+||+|+.... ....++..+
T Consensus       233 ~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llv~D~~~~~s~~~~~~~~~~~~~~~~iiiv~NK~Dl~~~~-~~~~~~~~~  311 (436)
T 2hjg_A          233 MRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQDKRIAGYAHEAGKAVVIVVNKWDAVDKD-ESTMKEFEE  311 (436)
T ss_dssp             HTCBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEEEEEECGGGSCCC-TTHHHHHHH
T ss_pred             cCcCccccchHHHHHHHHHHHHHHhCCEEEEEEcCCcCCcHHHHHHHHHHHHcCCcEEEEEECccCCCcc-hHHHHHHHH
Confidence            7          44554433 47789999999999999999999999888888899999999999997432 112233333


Q ss_pred             HHhhhhc-cccccccccccccCcceeEEeecC
Q psy6316         173 IIKSQES-SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       173 ~~~~~~~-~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+.+... ....+++++||++|.|+++++..+
T Consensus       312 ~~~~~l~~~~~~~~~~~SA~tg~~v~~l~~~i  343 (436)
T 2hjg_A          312 NIRDHFQFLDYAPILFMSALTKKRIHTLMPAI  343 (436)
T ss_dssp             HHHHHCGGGTTSCEEECCTTTCTTGGGHHHHH
T ss_pred             HHHHhcccCCCCCEEEEecccCCCHHHHHHHH
Confidence            3333322 234678899999999999876554

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.87  E-value=1e-22  Score=158.57  Aligned_cols=150  Identities=18%  Similarity=0.140  Sum_probs=100.4

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+++|.+..+... .+++    +.....          +.           +....+.+|||||
T Consensus        22 ~~~i~v~G~~~~GKssli~~l~~~~~~~~-~~t~----~~~~~~----------~~-----------~~~~~~~~~Dt~G   75 (189)
T 2x77_A           22 KIRVLMLGLDNAGKTSILYRLHLGDVVTT-VPTV----GVNLET----------LQ-----------YKNISFEVWDLGG   75 (189)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCCSCCEEE-CSST----TCCEEE----------EE-----------ETTEEEEEEEECC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCc-CCCC----ceEEEE----------EE-----------ECCEEEEEEECCC
Confidence            45699999999999999999987654311 1111    100000          00           0011299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHh-hh
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIK-SQ  177 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~-~~  177 (259)
                      ++.+...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+....   ..+++...+. ..
T Consensus        76 ~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~  152 (189)
T 2x77_A           76 QTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAA---SEAEIAEQLGVSS  152 (189)
T ss_dssp             SSSSCCCCSSSSTTCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCC---CHHHHHHHTTGGG
T ss_pred             CHhHHHHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCC---CHHHHHHHhChhh
Confidence            998888888889999999999999887665543 34444433    378999999999997431   2233333332 12


Q ss_pred             hccccccccccccccCcceeEEeec
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ....+++++++||++|.|+++++..
T Consensus       153 ~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (189)
T 2x77_A          153 IMNRTWTIVKSSSKTGDGLVEGMDW  177 (189)
T ss_dssp             CCSSCEEEEECCTTTCTTHHHHHHH
T ss_pred             ccCCceEEEEccCCCccCHHHHHHH
Confidence            2334567889999999999875543

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=99.87  E-value=6.7e-23  Score=157.92  Aligned_cols=149  Identities=12%  Similarity=0.121  Sum_probs=95.5

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ++..+|+++|.+|+|||||+++|++..+.. +.++++..+. .....     ....+                .+.+|||
T Consensus         5 ~~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~~-~~~~~-----~~~~~----------------~l~i~Dt   61 (178)
T 2iwr_A            5 IPELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQYK-KEMLV-----DGQTH----------------LVLIREE   61 (178)
T ss_dssp             CCEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSSEEE-EEEEE-----TTEEE----------------EEEEEEC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcceeEE-EEEEE-----CCEEE----------------EEEEEEC
Confidence            455679999999999999999999887754 2222221110 00000     00001                2899999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHH----HHHHHh---CCCCEEEEEecccccCc-ccccchhhHHHH
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIES----INILKS---KKTPFVVALNKIDRLYN-WNTMNRRDVRDI  173 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~----l~~~~~---~~~piivv~NK~D~~~~-~~~~~~~~~~~~  173 (259)
                      ||++.     ..+++.+|++++|+|+++..+......    +..+..   .+.|+++|+||+|+... ......++.   
T Consensus        62 ~G~~~-----~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~---  133 (178)
T 2iwr_A           62 AGAPD-----AKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARA---  133 (178)
T ss_dssp             SSSCC-----HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCHHHH---
T ss_pred             CCCch-----hHHHHhCCEEEEEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCHHHH---
Confidence            99886     346678999999999987655544432    222332   36899999999998521 111122222   


Q ss_pred             Hhhhhccc-cccccccccccCcceeEEeec
Q psy6316         174 IKSQESSV-QTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       174 ~~~~~~~~-~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                       ..+.... +++++++||++|.|+++++..
T Consensus       134 -~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~  162 (178)
T 2iwr_A          134 -RALXADMKRCSYYETXATYGLNVDRVFQE  162 (178)
T ss_dssp             -HHHHHHHSSEEEEEEBTTTTBTHHHHHHH
T ss_pred             -HHHHHhhcCCeEEEEeccccCCHHHHHHH
Confidence             2232222 578899999999999875543

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.87  E-value=4.4e-23  Score=162.19  Aligned_cols=159  Identities=16%  Similarity=0.182  Sum_probs=99.2

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      .+..+|+++|.+|+|||||+++|++..+...+.++....+... ...     ....+                .+.||||
T Consensus        18 ~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~-~~~-----~~~~~----------------~~~i~Dt   75 (201)
T 2q3h_A           18 GRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFSAV-VSV-----DGRPV----------------RLQLCDT   75 (201)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEEEEE-EEE-----TTEEE----------------EEEEEEC
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEE-EEE-----CCEEE----------------EEEEEEC
Confidence            3456799999999999999999998776544333332221100 000     00001                1889999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHhC--CCCEEEEEecccccCcccc-------cchhhH
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKSK--KTPFVVALNKIDRLYNWNT-------MNRRDV  170 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~~--~~piivv~NK~D~~~~~~~-------~~~~~~  170 (259)
                      ||++.+...+..++..+|++++|+|+++..+....  .++..+...  +.|+++|+||+|+......       ......
T Consensus        76 ~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~  155 (201)
T 2q3h_A           76 AGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPIILVGTQSDLREDVKVLIELDKCKEKPVP  155 (201)
T ss_dssp             CCSTTCSSSGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCC
T ss_pred             CCCHHHHHHhHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhchhhhhhhcccccccCC
Confidence            99999988888899999999999999876555543  355555543  7899999999999742100       000111


Q ss_pred             HHHHhhhhccccc-cccccccccCcceeEEeec
Q psy6316         171 RDIIKSQESSVQT-HKTVESARKGQEICIKIEP  202 (259)
Q Consensus       171 ~~~~~~~~~~~~~-~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ......+....+. +++++||++|.|+++++..
T Consensus       156 ~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~  188 (201)
T 2q3h_A          156 EEAAKLLAEEIKAASYIECSALTQKNLKEVFDA  188 (201)
T ss_dssp             HHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHH
T ss_pred             HHHHHHHHHhcCCcEEEEEecCCCCCHHHHHHH
Confidence            1223333333344 7889999999999875543

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.87  E-value=1.2e-24  Score=171.15  Aligned_cols=158  Identities=16%  Similarity=0.154  Sum_probs=99.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+|+|++..+......+.+.+..........     ..+                .+.||||||
T Consensus        33 ~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~----------------~~~i~Dt~G   91 (199)
T 3l0i_B           33 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDG-----KTI----------------KLQIWDTAG   91 (199)
T ss_dssp             EEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETT-----EEE----------------EEEEECCTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECC-----EEE----------------EEEEEECCC
Confidence            45699999999999999999987765432222222111111111100     001                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHhC---CCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKSK---KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~~---~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+...+..+++.+|++++|+|+++..+.... .++..+...   +.|+++|+||+|+.... .....+    ...+..
T Consensus        92 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~-~v~~~~----~~~~~~  166 (199)
T 3l0i_B           92 QERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKK-VVDYTT----AKEFAD  166 (199)
T ss_dssp             CTTCCCCSCC--CCCSEEEECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--C-CCCSCC-----CHHHH
T ss_pred             cHhHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCccc-cCCHHH----HHHHHH
Confidence            999988888899999999999999886554443 344555443   68999999999986431 111111    233344


Q ss_pred             cccccccccccccCcceeEEeecCCCCC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPIPGEA  207 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i~~~~  207 (259)
                      ..+++++++||++|.|+++++..+....
T Consensus       167 ~~~~~~~~vSA~~g~gv~~l~~~l~~~l  194 (199)
T 3l0i_B          167 SLGIPFLETSAKNATNVEQSFMTMAAEI  194 (199)
T ss_dssp             TTTCCBCCCCC---HHHHHHHHHHTTTT
T ss_pred             HcCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4567899999999999999877765543

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.87  E-value=9.4e-23  Score=159.79  Aligned_cols=151  Identities=17%  Similarity=0.162  Sum_probs=101.3

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+++|.+|+|||||+++|++..+...+.++.+..+... ....     ....                .+.|||||
T Consensus        27 ~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~-~~~~-----~~~~----------------~~~l~Dt~   84 (196)
T 2atv_A           27 AEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQ-ATID-----DEVV----------------SMEILDTA   84 (196)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEE-EEET-----TEEE----------------EEEEEECC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceEEEE-EEEC-----CEEE----------------EEEEEECC
Confidence            346699999999999999999998877655444443222100 0000     0001                28999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      |++. ...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+... .....++    ...+
T Consensus        85 G~~~-~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~-~~v~~~~----~~~~  158 (196)
T 2atv_A           85 GQED-TIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHS-RQVSTEE----GEKL  158 (196)
T ss_dssp             CCCC-CHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGG-CCSCHHH----HHHH
T ss_pred             CCCc-ccchhhhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccc-cccCHHH----HHHH
Confidence            9887 67788888999999999999875443322 23333332    57899999999999742 1112222    2333


Q ss_pred             hccccccccccccccCc-ceeEEee
Q psy6316         178 ESSVQTHKTVESARKGQ-EICIKIE  201 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~-gv~~~l~  201 (259)
                      ....+++++++||++|. |+++++.
T Consensus       159 ~~~~~~~~~~~Sa~~g~~gi~~l~~  183 (196)
T 2atv_A          159 ATELACAFYECSACTGEGNITEIFY  183 (196)
T ss_dssp             HHHHTSEEEECCTTTCTTCHHHHHH
T ss_pred             HHHhCCeEEEECCCcCCcCHHHHHH
Confidence            33446788999999999 9877544

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=99.87  E-value=7e-24  Score=169.38  Aligned_cols=155  Identities=15%  Similarity=0.111  Sum_probs=103.9

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      .++..+|+++|.+|+|||||+++++...+......+.+.+.........     ....                .+.|||
T Consensus        12 ~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~----------------~~~i~D   70 (221)
T 3gj0_A           12 PQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTN-----RGPI----------------KFNVWD   70 (221)
T ss_dssp             CCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEET-----TEEE----------------EEEEEE
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEEC-----CEEE----------------EEEEEe
Confidence            3445679999999999999999976655433222222222211111110     0011                299999


Q ss_pred             CCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh--CCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         101 TPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS--KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       101 tpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      |||++.+...+..+++.+|++++|+|+++..+.... .++..+..  .+.|+++|+||+|+.....   ..    ....+
T Consensus        71 t~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~---~~----~~~~~  143 (221)
T 3gj0_A           71 TAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRKV---KA----KSIVF  143 (221)
T ss_dssp             ECSGGGTSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSTTCCEEEEEECTTSSSCSS---CG----GGCCH
T ss_pred             CCChHHHhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECCccccccc---cH----HHHHH
Confidence            999999888888899999999999999875444333 34444444  3789999999999874321   11    12233


Q ss_pred             hccccccccccccccCcceeEEeecC
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ....++.++++||++|.|+++++..+
T Consensus       144 ~~~~~~~~~~~Sa~~~~gi~~l~~~l  169 (221)
T 3gj0_A          144 HRKKNLQYYDISAKSNYNFEKPFLWL  169 (221)
T ss_dssp             HHHHTCEEEECBGGGTBTTTHHHHHH
T ss_pred             HHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            33446788999999999999866555

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.87  E-value=8.2e-23  Score=158.06  Aligned_cols=149  Identities=19%  Similarity=0.142  Sum_probs=96.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+++|++..+. ...++++    ......     .                +....+.+|||||
T Consensus        18 ~~~i~v~G~~~~GKssli~~l~~~~~~-~~~~t~~----~~~~~~-----~----------------~~~~~~~i~Dt~G   71 (183)
T 1moz_A           18 ELRILILGLDGAGKTTILYRLQIGEVV-TTKPTIG----FNVETL-----S----------------YKNLKLNVWDLGG   71 (183)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCCSEEE-EECSSTT----CCEEEE-----E----------------ETTEEEEEEEEC-
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCCcC-ccCCcCc----cceEEE-----E----------------ECCEEEEEEECCC
Confidence            456999999999999999999876551 1111111    110000     0                0001299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhh-
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ-  177 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~-  177 (259)
                      +..+...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+....   ..+++.+.+... 
T Consensus        72 ~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~i~~~~~~~~  148 (183)
T 1moz_A           72 QTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGAL---SASEVSKELNLVE  148 (183)
T ss_dssp             ---CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCC---CHHHHHHHTTTTT
T ss_pred             CHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCCC---CHHHHHHHhCccc
Confidence            998888888999999999999999887665543 34444432    568999999999987421   223333333221 


Q ss_pred             hccccccccccccccCcceeEEee
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      ....+++++++||++|.|+++++.
T Consensus       149 ~~~~~~~~~~~Sa~~~~gi~~l~~  172 (183)
T 1moz_A          149 LKDRSWSIVASSAIKGEGITEGLD  172 (183)
T ss_dssp             CCSSCEEEEEEBGGGTBTHHHHHH
T ss_pred             ccCCceEEEEccCCCCcCHHHHHH
Confidence            122356788999999999987544

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=99.87  E-value=6.6e-23  Score=159.08  Aligned_cols=157  Identities=15%  Similarity=0.143  Sum_probs=103.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|.+..+...+.+++....... ...     ....+                .+.+|||||
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~-~~~-----~~~~~----------------~~~i~Dt~G   64 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTAS-FEI-----DTQRI----------------ELSLWDTSG   64 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEE-EEC-----SSCEE----------------EEEEEEECC
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEE-EEE-----CCEEE----------------EEEEEECCC
Confidence            45699999999999999999998877554444443322110 000     00001                289999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHh--CCCCEEEEEecccccCcccc-------cchhhHHH
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKS--KKTPFVVALNKIDRLYNWNT-------MNRRDVRD  172 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~--~~~piivv~NK~D~~~~~~~-------~~~~~~~~  172 (259)
                      ++.|...+..+++.+|++++|+|+++..+....  .++..+..  .+.|+++|+||+|+......       .......+
T Consensus        65 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~  144 (184)
T 1m7b_A           65 SPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYD  144 (184)
T ss_dssp             SGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHH
T ss_pred             ChhhhhhHHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHH
Confidence            999988888899999999999999876554443  34455544  47899999999999742100       00001112


Q ss_pred             HHhhhhcccc-ccccccccc-cCcceeEEeec
Q psy6316         173 IIKSQESSVQ-THKTVESAR-KGQEICIKIEP  202 (259)
Q Consensus       173 ~~~~~~~~~~-~~~i~~Sa~-~g~gv~~~l~~  202 (259)
                      ....+....+ .+++++||+ +|.|+++++..
T Consensus       145 ~~~~~~~~~~~~~~~e~Sa~~~~~gi~~l~~~  176 (184)
T 1m7b_A          145 QGANMAKQIGAATYIECSALQSENSVRDIFHV  176 (184)
T ss_dssp             HHHHHHHHHTCSEEEECBTTTBHHHHHHHHHH
T ss_pred             HHHHHHHHcCCcEEEEeeecCCCcCHHHHHHH
Confidence            2333333334 578899999 68999875543

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=99.87  E-value=2e-22  Score=157.55  Aligned_cols=152  Identities=18%  Similarity=0.141  Sum_probs=97.0

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+++|++|+|||||+++|++..+...     ..+.+......     ...                ...+.+||||
T Consensus        28 ~~~ki~v~G~~~vGKSsLi~~l~~~~~~~~-----~~t~~~~~~~~-----~~~----------------~~~~~i~Dt~   81 (192)
T 2b6h_A           28 KQMRILMVGLDAAGKTTILYKLKLGEIVTT-----IPTIGFNVETV-----EYK----------------NICFTVWDVG   81 (192)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCSSCCEEE-----EEETTEEEEEE-----EET----------------TEEEEEEECC
T ss_pred             CccEEEEECCCCCCHHHHHHHHHhCCcccc-----CCcCceeEEEE-----EEC----------------CEEEEEEECC
Confidence            346699999999999999999987665311     11111110000     000                1129999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhh-
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS-  176 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~-  176 (259)
                      |++.+...+..+++.+|++++|+|+++..+.... .++..+..    .+.|+++|+||+|+....   ..+++...+.. 
T Consensus        82 G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~---~~~~i~~~~~~~  158 (192)
T 2b6h_A           82 GQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAM---PVSELTDKLGLQ  158 (192)
T ss_dssp             -----CTTHHHHHHTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC---CHHHHHHHTTGG
T ss_pred             CCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCCC---CHHHHHHHhCcc
Confidence            9999988888899999999999999886554443 34444433    378999999999996421   22333333221 


Q ss_pred             hhccccccccccccccCcceeEEeecC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .....+++++++||++|.|+++++..+
T Consensus       159 ~~~~~~~~~~~~SA~~g~gi~~l~~~l  185 (192)
T 2b6h_A          159 HLRSRTWYVQATCATQGTGLYDGLDWL  185 (192)
T ss_dssp             GCSSCCEEEEECBTTTTBTHHHHHHHH
T ss_pred             cccCCceEEEECcCCCcCCHHHHHHHH
Confidence            122335678899999999998865443

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=99.87  E-value=8.2e-23  Score=167.98  Aligned_cols=149  Identities=21%  Similarity=0.201  Sum_probs=99.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+|+|++.....+..++.       +......     .+.           . ...+.+|||||+
T Consensus         4 ~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~pg~-------tv~~~~~-----~~~-----------~-~~~l~l~DtpG~   59 (272)
T 3b1v_A            4 TEIALIGNPNSGKTSLFNLITGHNQRVGNWPGV-------TVERKSG-----LVK-----------K-NKDLEIQDLPGI   59 (272)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCCCCCCCSSSCC-------CCSCEEE-----ECT-----------T-CTTEEEEECCCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHCCCCcccCCCCC-------cEEEEEE-----EEe-----------c-CCeEEEEECCCc
Confidence            469999999999999999999876433222211       1111000     000           0 113999999998


Q ss_pred             cchH------HHHHhhcc--CCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         105 ESFS------NLRNRGSS--LCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       105 ~~~~------~~~~~~~~--~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      ..+.      .....++.  .+|++++|+|+++.  .....+..++.+.+.|+++|+||+|+......      ......
T Consensus        60 ~~~~~~~~~e~v~~~~~~~~~~d~vi~V~D~t~~--e~~~~~~~~l~~~~~p~ilv~NK~Dl~~~~~~------~~~~~~  131 (272)
T 3b1v_A           60 YSMSPYSPEAKVARDYLLSQRADSILNVVDATNL--ERNLYLTTQLIETGIPVTIALNMIDVLDGQGK------KINVDK  131 (272)
T ss_dssp             SCSSCSSHHHHHHHHHHHTTCCSEEEEEEEGGGH--HHHHHHHHHHHHTCSCEEEEEECHHHHHHTTC------CCCHHH
T ss_pred             CccCCCChHHHHHHHHHhcCCCCEEEEEecCCch--HhHHHHHHHHHhcCCCEEEEEEChhhCCcCCc------HHHHHH
Confidence            7764      34444553  69999999999872  33455667777789999999999998632111      111223


Q ss_pred             hhccccccccccccccCcceeEEeecCCC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      +...++++++++||++|.|+++++..+..
T Consensus       132 l~~~lg~~vi~~SA~~g~gi~el~~~i~~  160 (272)
T 3b1v_A          132 LSYHLGVPVVATSALKQTGVDQVVKKAAH  160 (272)
T ss_dssp             HHHHHTSCEEECBTTTTBSHHHHHHHHHH
T ss_pred             HHHHcCCCEEEEEccCCCCHHHHHHHHHH
Confidence            33344688999999999999997765543

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=99.87  E-value=5.7e-22  Score=159.11  Aligned_cols=156  Identities=19%  Similarity=0.179  Sum_probs=97.7

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +.++|+++|.+|+|||||+|+|++..+...       ....++.........                .....+.|||||
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~~~~~~-------~~~~~t~~~~~~~~~----------------~~~~~~~l~Dtp   84 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRANVDVQ-------SYSFTTKNLYVGHFD----------------HKLNKYQIIDTP   84 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTTCEEEE-------CC-----CEEEEEEE----------------ETTEEEEEEECT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCccC-------CCCCcceeeeeeeee----------------cCCCeEEEEECC
Confidence            346799999999999999999988765311       111111111110000                001129999999


Q ss_pred             CC------cch---HHHHHhhccCCCeEEEEEeCCCCCCH---HHHHHHHHHHhC--CCCEEEEEecccccCcccccchh
Q psy6316         103 GH------ESF---SNLRNRGSSLCDIAILVVDIMHGLEP---QTIESINILKSK--KTPFVVALNKIDRLYNWNTMNRR  168 (259)
Q Consensus       103 G~------~~~---~~~~~~~~~~ad~~i~v~d~~~~~~~---~~~~~l~~~~~~--~~piivv~NK~D~~~~~~~~~~~  168 (259)
                      |+      +..   ...+..++..+|++|+|+|+++..+.   ....++..+...  +.|+++|+||+|+......  ..
T Consensus        85 G~~~~~~~~~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~~~~piilv~nK~Dl~~~~~~--~~  162 (228)
T 2qu8_A           85 GLLDRAFENRNTIEMTTITALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVFSNKSIVIGFNKIDKCNMDSL--SI  162 (228)
T ss_dssp             TTTTSCGGGCCHHHHHHHHHHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC-CCCEEEEEECGGGCC--CC--CH
T ss_pred             CCcCcccchhhhHHHHHHHHhhccccEEEEEEecccccCcchHHHHHHHHHHHHhhcCCcEEEEEeCcccCCchhh--HH
Confidence            98      331   12233456889999999999886553   234566667665  8999999999999743211  11


Q ss_pred             hHHHHHhhhhcccc--ccccccccccCcceeEEeecC
Q psy6316         169 DVRDIIKSQESSVQ--THKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       169 ~~~~~~~~~~~~~~--~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .....++.+....+  ++++++||++|.|+++++..+
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l  199 (228)
T 2qu8_A          163 DNKLLIKQILDNVKNPIKFSSFSTLTGVGVEQAKITA  199 (228)
T ss_dssp             HHHHHHHHHHHHCCSCEEEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCceEEEEecccCCCHHHHHHHH
Confidence            22223444444444  688899999999998855443

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.86  E-value=2.8e-22  Score=171.55  Aligned_cols=140  Identities=18%  Similarity=0.182  Sum_probs=103.1

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      .|+  +|+++|++|+|||||+++|+..        +++.+.+.....                       .....++|||
T Consensus        20 ~m~--~i~iiG~~d~GKSTL~~~L~~~--------giTi~~~~~~~~-----------------------~~~~~i~iiD   66 (370)
T 2elf_A           20 HMA--NVAIIGTEKSGRTSLAANLGKK--------GTSSDITMYNND-----------------------KEGRNMVFVD   66 (370)
T ss_dssp             CEE--EEEEEESTTSSHHHHHHTTSEE--------EEESSSEEEEEC-----------------------SSSSEEEEEE
T ss_pred             cCC--EEEEECCCCCCHHHHHHHHHhC--------CEEEEeeEEEEe-----------------------cCCeEEEEEE
Confidence            354  7999999999999999999711        122222211111                       1111399999


Q ss_pred             CCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCE-EEEEe-cccccCcccccchhhHHHHHhhhh
Q psy6316         101 TPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPF-VVALN-KIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       101 tpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pi-ivv~N-K~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      ||||++|...+..+++.+|++|+|+| +.+...+..+++..+...++|. ++++| |+|+ ...   ..+...+.++.+.
T Consensus        67 tPGh~~f~~~~~~~~~~aD~ailVvd-~~g~~~qt~e~~~~~~~~~i~~~ivvvNNK~Dl-~~~---~~~~~~~~i~~~l  141 (370)
T 2elf_A           67 AHSYPKTLKSLITALNISDIAVLCIP-PQGLDAHTGECIIALDLLGFKHGIIALTRSDST-HMH---AIDELKAKLKVIT  141 (370)
T ss_dssp             CTTTTTCHHHHHHHHHTCSEEEEEEC-TTCCCHHHHHHHHHHHHTTCCEEEEEECCGGGS-CHH---HHHHHHHHHHHHT
T ss_pred             CCChHHHHHHHHHHHHHCCEEEEEEc-CCCCcHHHHHHHHHHHHcCCCeEEEEEEeccCC-CHH---HHHHHHHHHHHHH
Confidence            99999999999999999999999999 8888999999999999899998 99999 9998 421   1122334444444


Q ss_pred             ccc---cccccc--ccccc---CcceeE
Q psy6316         179 SSV---QTHKTV--ESARK---GQEICI  198 (259)
Q Consensus       179 ~~~---~~~~i~--~Sa~~---g~gv~~  198 (259)
                      ...   .+++++  +||++   |.|+++
T Consensus       142 ~~~~~~~~~ii~~~~SA~~~~~g~gi~~  169 (370)
T 2elf_A          142 SGTVLQDWECISLNTNKSAKNPFEGVDE  169 (370)
T ss_dssp             TTSTTTTCEEEECCCCTTSSSTTTTHHH
T ss_pred             HhcCCCceEEEecccccccCcCCCCHHH
Confidence            332   367889  99999   777755

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=99.86  E-value=1.1e-22  Score=160.87  Aligned_cols=157  Identities=16%  Similarity=0.147  Sum_probs=104.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+...+.+++...+.. .....     ...+                .+.||||||
T Consensus        28 ~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~-~~~~~-----~~~~----------------~l~i~Dt~G   85 (205)
T 1gwn_A           28 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEID-----TQRI----------------ELSLWDTSG   85 (205)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEE-EEESS-----SSEE----------------EEEEEEECC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEE-EEEEC-----CEEE----------------EEEEEeCCC
Confidence            4679999999999999999999988765544444332211 00000     0001                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHh--CCCCEEEEEecccccCcccc-------cchhhHHH
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKS--KKTPFVVALNKIDRLYNWNT-------MNRRDVRD  172 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~--~~~piivv~NK~D~~~~~~~-------~~~~~~~~  172 (259)
                      ++.|...+..+++.+|++|+|+|+++..+....  .++..+..  .+.|+++|+||+|+......       .......+
T Consensus        86 ~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~  165 (205)
T 1gwn_A           86 SPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYD  165 (205)
T ss_dssp             SGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHH
T ss_pred             cHhhhHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEechhhccchhhhhhhcccccCCCCHH
Confidence            999988888899999999999999876554443  34455554  47899999999999742100       00001112


Q ss_pred             HHhhhhcccc-ccccccccc-cCcceeEEeec
Q psy6316         173 IIKSQESSVQ-THKTVESAR-KGQEICIKIEP  202 (259)
Q Consensus       173 ~~~~~~~~~~-~~~i~~Sa~-~g~gv~~~l~~  202 (259)
                      ..+.+....+ +.++++||+ +|.|+++++..
T Consensus       166 ~~~~~~~~~~~~~~~e~SAk~~~~gv~~lf~~  197 (205)
T 1gwn_A          166 QGANMAKQIGAATYIECSALQSENSVRDIFHV  197 (205)
T ss_dssp             HHHHHHHHHTCSEEEECCTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCEEEEeeeccCCcCHHHHHHH
Confidence            2333333334 578899999 68899875543

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.86  E-value=5.4e-23  Score=159.82  Aligned_cols=152  Identities=20%  Similarity=0.189  Sum_probs=98.7

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      .|+..+|+++|++|||||||+++|++..+.....++.       +.......     +.           +....+.+||
T Consensus         4 ~~~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~-------t~~~~~~~-----~~-----------~~~~~~~l~D   60 (188)
T 2wjg_A            4 HMKSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGV-------TVEKKEGE-----FE-----------YNGEKFKVVD   60 (188)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTS-------CCEEEEEE-----EE-----------ETTEEEEEEE
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCe-------eccceEEE-----EE-----------eCCcEEEEEE
Confidence            4566789999999999999999998765421111111       11100000     00           0011299999


Q ss_pred             CCCCcchH------HHHHhhcc--CCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHH
Q psy6316         101 TPGHESFS------NLRNRGSS--LCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       101 tpG~~~~~------~~~~~~~~--~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      |||+..+.      ..+..++.  .+|++++|+|+++  ......++..+...+.|+++|+||+|+......      ..
T Consensus        61 t~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~--~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~------~~  132 (188)
T 2wjg_A           61 LPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATA--LERNLYLTLQLMEMGANLLLALNKMDLAKSLGI------EI  132 (188)
T ss_dssp             CCCCSCCSSSSHHHHHHHHHHHHHCCSEEEEEEEGGG--HHHHHHHHHHHHTTTCCEEEEEECHHHHHHTTC------CC
T ss_pred             CCCcCccccccHHHHHHHHHHhccCCCEEEEEecchh--HHHHHHHHHHHHhcCCCEEEEEEhhhccccccc------hH
Confidence            99987763      33444553  5999999999875  233455667777788999999999998632111      01


Q ss_pred             HHhhhhccccccccccccccCcceeEEeecC
Q psy6316         173 IIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       173 ~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+.+...++++++++||++|.|+++++..+
T Consensus       133 ~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i  163 (188)
T 2wjg_A          133 DVDKLEKILGVKVVPLSAAKKMGIEELKKAI  163 (188)
T ss_dssp             CHHHHHHHHTSCEEECBGGGTBSHHHHHHHH
T ss_pred             HHHHHHHHhCCCeEEEEecCCCCHHHHHHHH
Confidence            1233333445788999999999998866554

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.86  E-value=4.6e-24  Score=192.81  Aligned_cols=146  Identities=24%  Similarity=0.268  Sum_probs=92.8

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCC-------CHHHHHHHHHHHhCCCC-EEEEEecccccCcccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGL-------EPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMN  166 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~-------~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~  166 (259)
                      .++|||||||.+|...+..++..+|++|+|+|++++.       ..+..+++..+...++| +|+|+||+|+.. +....
T Consensus       256 ~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~lgip~iIvviNKiDl~~-~~~~~  334 (592)
T 3mca_A          256 IYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRALGISEIVVSVNKLDLMS-WSEDR  334 (592)
T ss_dssp             ---CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHSSCCCEEEEEECGGGGT-TCHHH
T ss_pred             EEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHHcCCCeEEEEEecccccc-ccHHH
Confidence            4999999999999988888999999999999998753       77888898888889987 899999999874 11222


Q ss_pred             hhhHHHHHhhhh-cccc-----ccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhh
Q psy6316         167 RRDVRDIIKSQE-SSVQ-----THKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDD  240 (259)
Q Consensus       167 ~~~~~~~~~~~~-~~~~-----~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~  240 (259)
                      ...+...+..+. ...+     ++++++||++|.|+.+....  ...+|+.+              ...++.+.+.. .+
T Consensus       335 ~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~e~~~~--~~~~w~~g--------------~~Lle~l~~~~-pp  397 (592)
T 3mca_A          335 FQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLIQKDSS--DLYKWYKG--------------PTLLSALDQLV-PP  397 (592)
T ss_dssp             HHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSCSCCCC--GGGGTCCS--------------CCHHHHHHTSC-CC
T ss_pred             HHHHHHHHHHHHHHhhCCCccceEEEEEecccCccccccccc--ccccccch--------------HHHHHHHHhhc-cc
Confidence            333444455444 3333     46889999999999763211  01222211              02333333322 25


Q ss_pred             cCchhhHHHHHHHHhhcc
Q psy6316         241 LQKTDWQLMVDLKKVFQI  258 (259)
Q Consensus       241 ~~~~~~~~~~~i~~~~~~  258 (259)
                      .+..+.+|+++|+++|++
T Consensus       398 ~~~~~~p~r~~v~~v~~~  415 (592)
T 3mca_A          398 EKPYRKPLRLSIDDVYRS  415 (592)
T ss_dssp             SCTTTSCCEEEEEEEEEE
T ss_pred             cccccccchheeeEEEec
Confidence            667788888998888864

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=99.86  E-value=8e-22  Score=156.50  Aligned_cols=114  Identities=26%  Similarity=0.298  Sum_probs=75.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+++|++..+...+.+ .......  ....          +.          ....+.+|||||
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~-~~~~~~~--~~~~----------~~----------~~~~~~i~Dt~G   63 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTS-ITDSSAI--YKVN----------NN----------RGNSLTLIDLPG   63 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHSCCCCBCCC-CSCEEEE--EECS----------ST----------TCCEEEEEECCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcccccCC-cceeeEE--EEec----------CC----------CccEEEEEECCC
Confidence            45699999999999999999998776433321 1111111  0000          00          011299999999


Q ss_pred             CcchHH-HHHhhccCCCeEEEEEeCCCCCC--HHHHHHHHH-HH-----hCCCCEEEEEecccccC
Q psy6316         104 HESFSN-LRNRGSSLCDIAILVVDIMHGLE--PQTIESINI-LK-----SKKTPFVVALNKIDRLY  160 (259)
Q Consensus       104 ~~~~~~-~~~~~~~~ad~~i~v~d~~~~~~--~~~~~~l~~-~~-----~~~~piivv~NK~D~~~  160 (259)
                      ++.+.. ++..+++.+|++++|+|+++...  .....++.. +.     ..+.|+++|+||+|+..
T Consensus        64 ~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  129 (214)
T 2fh5_B           64 HESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAM  129 (214)
T ss_dssp             CHHHHHHHHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTT
T ss_pred             ChhHHHHHHHHHHhhCCEEEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCC
Confidence            999988 77888999999999999976211  111222222 21     23689999999999974

>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=99.86  E-value=7.6e-22  Score=173.87  Aligned_cols=159  Identities=18%  Similarity=0.253  Sum_probs=110.5

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+++|.+|+|||||+|+|++....      .......++.........                .....+.|||||
T Consensus       194 ~~~ki~ivG~~~vGKSslin~l~~~~~~------~~~~~~gtt~~~~~~~~~----------------~~~~~~~l~DT~  251 (456)
T 4dcu_A          194 EVIQFCLIGRPNVGKSSLVNAMLGEERV------IVSNVAGTTRDAVDTSFT----------------YNQQEFVIVDTA  251 (456)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHTSTTE------EECC------CTTSEEEE----------------ETTEEEEETTGG
T ss_pred             ccceeEEecCCCCCHHHHHHHHhCCCcc------ccCCCCCeEEEEEEEEEE----------------ECCceEEEEECC
Confidence            3466999999999999999999876531      111111122211111000                011129999999


Q ss_pred             C----------CcchHHHHH-hhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHH
Q psy6316         103 G----------HESFSNLRN-RGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVR  171 (259)
Q Consensus       103 G----------~~~~~~~~~-~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~  171 (259)
                      |          ++.|..... .+++.+|++|+|+|++++...++..++..+.+.++|+++|+||+|+... .....++..
T Consensus       252 G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llviD~~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~-~~~~~~~~~  330 (456)
T 4dcu_A          252 GMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQDKRIAGYAHEAGKAVVIVVNKWDAVDK-DESTMKEFE  330 (456)
T ss_dssp             GTTTBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEEEEEECGGGSCC-CSSHHHHHH
T ss_pred             CCCcCcccchHHHHHHHHHHHHHHhhCCEEEEEEeCCCCcCHHHHHHHHHHHHcCCCEEEEEEChhcCCC-chHHHHHHH
Confidence            9          666766544 4778999999999999999999999999999999999999999999743 222334455


Q ss_pred             HHHhhhhccc-cccccccccccCcceeEEeecCC
Q psy6316         172 DIIKSQESSV-QTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       172 ~~~~~~~~~~-~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      +.++...... ..+++++||++|.|+++++..+.
T Consensus       331 ~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~i~  364 (456)
T 4dcu_A          331 ENIRDHFQFLDYAPILFMSALTKKRIHTLMPAII  364 (456)
T ss_dssp             HHHHHHCGGGTTSCEEECCTTTCTTGGGHHHHHH
T ss_pred             HHHHHhcccCCCCCEEEEcCCCCcCHHHHHHHHH
Confidence            5555544333 35788999999999998766553

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=99.86  E-value=4e-22  Score=156.28  Aligned_cols=160  Identities=14%  Similarity=0.143  Sum_probs=96.4

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      .+..+|+++|.+|+|||||++++.+.....   .+.+...  +......      .+.          ......+.+|||
T Consensus        18 ~~~~ki~~vG~~~vGKTsLi~~l~~~~~~~---~~~~~~~--~~~~~~~------~~~----------~~~~~~l~i~Dt   76 (196)
T 3llu_A           18 GSKPRILLMGLRRSGKSSIQKVVFHKMSPN---ETLFLES--TNKIYKD------DIS----------NSSFVNFQIWDF   76 (196)
T ss_dssp             --CCEEEEEESTTSSHHHHHHHHHSCCCGG---GGGGCCC--CCSCEEE------EEC----------CTTSCCEEEEEC
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhcCCCc---ceeeecc--ccceeee------ecc----------CCCeeEEEEEEC
Confidence            345669999999999999999887643211   1111111  0000000      000          001113999999


Q ss_pred             CCCcchHHHH---HhhccCCCeEEEEEeCCCCCCHHHHH---HHHHH--HhCCCCEEEEEecccccCccccc-chhhH-H
Q psy6316         102 PGHESFSNLR---NRGSSLCDIAILVVDIMHGLEPQTIE---SINIL--KSKKTPFVVALNKIDRLYNWNTM-NRRDV-R  171 (259)
Q Consensus       102 pG~~~~~~~~---~~~~~~ad~~i~v~d~~~~~~~~~~~---~l~~~--~~~~~piivv~NK~D~~~~~~~~-~~~~~-~  171 (259)
                      ||++.|....   ..+++.+|++|+|+|+++........   ++..+  ...+.|+++|+||+|+....... ....+ .
T Consensus        77 ~G~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~v~~  156 (196)
T 3llu_A           77 PGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNFEVFIHKVDGLSDDHKIETQRDIHQ  156 (196)
T ss_dssp             CSSCCTTCTTCCHHHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHHHHHHHHH
T ss_pred             CCCHHHHhhhhhcccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcCCCCcEEEEEeccccCchhhhhHHHhHHHH
Confidence            9999987766   78889999999999998862222222   23333  22478999999999987421100 01111 1


Q ss_pred             HHHhhhhc----cccccccccccccCcceeEEeecC
Q psy6316         172 DIIKSQES----SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       172 ~~~~~~~~----~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ...+.+..    ..++.++++||++ .|+++++..+
T Consensus       157 ~~~~~~~~~~~~~~~~~~~e~Sa~~-~~v~~~f~~l  191 (196)
T 3llu_A          157 RANDDLADAGLEKLHLSFYLTSIYD-HSIFEAFSKV  191 (196)
T ss_dssp             HHHHHHHHTTCTTSCEEEEEECTTS-THHHHHHHHH
T ss_pred             HHHHHHHHhhhhcCCcceEEEEech-hhHHHHHHHH
Confidence            12223333    4567889999999 9998765443

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.85  E-value=1.8e-21  Score=162.32  Aligned_cols=131  Identities=12%  Similarity=0.099  Sum_probs=89.7

Q ss_pred             CeEEEeCCCCc-------------chHHHHHhhccCCCeEE-EEEeCCCCCCHHHH-HHHHHHHhCCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHE-------------SFSNLRNRGSSLCDIAI-LVVDIMHGLEPQTI-ESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~-------------~~~~~~~~~~~~ad~~i-~v~d~~~~~~~~~~-~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      +++||||||+.             .+...+..+++.++.++ +|+|++.+....+. .++..+...+.|+++|+||+|+.
T Consensus       126 ~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~~~~~~~~~~~~~i~V~NK~Dl~  205 (299)
T 2aka_B          126 NLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQGQRTIGVITKLDLM  205 (299)
T ss_dssp             SEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCTTCSSEEEEEECGGGS
T ss_pred             CceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHHHHHHhCCCCCeEEEEEEccccC
Confidence            49999999953             35566777888888776 79999887666654 46777777789999999999997


Q ss_pred             CcccccchhhHHHHHhhhhcc--cc-ccccccccccCcceeEEeecCCCCCCcccccCC---cchh---hHHHHhhhhhH
Q psy6316         160 YNWNTMNRRDVRDIIKSQESS--VQ-THKTVESARKGQEICIKIEPIPGEAPKMFGRHF---DEND---FLVSKISRQSI  230 (259)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~~~--~~-~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~---~~~~---~~~~~~~~e~~  230 (259)
                      ....     .....++.....  .+ .+++++||++|.|+++++..+..+.++++....   .+.+   +.+.+++++++
T Consensus       206 ~~~~-----~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~l~~~l~~~l  280 (299)
T 2aka_B          206 DEGT-----DARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAERKFFLSHPSYRHLADRMGTPYLQKVLNQQL  280 (299)
T ss_dssp             CTTC-----CCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHHHHHHHHHCTTTGGGGGGCSHHHHHHHHHHHH
T ss_pred             CCCc-----hHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHHHHHHHhcCCccccchhhhCHHHHHHHHHHHH
Confidence            4321     112223221111  12 367789999999999988887766666554332   1233   66777777766

>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B

Probab=99.85  E-value=4.7e-22  Score=187.12  Aligned_cols=196  Identities=23%  Similarity=0.200  Sum_probs=128.7

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCC----------cceeeccccccCccccccccccccCCCCCCCCCCCC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAG----------GITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPL   91 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (259)
                      ....+|+++|++|+|||||+++|++.....+...          ......+.+... ...     .+           ..
T Consensus       294 k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdv-a~v-----~f-----------~~  356 (1289)
T 3avx_A          294 KPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINT-SHV-----EY-----------DT  356 (1289)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CC-SCE-----EE-----------EC
T ss_pred             CCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEE-EEE-----EE-----------cC
Confidence            3346799999999999999999986421100000          000001111000 000     00           01


Q ss_pred             CCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhH
Q psy6316          92 EIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDV  170 (259)
Q Consensus        92 ~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~  170 (259)
                      ....++|||||||++|...+..+++.+|++|+|+|++++...++.+++..+...++| +|+++||+|+.....  ..+.+
T Consensus       357 ~~~kI~IIDTPGHedF~~~mi~gas~AD~aILVVDAtdGv~~QTrEhL~ll~~lgIP~IIVVINKiDLv~d~e--~le~i  434 (1289)
T 3avx_A          357 PTRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNKCDMVDDEE--LLELV  434 (1289)
T ss_dssp             SSCEEEEEECCCHHHHHHHHHHTSCCCSEEEEEEETTTCSCTTHHHHHHHHHHHTCSCEEEEEECCTTCCCHH--HHHHH
T ss_pred             CCEEEEEEECCChHHHHHHHHHHHhhCCEEEEEEcCCccCcHHHHHHHHHHHHcCCCeEEEEEeecccccchh--hHHHH
Confidence            122499999999999999999999999999999999999888999999888888999 789999999974210  11222


Q ss_pred             HHHHhhhhccc-----cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHhhcCchh
Q psy6316         171 RDIIKSQESSV-----QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDLQKTD  245 (259)
Q Consensus       171 ~~~~~~~~~~~-----~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~~~~~~  245 (259)
                      ...+..+....     .++++++||++|.+-          .          . . +.+-+.+.++.+.++++.+.+..+
T Consensus       435 ~eEi~elLk~~G~~~~~vp~IpvSAktG~ng----------~----------~-~-w~eGI~eLleaL~~~Ip~P~r~~d  492 (1289)
T 3avx_A          435 EMEVRELLSQYDFPGDDTPIVRGSALKALEG----------D----------A-E-WEAKILELAGFLDSYIPEPERAID  492 (1289)
T ss_dssp             HHHHHHHHHHTTSCTTTCCEEECCSTTTTTC----------C----------H-H-HHHHHHHHHHHHHHTSCCCCCGGG
T ss_pred             HHHHHHHHHhccccccceeEEEEEeccCCCC----------C----------c-c-ccccchhhHhHHhhhcCCCccccc
Confidence            23333333332     357889999998430          0          0 0 112234666777776777888888


Q ss_pred             hHHHHHHHHhhcc
Q psy6316         246 WQLMVDLKKVFQI  258 (259)
Q Consensus       246 ~~~~~~i~~~~~~  258 (259)
                      .||+++|+++|++
T Consensus       493 ~Pfr~pId~Vf~i  505 (1289)
T 3avx_A          493 KPFLLPIEDVFSI  505 (1289)
T ss_dssp             SCCEEECCEEEEE
T ss_pred             cceeeeccccccc
Confidence            9999999998874

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.85  E-value=2e-21  Score=170.47  Aligned_cols=149  Identities=17%  Similarity=0.187  Sum_probs=97.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ++|+++|++|||||||+|+|++....      +..+...++........                .+....+.+|||||+
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~------~v~~~~g~T~d~~~~~~----------------~~~~~~~~l~DT~G~   59 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKA------IVEDEEGVTRDPVQDTV----------------EWYGKTFKLVDTCGV   59 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------------CCSEEEE----------------EETTEEEEEEECTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCc------eecCCCCCccceeeEEE----------------EECCeEEEEEECCCc
Confidence            57999999999999999999987642      11111111111111000                001112999999996


Q ss_pred             cc---------hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316         105 ES---------FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus       105 ~~---------~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      ..         +...+..+++.+|++++|+|++++.+..+..+...++..++|+++|+||+|+...       .......
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~ad~il~V~D~~~~~~~~d~~i~~~l~~~~~p~ilv~NK~D~~~~-------~~~~~~~  132 (439)
T 1mky_A           60 FDNPQDIISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRKSTVDTILVANKAENLRE-------FEREVKP  132 (439)
T ss_dssp             TSSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTTCCCHHHHHHHHHHHHHTCCEEEEEESCCSHHH-------HHHHTHH
T ss_pred             cccccchHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEeCCCCccc-------cHHHHHH
Confidence            53         3455667889999999999999988888777777777789999999999998521       0011102


Q ss_pred             hhhccccc-cccccccccCcceeEEeecC
Q psy6316         176 SQESSVQT-HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       176 ~~~~~~~~-~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ++. .+++ .++++||++|.|+++++..+
T Consensus       133 ~~~-~lg~~~~~~iSA~~g~gv~~L~~~i  160 (439)
T 1mky_A          133 ELY-SLGFGEPIPVSAEHNINLDTMLETI  160 (439)
T ss_dssp             HHG-GGSSCSCEECBTTTTBSHHHHHHHH
T ss_pred             HHH-hcCCCCEEEEeccCCCCHHHHHHHH
Confidence            222 2344 67899999999998876555

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=99.85  E-value=7.7e-22  Score=151.56  Aligned_cols=145  Identities=20%  Similarity=0.144  Sum_probs=92.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++|+|||||+|+|.+.....      ......++.........                +....+.+|||||+
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~~~~~------~~~~~~~t~~~~~~~~~----------------~~~~~~~l~Dt~G~   62 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGREAAI------VTDIAGTTRDVLREHIH----------------IDGMPLHIIDTAGL   62 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSC------CCSSTTCCCSCEEEEEE----------------ETTEEEEEEECCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCcce------eeCCCCceeceeeEEEE----------------ECCeEEEEEECCCc
Confidence            359999999999999999998765321      11111111111000000                00012899999997


Q ss_pred             cchH----HH----HHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHH
Q psy6316         105 ESFS----NL----RNRGSSLCDIAILVVDIMHGLEPQTIESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDI  173 (259)
Q Consensus       105 ~~~~----~~----~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~  173 (259)
                      ..+.    ..    ...+++.+|++++|+|+++..+.....++..+..   .++|+++|+||+|+....           
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~-----------  131 (172)
T 2gj8_A           63 REASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADITGET-----------  131 (172)
T ss_dssp             SCCSSHHHHHHHHHHHHHHHTCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECHHHHCCC-----------
T ss_pred             ccchhHHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHhcccCCCEEEEEECccCCcch-----------
Confidence            6421    11    1235789999999999988766656666655554   368999999999986321           


Q ss_pred             HhhhhccccccccccccccCcceeEEeecC
Q psy6316         174 IKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       174 ~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                       .......+.+++++||++|.|+++++..+
T Consensus       132 -~~~~~~~~~~~~~~SA~~g~gv~~l~~~l  160 (172)
T 2gj8_A          132 -LGMSEVNGHALIRLSARTGEGVDVLRNHL  160 (172)
T ss_dssp             -CEEEEETTEEEEECCTTTCTTHHHHHHHH
T ss_pred             -hhhhhccCCceEEEeCCCCCCHHHHHHHH
Confidence             01112235678899999999998866544

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=99.85  E-value=1.3e-21  Score=155.12  Aligned_cols=153  Identities=12%  Similarity=0.091  Sum_probs=95.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcccc--CCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNV--QDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ..+|+++|.+|||||||+|++++...  .... .+++.+.    .. .........+                .+.+|||
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~-~~~g~d~----~~-~~i~~~~~~~----------------~l~~~Dt   94 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDC-EVLGEDT----YE-RTLMVDGESA----------------TIILLDM   94 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCCCCTTCCC----CCTTE----EE-EEEEETTEEE----------------EEEEECC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCCCcC-Cccceee----EE-EEEEECCeee----------------EEEEeec
Confidence            45699999999999999999986443  1111 1111110    00 0000000001                1789999


Q ss_pred             CCCcc-hHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316         102 PGHES-FSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus       102 pG~~~-~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      +|++. +..+...+++.+|++++|+|+++..+..... ++..+..    .++|+++|+||+|+.... ....    ...+
T Consensus        95 ~g~~~~~~~l~~~~~~~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r-~v~~----~e~~  169 (211)
T 2g3y_A           95 WENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCR-EVSV----SEGR  169 (211)
T ss_dssp             TTTTHHHHHHHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGC-CSCH----HHHH
T ss_pred             CCCcchhhhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCc-eEeH----HHHH
Confidence            99876 4455566778999999999998755544433 4444443    368999999999996321 1111    1222


Q ss_pred             hhhccccccccccccccCcceeEEeecC
Q psy6316         176 SQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       176 ~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+...++++++++||++|.|+++++..+
T Consensus       170 ~~a~~~~~~~~e~SAk~g~~v~elf~~l  197 (211)
T 2g3y_A          170 ACAVVFDCKFIETSAAVQHNVKELFEGI  197 (211)
T ss_dssp             HHHHHHTCEEEECBTTTTBSHHHHHHHH
T ss_pred             HHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            3333446788999999999998866544

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.85  E-value=1e-21  Score=172.16  Aligned_cols=149  Identities=19%  Similarity=0.226  Sum_probs=97.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      .++|+++|++|+|||||+|+|++....      +..+...++.......     +           .+....+.+|||||
T Consensus         3 ~~~V~ivG~~nvGKStL~n~l~~~~~~------~v~~~~g~T~d~~~~~-----~-----------~~~~~~~~l~DT~G   60 (436)
T 2hjg_A            3 KPVVAIVGRPNVGKSTIFNRIAGERIS------IVEDTPGVTRDRIYSS-----A-----------EWLNYDFNLIDTGG   60 (436)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHEEEECC-----------------CEEEE-----C-----------TTCSSCCEEEC---
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCce------eecCCCCCccceEEEE-----E-----------EECCceEEEEECCC
Confidence            367999999999999999999887642      1111111111111000     0           11122399999999


Q ss_pred             Cc--------chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316         104 HE--------SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus       104 ~~--------~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      +.        .+...+..+++.+|++|+|+|++++.+..+..+...++..++|+++|+||+|+.....         ...
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~ad~il~vvD~~~~~~~~d~~~~~~l~~~~~pvilv~NK~D~~~~~~---------~~~  131 (436)
T 2hjg_A           61 IDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKILYRTKKPVVLAVNKLDNTEMRA---------NIY  131 (436)
T ss_dssp             ------CHHHHHHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHTTCCSCEEEEEECCCC--------------CCC
T ss_pred             CCCcchhHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECccCccchh---------hHH
Confidence            75        5666677788999999999999999998888888888888999999999999874210         111


Q ss_pred             hhhccccc-cccccccccCcceeEEeecCC
Q psy6316         176 SQESSVQT-HKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       176 ~~~~~~~~-~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ++. .+++ .++++||++|.|+.+++..+.
T Consensus       132 ~~~-~lg~~~~~~iSA~~g~gv~~L~~~i~  160 (436)
T 2hjg_A          132 DFY-SLGFGEPYPISGTHGLGLGDLLDAVA  160 (436)
T ss_dssp             SSG-GGSSCCCEECBTTTTBTHHHHHHHHH
T ss_pred             HHH-HcCCCCeEEEeCcCCCChHHHHHHHH
Confidence            122 2233 678999999999998766553

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=99.84  E-value=2e-21  Score=174.68  Aligned_cols=106  Identities=28%  Similarity=0.370  Sum_probs=85.1

Q ss_pred             eEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316          96 LLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus        96 ~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      ++|||||||.+|...+..+++.+|++|+|+|++++.+.++...+......++|+++++||+|+...    ..+...+.+.
T Consensus        75 inliDTPGh~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~~~ipiIvviNKiDl~~a----~~~~v~~el~  150 (600)
T 2ywe_A           75 LHLIDTPGHVDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVEQDLVIIPVINKIDLPSA----DVDRVKKQIE  150 (600)
T ss_dssp             EEEECCCCSGGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHHTTCEEEEEEECTTSTTC----CHHHHHHHHH
T ss_pred             EEEEECCCcHhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHCCCCEEEEEeccCcccc----CHHHHHHHHH
Confidence            899999999999999999999999999999999999999999888888899999999999999743    1223333333


Q ss_pred             hhhccccccccccccccCcceeEEeecCCC
Q psy6316         176 SQESSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       176 ~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      .........++++||++|.|+++++..+..
T Consensus       151 ~~lg~~~~~vi~vSAktg~GI~~Lle~I~~  180 (600)
T 2ywe_A          151 EVLGLDPEEAILASAKEGIGIEEILEAIVN  180 (600)
T ss_dssp             HTSCCCGGGCEECBTTTTBSHHHHHHHHHH
T ss_pred             HhhCCCcccEEEEEeecCCCchHHHHHHHH
Confidence            332221235789999999999887665543

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.84  E-value=5e-22  Score=177.04  Aligned_cols=66  Identities=33%  Similarity=0.594  Sum_probs=62.6

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      .++|||||||.+|...+..+++.+|++|+|+|++++...++..++..+...++|+++++||+|+..
T Consensus        83 ~i~liDTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~~~~~~~iPiivviNK~Dl~~  148 (528)
T 3tr5_A           83 LINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLMEVCRLRHTPIMTFINKMDRDT  148 (528)
T ss_dssp             EEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHHTTTCCEEEEEECTTSCC
T ss_pred             EEEEEECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEeCCCCcc
Confidence            399999999999999999999999999999999999999999999999999999999999999964

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.84  E-value=8.1e-21  Score=151.12  Aligned_cols=147  Identities=15%  Similarity=0.122  Sum_probs=87.6

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +.++|+++|++|+|||||+++|++..+..... ......+   ...                       ....+.+||||
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~-~~~~~~~---~~~-----------------------~~~~~~l~Dt~   63 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVV-SQEPLSA---ADY-----------------------DGSGVTLVDFP   63 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCCCBCC-CSSCEEE---TTG-----------------------GGSSCEEEECC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCeee-ecCceEE---EEe-----------------------eCceEEEEECC
Confidence            35679999999999999999999876532100 0000000   000                       01129999999


Q ss_pred             CCcchHHHHHhhccC----CCeEEEEEeCC-CCCCHH-HHHHHHHHH-------hCCCCEEEEEecccccCccccc-chh
Q psy6316         103 GHESFSNLRNRGSSL----CDIAILVVDIM-HGLEPQ-TIESINILK-------SKKTPFVVALNKIDRLYNWNTM-NRR  168 (259)
Q Consensus       103 G~~~~~~~~~~~~~~----ad~~i~v~d~~-~~~~~~-~~~~l~~~~-------~~~~piivv~NK~D~~~~~~~~-~~~  168 (259)
                      |++.+...+..++..    +|++++|+|++ +..+.. ...++..+.       ..+.|+++|+||+|+....... ..+
T Consensus        64 G~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~  143 (218)
T 1nrj_B           64 GHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKD  143 (218)
T ss_dssp             CCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHH
T ss_pred             CcHHHHHHHHHHHHhccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHHHHHH
Confidence            999998888888776    89999999998 433322 223333332       2479999999999997532111 111


Q ss_pred             hHHHHHhhhhccccccccccccccCcce
Q psy6316         169 DVRDIIKSQESSVQTHKTVESARKGQEI  196 (259)
Q Consensus       169 ~~~~~~~~~~~~~~~~~i~~Sa~~g~gv  196 (259)
                      .+...+..+....+..++++||++|.+-
T Consensus       144 ~l~~~~~~~~~~~~~~~~~~Sa~~~~~~  171 (218)
T 1nrj_B          144 ALESEIQKVIERRKKSLNEVERKINEED  171 (218)
T ss_dssp             HHHHHHHHHHHHHHHHHHC---------
T ss_pred             HHHHHHHHHHHHHhcccccccccccccc
Confidence            2233344444445678889999988764

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.84  E-value=1.6e-21  Score=169.03  Aligned_cols=150  Identities=25%  Similarity=0.281  Sum_probs=102.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+|+|++..+...     ....+.+ ............               ...+.||||||
T Consensus        34 ~~kI~IvG~~~vGKSTLin~L~~~~~~~~-----~~~~gtT-~d~~~~~~~~~~---------------~~~l~liDTpG   92 (423)
T 3qq5_A           34 RRYIVVAGRRNVGKSSFMNALVGQNVSIV-----SDYAGTT-TDPVYKSMELHP---------------IGPVTLVDTPG   92 (423)
T ss_dssp             CEEEEEECSCSTTTTTTTTSSCC-------------------CCCCEEEEEETT---------------TEEEEEEECSS
T ss_pred             CEEEEEECCCCCCHHHHHHHHHcCCCCcc-----CCCCCee-eeeEEEEEEECC---------------CCeEEEEECcC
Confidence            46799999999999999999988765211     1111111 111111000000               00299999999


Q ss_pred             CcchHHH-------HHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         104 HESFSNL-------RNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       104 ~~~~~~~-------~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      +.++...       +..++..+|++|+|+|+  +....+..++..+.+.++|+++|+||+|+......       +..+.
T Consensus        93 ~~d~~~l~~~~~~~~~~~l~~aD~vllVvD~--~~~~~~~~~l~~l~~~~~piIvV~NK~Dl~~~~~~-------~~~~~  163 (423)
T 3qq5_A           93 LDDVGELGRLRVEKARRVFYRADCGILVTDS--APTPYEDDVVNLFKEMEIPFVVVVNKIDVLGEKAE-------ELKGL  163 (423)
T ss_dssp             TTCCCTTCCCCHHHHHHHHTSCSEEEEECSS--SCCHHHHHHHHHHHHTTCCEEEECCCCTTTTCCCT-------HHHHH
T ss_pred             CCcccchhHHHHHHHHHHHhcCCEEEEEEeC--CChHHHHHHHHHHHhcCCCEEEEEeCcCCCCccHH-------HHHHH
Confidence            8766433       45577899999999998  56777888999999999999999999999753211       33455


Q ss_pred             hhccccccccccccccCcceeEEeecC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +...++++++++||++|.|+++++..+
T Consensus       164 l~~~~g~~v~~vSAktg~gI~eL~~~L  190 (423)
T 3qq5_A          164 YESRYEAKVLLVSALQKKGFDDIGKTI  190 (423)
T ss_dssp             SSCCTTCCCCCCSSCCTTSTTTHHHHH
T ss_pred             HHHHcCCCEEEEECCCCCCHHHHHHHH
Confidence            556667899999999999999866555

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.84  E-value=2.7e-21  Score=174.22  Aligned_cols=106  Identities=31%  Similarity=0.309  Sum_probs=85.0

Q ss_pred             eEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316          96 LLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus        96 ~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      ++|||||||.+|...+..+++.+|++|+|+|++++...++...+......++|+++++||+|+....    .+...+.+.
T Consensus        73 l~liDTPGh~dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~~~ipiIvViNKiDl~~a~----~~~v~~ei~  148 (599)
T 3cb4_D           73 LNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAMEMDLEVVPVLNKIDLPAAD----PERVAEEIE  148 (599)
T ss_dssp             EEEEECCCCGGGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHHTTCEEEEEEECTTSTTCC----HHHHHHHHH
T ss_pred             EEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEeeeccCccccc----HHHHHHHHH
Confidence            8999999999999999999999999999999999999999998888888899999999999997431    233333333


Q ss_pred             hhhccccccccccccccCcceeEEeecCCC
Q psy6316         176 SQESSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       176 ~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      .........++++||++|.|+++++..+..
T Consensus       149 ~~lg~~~~~vi~vSAktg~GI~~Ll~~I~~  178 (599)
T 3cb4_D          149 DIVGIDATDAVRCSAKTGVGVQDVLERLVR  178 (599)
T ss_dssp             HHTCCCCTTCEEECTTTCTTHHHHHHHHHH
T ss_pred             HHhCCCcceEEEeecccCCCchhHHHHHhh
Confidence            333222235889999999999887665543

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=99.84  E-value=2.6e-21  Score=170.47  Aligned_cols=149  Identities=21%  Similarity=0.278  Sum_probs=101.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|||||||+|+|++....      +..++..++..+........+                ..++||||||+
T Consensus       244 ~kV~ivG~pnvGKSSLln~L~~~~~a------~vs~~~gTT~d~~~~~i~~~g----------------~~~~l~DTaG~  301 (482)
T 1xzp_A          244 LRMVIVGKPNVGKSTLLNRLLNEDRA------IVTDIPGTTRDVISEEIVIRG----------------ILFRIVDTAGV  301 (482)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBC------CCCCSSCCSSCSCCEEEEETT----------------EEEEEEESSCC
T ss_pred             CEEEEECcCCCcHHHHHHHHHCCCCC------ccCCCCCeeeeeEEEEEecCC----------------eEEEEEECCCc
Confidence            46999999999999999999987542      222222222222111111111                12999999998


Q ss_pred             c-chH--------HHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316         105 E-SFS--------NLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus       105 ~-~~~--------~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      . .+.        .....+++.+|++|+|+|++++.+..+.+++..+  .++|+++|+||+|+...   ...+++    .
T Consensus       302 ~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~il~~l--~~~piivV~NK~DL~~~---~~~~~~----~  372 (482)
T 1xzp_A          302 RSETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKILERI--KNKRYLVVINKVDVVEK---INEEEI----K  372 (482)
T ss_dssp             CSSCCTTCCCCCHHHHHHHHHHCSEEEEEEETTSCCCHHHHHHHHHH--TTSSEEEEEEECSSCCC---CCHHHH----H
T ss_pred             cccchhhHHHHHHHHHHHHhhcccEEEEEecCCCCCCHHHHHHHHHh--cCCCEEEEEECcccccc---cCHHHH----H
Confidence            7 443        2345678899999999999988887777766555  47899999999999632   112222    2


Q ss_pred             hhhccccccccccccccCcceeEEeecCCC
Q psy6316         176 SQESSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       176 ~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      .... .+++++++||++|.|+++++..+..
T Consensus       373 ~~~~-~~~~~i~iSAktg~Gi~eL~~~l~~  401 (482)
T 1xzp_A          373 NKLG-TDRHMVKISALKGEGLEKLEESIYR  401 (482)
T ss_dssp             HHHT-CSTTEEEEEGGGTCCHHHHHHHHHH
T ss_pred             HHhc-CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            2221 2357889999999999998776654

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=99.84  E-value=2.2e-21  Score=170.84  Aligned_cols=149  Identities=17%  Similarity=0.103  Sum_probs=84.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+|+|++....      +......++...........+                ..+.||||||+
T Consensus       234 ~kV~ivG~~nvGKSSLln~L~~~~~a------~vs~~~gtT~d~~~~~i~~~g----------------~~l~liDT~G~  291 (476)
T 3gee_A          234 VSTVIAGKPNAGKSTLLNTLLGQERA------IVSHMPGTTRDYIEECFIHDK----------------TMFRLTDTAGL  291 (476)
T ss_dssp             EEEEEECCTTSSHHHHHHHCC------------------------CEEEEETT----------------EEEEEEC----
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCc------ccCCCCCceEEEEEEEEEECC----------------eEEEEEECCCC
Confidence            45999999999999999999877531      122222222221111111111                12999999998


Q ss_pred             cchHHHH--------HhhccCCCeEEEEEeCCCCCCH----HHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHH
Q psy6316         105 ESFSNLR--------NRGSSLCDIAILVVDIMHGLEP----QTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       105 ~~~~~~~--------~~~~~~ad~~i~v~d~~~~~~~----~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      .++...+        ..++..+|++++|+|++++.+.    ....++..+.  ++|+++|+||+|+.....   . . .+
T Consensus       292 ~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~--~~piIvV~NK~Dl~~~~~---~-~-~~  364 (476)
T 3gee_A          292 REAGEEIEHEGIRRSRMKMAEADLILYLLDLGTERLDDELTEIRELKAAHP--AAKFLTVANKLDRAANAD---A-L-IR  364 (476)
T ss_dssp             ----------------CCCSSCSEEEEEEETTTCSSGGGHHHHHHHHHHCT--TSEEEEEEECTTSCTTTH---H-H-HH
T ss_pred             CcchhHHHHHHHHHHHhhcccCCEEEEEEECCCCcchhhhHHHHHHHHhcC--CCCEEEEEECcCCCCccc---h-h-HH
Confidence            7655433        3367899999999999988776    4445555544  789999999999974321   1 1 11


Q ss_pred             HHhhhhccccccccccccccCcceeEEeecCCC
Q psy6316         173 IIKSQESSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       173 ~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      .+...   ...+++++||++|.|+++++..+..
T Consensus       365 ~l~~~---~~~~~i~vSAktg~GI~eL~~~i~~  394 (476)
T 3gee_A          365 AIADG---TGTEVIGISALNGDGIDTLKQHMGD  394 (476)
T ss_dssp             HHHHH---HTSCEEECBTTTTBSHHHHHHHHTH
T ss_pred             HHHhc---CCCceEEEEECCCCCHHHHHHHHHH
Confidence            12221   1257889999999999998776654

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.84  E-value=2.2e-21  Score=174.24  Aligned_cols=164  Identities=16%  Similarity=0.177  Sum_probs=101.5

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      .++..+|+++|.+|||||||+++|++..+.....++++..+.....+.  ....  .+.         .......+.+||
T Consensus        38 ~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~--~~~v--~~~---------~~~~~~~~~i~D  104 (535)
T 3dpu_A           38 HLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPN--IKGL--END---------DELKECLFHFWD  104 (535)
T ss_dssp             CCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGG--SGGG--TTC---------STTTTCEEEEEC
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEecccc--ccce--eec---------CCCceEEEEEEE
Confidence            455567999999999999999999988876554444443332111100  0000  000         001112399999


Q ss_pred             CCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhC--CCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         101 TPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSK--KTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       101 tpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~--~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      |||++.+......+++.+|++|+|+|+++.  .....++..+...  +.|+++|+||+|+....     ....+.++...
T Consensus       105 t~G~e~~~~~~~~~l~~~d~ii~V~D~s~~--~~~~~~~~~l~~~~~~~pvilV~NK~Dl~~~~-----~v~~~~~~~~~  177 (535)
T 3dpu_A          105 FGGQEIMHASHQFFMTRSSVYMLLLDSRTD--SNKHYWLRHIEKYGGKSPVIVVMNKIDENPSY-----NIEQKKINERF  177 (535)
T ss_dssp             CCSCCTTTTTCHHHHHSSEEEEEEECGGGG--GGHHHHHHHHHHHSSSCCEEEEECCTTTCTTC-----CCCHHHHHHHC
T ss_pred             CCcHHHHHHHHHHHccCCcEEEEEEeCCCc--hhHHHHHHHHHHhCCCCCEEEEEECCCccccc-----ccCHHHHHHHH
Confidence            999999988888888999999999999764  3445577777664  49999999999997421     11123345555


Q ss_pred             ccccccccccccccCcceeEEeecCC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ...+.+++++||++|.|+++++..+.
T Consensus       178 ~~~~~~~~~vSA~~g~gi~eL~~~l~  203 (535)
T 3dpu_A          178 PAIENRFHRISCKNGDGVESIAKSLK  203 (535)
T ss_dssp             GGGTTCEEECCC-----CTTHHHHHH
T ss_pred             HhcCCceEEEecCcccCHHHHHHHHH
Confidence            55667899999999999998766553

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.84  E-value=2.6e-21  Score=163.43  Aligned_cols=152  Identities=17%  Similarity=0.142  Sum_probs=98.1

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +..+|+|+|.+|+|||||+++|.+..+....     .+.+......     ...                ...+.|||||
T Consensus       164 ~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~~-----pT~~~~~~~~-----~~~----------------~~~l~i~Dt~  217 (329)
T 3o47_A          164 KEMRILMVGLDAAGKTTILYKLKLGEIVTTI-----PTIGFNVETV-----EYK----------------NISFTVWDVG  217 (329)
T ss_dssp             CSEEEEEEESTTSSHHHHHHHTCSSCCEEEE-----EETTEEEEEE-----EET----------------TEEEEEEECC
T ss_pred             CcceEEEECCCCccHHHHHHHHhCCCCCCcc-----cccceEEEEE-----ecC----------------cEEEEEEECC
Confidence            3457999999999999999999877653211     1111111100     001                1129999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHH-Hh---CCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINIL-KS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~-~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      |++.+...+..+++.+|++|+|+|+++..+..... ++..+ ..   .++|+++|+||+|+....   ..+++...+...
T Consensus       218 G~~~~~~~~~~~~~~ad~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~---~~~~i~~~~~~~  294 (329)
T 3o47_A          218 GQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM---NAAEITDKLGLH  294 (329)
T ss_dssp             -----CCSHHHHHTTEEEEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC---CHHHHHHHHTCT
T ss_pred             CCHhHHHHHHHHhccCCEEEEEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCccc---CHHHHHHHhchh
Confidence            99999999999999999999999998876655433 33333 32   378999999999997432   223333333222


Q ss_pred             -hccccccccccccccCcceeEEeecC
Q psy6316         178 -ESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       178 -~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                       ....+++++++||++|.|+++++..+
T Consensus       295 ~~~~~~~~~~~vSAk~g~gi~el~~~l  321 (329)
T 3o47_A          295 SLRHRNWYIQATCATSGDGLYEGLDWL  321 (329)
T ss_dssp             TCCSSCEEEEECBTTTTBTHHHHHHHH
T ss_pred             hhhcCCCEEEEEECCCCcCHHHHHHHH
Confidence             23345678899999999998865544

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.83  E-value=3.1e-21  Score=169.97  Aligned_cols=155  Identities=19%  Similarity=0.211  Sum_probs=101.5

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEE
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLII   99 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li   99 (259)
                      ..|+.++|+++|++|+|||||+|+|++..+..     .....+.+.... ...     +           ......+.+|
T Consensus        19 ~~m~~~~V~lvG~~nvGKSTL~n~l~~~~~~~-----v~~~~g~t~~~~-~~~-----~-----------~~~~~~~~li   76 (456)
T 4dcu_A           19 SHMGKPVVAIVGRPNVGKSTIFNRIAGERISI-----VEDTPGVTRDRI-YSS-----A-----------EWLNYDFNLI   76 (456)
T ss_dssp             ----CCEEEEECSSSSSHHHHHHHHEEEEEC----------------CE-EEE-----C-----------TTCSSCCEEE
T ss_pred             hhcCCCEEEEECCCCCcHHHHHHHHhCCCCcc-----cCCCCCcceeEE-EEE-----E-----------EECCceEEEE
Confidence            45778899999999999999999998876521     111111111110 000     0           1111239999


Q ss_pred             eCCC--------CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHH
Q psy6316         100 DTPG--------HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVR  171 (259)
Q Consensus       100 DtpG--------~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~  171 (259)
                      ||||        ++.+...+..+++.+|++|+|+|+.++.+..+..++..++..++|+++|+||+|+....         
T Consensus        77 DT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~VvD~~~~~~~~d~~l~~~l~~~~~pvilV~NK~D~~~~~---------  147 (456)
T 4dcu_A           77 DTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKILYRTKKPVVLAVNKLDNTEMR---------  147 (456)
T ss_dssp             CCCC------CCHHHHHHHHHHHHHHCSEEEEEEESSSCSCHHHHHHHHHHTTCCSCEEEEEECC---------------
T ss_pred             ECCCCCCcchHHHHHHHHHHHhhHhhCCEEEEEEeCCCCCChHHHHHHHHHHHcCCCEEEEEECccchhhh---------
Confidence            9999        56677777888899999999999999999989888899988999999999999986321         


Q ss_pred             HHHhhhhccccccccccccccCcceeEEeecCCC
Q psy6316         172 DIIKSQESSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       172 ~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      ....++.......++++||++|.|+.+++..+..
T Consensus       148 ~~~~e~~~lg~~~~~~iSA~~g~gv~~L~~~i~~  181 (456)
T 4dcu_A          148 ANIYDFYSLGFGEPYPISGTHGLGLGDLLDAVAE  181 (456)
T ss_dssp             ---CCSGGGSSSSEEECCTTTCTTHHHHHHHHHT
T ss_pred             hhHHHHHHcCCCceEEeecccccchHHHHHHHHh
Confidence            1111222211224578999999999987766544

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.83  E-value=1.2e-20  Score=155.51  Aligned_cols=163  Identities=19%  Similarity=0.235  Sum_probs=88.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+|+|++........+....... .+.........   +. .++        ....++||||||+
T Consensus         9 ~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~-~t~~~~~~~~~---~~-~~~--------~~~~l~liDTpG~   75 (274)
T 3t5d_A            9 FTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIK-KTVQVEQSKVL---IK-EGG--------VQLLLTIVDTPGF   75 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHSSSCC----------------CCCEEEEEE---EC-C----------CCEEEEEEECCCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccC-CceEEEEEEEE---Ee-cCC--------eEEEEEEEECCCc
Confidence            45999999999999999999877654322110000000 00101000000   00 000        0002999999996


Q ss_pred             c-------chHHHH-------Hhhcc-------------CCCeEEEEEeCCC-CCCHHHHHHHHHHHhCCCCEEEEEecc
Q psy6316         105 E-------SFSNLR-------NRGSS-------------LCDIAILVVDIMH-GLEPQTIESINILKSKKTPFVVALNKI  156 (259)
Q Consensus       105 ~-------~~~~~~-------~~~~~-------------~ad~~i~v~d~~~-~~~~~~~~~l~~~~~~~~piivv~NK~  156 (259)
                      .       .+....       ..++.             .+|+++++++.+. +....+..++..+.. ++|+++|+||+
T Consensus        76 ~d~~~~~~~~~~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~-~~pvi~V~nK~  154 (274)
T 3t5d_A           76 GDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE-KVNIIPLIAKA  154 (274)
T ss_dssp             SCCSCCTTTTHHHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT-TSCEEEEESSG
T ss_pred             cccccchhhHHHHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc-cCCEEEEEecc
Confidence            3       233332       22222             3789999997765 678888888888887 89999999999


Q ss_pred             cccCcccccchhhHHHHHhhhhccccccccccccccCcceeEEeecCC
Q psy6316         157 DRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       157 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      |+....   ........+.......+++++.+||+++.|+++++..+.
T Consensus       155 D~~~~~---e~~~~~~~i~~~l~~~~i~v~~~sa~~~~~~~~l~~~l~  199 (274)
T 3t5d_A          155 DTLTPE---ECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIK  199 (274)
T ss_dssp             GGSCHH---HHHHHHHHHHHHHHHTTCCCCCC-----------CHHHH
T ss_pred             CCCCHH---HHHHHHHHHHHHHHHcCCeEEcCCCCCChhHHHHHHHHh
Confidence            987321   223333444444445578888999999999998765553

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=99.83  E-value=7.6e-21  Score=147.70  Aligned_cols=148  Identities=26%  Similarity=0.308  Sum_probs=88.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC-
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG-  103 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG-  103 (259)
                      .+|+++|.+|+|||||+++|++..+.....++.+       .......                    ...+.+||||| 
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t-------~~~~~~~--------------------~~~~~l~Dt~G~   54 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVT-------RKIIEIE--------------------WKNHKIIDMPGF   54 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCT-------TSCEEEE--------------------ETTEEEEECCCB
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCcc-------ceeEEEe--------------------cCCEEEEECCCc
Confidence            3699999999999999999998876543322111       1111000                    00299999999 


Q ss_pred             ----------CcchHHHHHhhcc----CCCeEEEEEeCCCCC-----------CHHHHHHHHHHHhCCCCEEEEEecccc
Q psy6316         104 ----------HESFSNLRNRGSS----LCDIAILVVDIMHGL-----------EPQTIESINILKSKKTPFVVALNKIDR  158 (259)
Q Consensus       104 ----------~~~~~~~~~~~~~----~ad~~i~v~d~~~~~-----------~~~~~~~l~~~~~~~~piivv~NK~D~  158 (259)
                                ++.+...+..++.    .++++++|+|+.+..           ...+.+.+..+...+.|+++|+||+|+
T Consensus        55 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl  134 (190)
T 2cxx_A           55 GFMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDK  134 (190)
T ss_dssp             SCCTTSCHHHHHHHHHHHHHHHHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGG
T ss_pred             cccccCCHHHHHHHHHHHHHHHHhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhc
Confidence                      4556666555544    466777777764310           111223445555678999999999999


Q ss_pred             cCcccccchhhHHHHHhhhhcc---ccccccccccccCcceeEEeecC
Q psy6316         159 LYNWNTMNRRDVRDIIKSQESS---VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~~~---~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ....    .+........+...   +...++++||++|.|+++++..+
T Consensus       135 ~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l  178 (190)
T 2cxx_A          135 IKNV----QEVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRI  178 (190)
T ss_dssp             CSCH----HHHHHHHHHHHTCCGGGHHHHEEECCTTTCTTHHHHHHHH
T ss_pred             cCcH----HHHHHHHHHHhhhhhhccCCcEEEEecCCCCCHHHHHHHH
Confidence            7431    11122211111111   12246899999999998755443

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=99.82  E-value=5.4e-21  Score=167.75  Aligned_cols=147  Identities=19%  Similarity=0.230  Sum_probs=91.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++|+|||||+|+|++....      +......++...........+                ..+.||||||+
T Consensus       225 ~kV~ivG~~nvGKSSLln~L~~~~~a------~v~~~~gtT~d~~~~~i~~~g----------------~~v~liDT~G~  282 (462)
T 3geh_A          225 LKVAIVGRPNVGKSSLLNAWSQSDRA------IVTDLPGTTRDVVESQLVVGG----------------IPVQVLDTAGI  282 (462)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHBS------CCSCCTTCCHHHHHHEEEETT----------------EEEEECC----
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCCCcc------cccCCCCeeEEEEEEEEEECC----------------EEEEEEECCcc
Confidence            45999999999999999999887542      111111122111111000011                12999999997


Q ss_pred             cchHHHH--------HhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         105 ESFSNLR--------NRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       105 ~~~~~~~--------~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      .++...+        ..++..+|++++|+|++++.+..+..++..+..  .|+++|+||+|+......   .    .++.
T Consensus       283 ~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~~~~~~~i~~~l~~--~piivV~NK~Dl~~~~~~---~----~~~~  353 (462)
T 3geh_A          283 RETSDQVEKIGVERSRQAANTADLVLLTIDAATGWTTGDQEIYEQVKH--RPLILVMNKIDLVEKQLI---T----SLEY  353 (462)
T ss_dssp             ----------------CCCCSCSEEEEEEETTTCSCHHHHHHHHHHTT--SCEEEEEECTTSSCGGGS---T----TCCC
T ss_pred             ccchhHHHHHHHHHHhhhhhcCCEEEEEeccCCCCCHHHHHHHHhccC--CcEEEEEECCCCCcchhh---H----HHHH
Confidence            6554332        235788999999999999888888777776654  799999999999743211   0    1111


Q ss_pred             hhccccccccccccccCcceeEEeecCC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      +.  ...+++++||++|.|+++++..+.
T Consensus       354 ~~--~~~~~i~iSAktg~Gi~eL~~~i~  379 (462)
T 3geh_A          354 PE--NITQIVHTAAAQKQGIDSLETAIL  379 (462)
T ss_dssp             CT--TCCCEEEEBTTTTBSHHHHHHHHH
T ss_pred             hc--cCCcEEEEECCCCCCHHHHHHHHH
Confidence            11  245788999999999998766653

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=99.82  E-value=5.7e-21  Score=148.21  Aligned_cols=156  Identities=15%  Similarity=0.142  Sum_probs=93.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc--cCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN--VQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      .+|+++|++|||||||+++|++..  +...+.++++.++..........  ..                ....+.+||||
T Consensus         3 ~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~--~~----------------~~~~~~i~Dt~   64 (184)
T 2zej_A            3 MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDK--RK----------------RDLVLNVWDFA   64 (184)
T ss_dssp             CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------------------------CEEEEEEEC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccC--CC----------------CceEEEEEecC
Confidence            359999999999999999998752  22222222222221111100000  00                01128999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCC-CHHH-HHHHHHHHh--CCCCEEEEEecccccCcccccchh-hHHHHHhhh
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGL-EPQT-IESINILKS--KKTPFVVALNKIDRLYNWNTMNRR-DVRDIIKSQ  177 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~-~~~~-~~~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~-~~~~~~~~~  177 (259)
                      |++.|...+..+++.+|++++|+|.+++. +... ..++..+..  .+.|+++|+||+|+....   ... ......+.+
T Consensus        65 G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~s~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~  141 (184)
T 2zej_A           65 GREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASSSPVILVGTHLDVSDEK---QRKACMSKITKEL  141 (184)
T ss_dssp             SHHHHHTTSHHHHHHSEEEEEEEEGGGCHHHHHTHHHHHHHHHHHCTTCEEEEEEECGGGCCHH---HHHHHHHHHHHHT
T ss_pred             CCHHHHHhhHHHccCCcEEEEEEeCCcchhHHHHHHHHHHHHHhhCCCCcEEEEEECCCcccch---hhHHHHHHHHHHH
Confidence            99888887778889999999999998753 2222 234454443  378999999999986321   010 112223444


Q ss_pred             hcccccc----ccccccccCc-ceeEEee
Q psy6316         178 ESSVQTH----KTVESARKGQ-EICIKIE  201 (259)
Q Consensus       178 ~~~~~~~----~i~~Sa~~g~-gv~~~l~  201 (259)
                      ....+++    ++++||++|. |++.++.
T Consensus       142 ~~~~~~~~~~~~~~~Sa~~~~~~~~~l~~  170 (184)
T 2zej_A          142 LNKRGFPAIRDYHFVNATEESDALAKLRK  170 (184)
T ss_dssp             TTCTTSCEEEEEEECCTTSCCHHHHHHHH
T ss_pred             HHhcCCcchhheEEEecccCchhHHHHHH
Confidence            4445555    7889999996 7766443

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=99.82  E-value=6.4e-21  Score=161.03  Aligned_cols=156  Identities=17%  Similarity=0.155  Sum_probs=103.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||++++++..+...+.++........ .....     ..+                .+.||||||+
T Consensus       156 ~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~~~~-~~~~~-----~~~----------------~~~l~Dt~G~  213 (332)
T 2wkq_A          156 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSAN-VMVDG-----KPV----------------NLGLWDTAGL  213 (332)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEEEEE-EEETT-----EEE----------------EEEEEEECCC
T ss_pred             eEEEEECCCCCChHHHHHHHHhCCCCcccCCcccceeEEE-EEECC-----EEE----------------EEEEEeCCCc
Confidence            5699999999999999999998876554444433222111 00000     000                1779999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHH--HHHHHHHhC--CCCEEEEEecccccCcccccc-------hhhHHHH
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI--ESINILKSK--KTPFVVALNKIDRLYNWNTMN-------RRDVRDI  173 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~--~~l~~~~~~--~~piivv~NK~D~~~~~~~~~-------~~~~~~~  173 (259)
                      +.+...+..+++.+|++++|+|+++..+..+.  .++..+...  ++|+++|+||+|+........       .......
T Consensus       214 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~  293 (332)
T 2wkq_A          214 EDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQ  293 (332)
T ss_dssp             GGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHH
T ss_pred             hhhhHHHHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhCCCCcEEEEEEchhcccccchhhhccccccccccHHH
Confidence            99998888999999999999999886555444  344555543  789999999999864210000       0011122


Q ss_pred             Hhhhhccccc-cccccccccCcceeEEeec
Q psy6316         174 IKSQESSVQT-HKTVESARKGQEICIKIEP  202 (259)
Q Consensus       174 ~~~~~~~~~~-~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ...+....+. +++++||++|.|+++++..
T Consensus       294 ~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  323 (332)
T 2wkq_A          294 GLAMAKEIGAVKYLECSALTQRGLKTVFDE  323 (332)
T ss_dssp             HHHHHHHTTCSEEEECCTTTCTTHHHHHHH
T ss_pred             HHHHHHHcCCcEEEEecCCCCcCHHHHHHH
Confidence            2333333454 7889999999999875543

>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=99.81  E-value=3.5e-20  Score=162.53  Aligned_cols=158  Identities=17%  Similarity=0.216  Sum_probs=100.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|||||||+|+|++....      +......++..+......                +....+.+|||||
T Consensus       180 ~~kvaivG~~gvGKSTLln~l~g~~~~------~v~~~~gtT~d~~~~~i~----------------~~g~~~~l~Dt~G  237 (439)
T 1mky_A          180 AIKVAIVGRPNVGKSTLFNAILNKERA------LVSPIPGTTRDPVDDEVF----------------IDGRKYVFVDTAG  237 (439)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTSTTE------EECCCC------CCEEEE----------------ETTEEEEESSCSC
T ss_pred             CceEEEECCCCCCHHHHHHHHhCCccc------ccCCCCCCcCCceEEEEE----------------ECCEEEEEEECCC
Confidence            456999999999999999999987642      122222222211111000                0111289999999


Q ss_pred             CcchHHH------------HHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHH
Q psy6316         104 HESFSNL------------RNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVR  171 (259)
Q Consensus       104 ~~~~~~~------------~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~  171 (259)
                      +......            ...++..+|++++|+|++.+.+.++......+...+.|+++|+||+|+.... ....++..
T Consensus       238 ~~~~~~~~~~~~e~~~~~~~~~~i~~ad~vllv~d~~~~~~~~~~~i~~~l~~~~~~~ilv~NK~Dl~~~~-~~~~~~~~  316 (439)
T 1mky_A          238 LRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQRMAGLMERRGRASVVVFNKWDLVVHR-EKRYDEFT  316 (439)
T ss_dssp             C-----------CCSCCHHHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEEEEEECGGGSTTG-GGCHHHHH
T ss_pred             CccccccchhhHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECccCCCch-hhHHHHHH
Confidence            7443322            1245678999999999999888888777777888899999999999997421 11122233


Q ss_pred             HHHhh-hhccccccccccccccCcceeEEeecCC
Q psy6316         172 DIIKS-QESSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       172 ~~~~~-~~~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ..+.+ +......+++++||++|.|+++++..+.
T Consensus       317 ~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~i~  350 (439)
T 1mky_A          317 KLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMN  350 (439)
T ss_dssp             HHHHHHCGGGTTSCEEECBTTTTBSHHHHHHHHH
T ss_pred             HHHHHHhccCCCCcEEEEECCCCCCHHHHHHHHH
Confidence            33322 2222345778999999999998766553

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=99.81  E-value=3.3e-20  Score=151.72  Aligned_cols=158  Identities=14%  Similarity=0.152  Sum_probs=95.4

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      .+..+|+|+|++|||||||+|+|++...........+     ++........                .....++.||||
T Consensus        20 ~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~-----~t~~~~~~~~----------------~~~~~~i~iiDT   78 (260)
T 2xtp_A           20 RSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQT-----LTKTCSKSQG----------------SWGNREIVIIDT   78 (260)
T ss_dssp             -CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCC-----CCCSCEEEEE----------------EETTEEEEEEEC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCc-----eeeeeEEEEE----------------EeCCCEEEEEEC
Confidence            3456799999999999999999998763221110000     1111100000                001113999999


Q ss_pred             CCCcch-----------HHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhC-----CCCEEEEEe-cccccCcccc
Q psy6316         102 PGHESF-----------SNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSK-----KTPFVVALN-KIDRLYNWNT  164 (259)
Q Consensus       102 pG~~~~-----------~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~-----~~piivv~N-K~D~~~~~~~  164 (259)
                      ||+.++           ......+++.+|++|+|+|++. ....+...+..+.+.     ..|.++++| |+|+....  
T Consensus        79 pG~~~~~~~~~~~~~~i~~~~~~~~~~~d~il~V~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~i~vv~nK~Dl~~~~--  155 (260)
T 2xtp_A           79 PDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGR-YTSQDQQAAQRVKEIFGEDAMGHTIVLFTHKEDLNGGS--  155 (260)
T ss_dssp             CGGGGSSCCCHHHHHHHHHHHHHHTTCCSEEEEEEETTC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECGGGGTTCC--
T ss_pred             cCCCCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEEeCCC-CCHHHHHHHHHHHHHhCchhhccEEEEEEcccccCCcc--
Confidence            996543           2223346789999999999985 666666666666554     578888887 99997321  


Q ss_pred             cch-------hhHHHHHhhhhcccc-ccccccccccCcceeEEeecC
Q psy6316         165 MNR-------RDVRDIIKSQESSVQ-THKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       165 ~~~-------~~~~~~~~~~~~~~~-~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ...       ..+...+..+...+. +..+++||++|.|+++++..+
T Consensus       156 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gv~~l~~~i  202 (260)
T 2xtp_A          156 LMDYMHDSDNKALSKLVAACGGRICAFNNRAEGSNQDDQVKELMDCI  202 (260)
T ss_dssp             HHHHHHHCCCHHHHHHHHHTTTCEEECCTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcchHHHHHHHHHhCCeEEEecCcccccccHHHHHHHHHHH
Confidence            000       112223333332221 334889999999999876655

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=99.81  E-value=7.6e-21  Score=148.59  Aligned_cols=153  Identities=12%  Similarity=0.101  Sum_probs=91.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcccc--CCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNV--QDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ..+|+++|.+|||||||+|+|++...  .... .+++.    .... .........+                .+.+|||
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~-~~~~~----~~~~-~~~~~~~~~~----------------~l~~~Dt   63 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDX-EVLGE----DTYE-RTLMVDGESA----------------TIILLDM   63 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHSCCC-----GGGCT----TEEE-EEEEETTEEE----------------EEEEECC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCcCCcCccc-cccce----eEEE-EEEEECCeEE----------------EEEEEEe
Confidence            35699999999999999999986432  1111 11111    1000 0000000000                1789999


Q ss_pred             CCCcc-hHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316         102 PGHES-FSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus       102 pG~~~-~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      +|+.. +..+...+++.+|++++|+|+++..+..... ++..+..    .+.|+++|+||+|+.... ....    ....
T Consensus        64 ~~~~~~~~~~~~~~~~~~~~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r-~v~~----~~~~  138 (192)
T 2cjw_A           64 WENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXR-EVSV----SEGR  138 (192)
T ss_dssp             CCC----CTTGGGHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGC-CSCH----HHHH
T ss_pred             ccCcchhhhHHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccc-cccH----HHHH
Confidence            99765 3334455678899999999998765544433 3333432    368999999999986321 1111    1122


Q ss_pred             hhhccccccccccccccCcceeEEeecC
Q psy6316         176 SQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       176 ~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+....+++++++||++|.|+++++..+
T Consensus       139 ~~a~~~~~~~~e~SA~~g~~v~~lf~~l  166 (192)
T 2cjw_A          139 AXAVVFDXKFIETSAAVQHNVKELFEGI  166 (192)
T ss_dssp             HHHHHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             HHHHHhCCceEEeccccCCCHHHHHHHH
Confidence            2333345678899999999998866544

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.81  E-value=2.4e-20  Score=156.12  Aligned_cols=149  Identities=14%  Similarity=0.134  Sum_probs=97.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCC---CCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQD---GEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      .+|+++|.+|+|||||+++|++.....   ....++....+....        ....                .+.+|||
T Consensus         4 ~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~~~~--------~~~~----------------~l~i~Dt   59 (307)
T 3r7w_A            4 SKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSHLRF--------LGNM----------------TLNLWDC   59 (307)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEEEEE--------TTTE----------------EEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEEEEEe--------CCce----------------EEEEEEC
Confidence            459999999999999999998763210   111122211111000        0011                2999999


Q ss_pred             CCCcch-----HHHHHhhccCCCeEEEEEeCCCCCCHHHHH-H---HHHHHh--CCCCEEEEEecccccCcccccchh--
Q psy6316         102 PGHESF-----SNLRNRGSSLCDIAILVVDIMHGLEPQTIE-S---INILKS--KKTPFVVALNKIDRLYNWNTMNRR--  168 (259)
Q Consensus       102 pG~~~~-----~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~---l~~~~~--~~~piivv~NK~D~~~~~~~~~~~--  168 (259)
                      ||++.+     ...+..+++.+|++|+|+|+++..+..+.. +   +..+..  .++|+++|+||+|+....   .+.  
T Consensus        60 ~G~~~~~~~~~~~~~~~~~~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~~---~r~~~  136 (307)
T 3r7w_A           60 GGQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLD---KREEL  136 (307)
T ss_dssp             CCSHHHHHHHHTTTHHHHHTTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHH---HHHHH
T ss_pred             CCcHHHhhhhhhhHHHHHhccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccchh---hhhHH
Confidence            999888     556677789999999999999877666553 2   233332  379999999999997421   122  


Q ss_pred             --hHHHHHhhhhcccc---ccccccccccCcceeEEee
Q psy6316         169 --DVRDIIKSQESSVQ---THKTVESARKGQEICIKIE  201 (259)
Q Consensus       169 --~~~~~~~~~~~~~~---~~~i~~Sa~~g~gv~~~l~  201 (259)
                        .....++++...++   ++++++||++ .|+.+.+.
T Consensus       137 ~~v~~~~~~~~~~~~g~~~~~~~~tSa~~-~~i~e~~~  173 (307)
T 3r7w_A          137 FQIMMKNLSETSSEFGFPNLIGFPTSIWD-ESLYKAWS  173 (307)
T ss_dssp             HHHHHHHHHHHHHTTTCCSCEEEECCTTS-SHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCCeEEEEeeecC-ChHHHHHH
Confidence              33345556666654   6788999999 66655443

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.81  E-value=2.1e-20  Score=167.41  Aligned_cols=116  Identities=28%  Similarity=0.405  Sum_probs=88.8

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcccc--------C--------------CCCCCcceeeccccccCccccccccccccC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNV--------Q--------------DGEAGGITQQIGATNVPADAIRENTKHVRG   80 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~--------~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (259)
                      |.+||+|+|+.++|||||..+|+...-        .              ....++++.......               
T Consensus        30 r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~---------------   94 (548)
T 3vqt_A           30 RRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQ---------------   94 (548)
T ss_dssp             TEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEE---------------
T ss_pred             ccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEE---------------
Confidence            356899999999999999999962210        0              000111111111111               


Q ss_pred             CCCCCCCCCCCCCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316          81 PGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        81 ~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                              ..++...++|+|||||.+|.....+.++.+|++|+|+|+..+...++...|+++.+.++|.++++||+|...
T Consensus        95 --------~~~~~~~iNlIDTPGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~a~~~~lp~i~fINK~Dr~~  166 (548)
T 3vqt_A           95 --------FPYRDRVVNLLDTPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDVCRMRATPVMTFVNKMDREA  166 (548)
T ss_dssp             --------EEETTEEEEEECCCCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHHHHHTTCCEEEEEECTTSCC
T ss_pred             --------EEECCEEEEEEeCCCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHHHHHHHhCCceEEEEecccchh
Confidence                    122333499999999999999999999999999999999999999999999999999999999999999875


Q ss_pred             c
Q psy6316         161 N  161 (259)
Q Consensus       161 ~  161 (259)
                      .
T Consensus       167 a  167 (548)
T 3vqt_A          167 L  167 (548)
T ss_dssp             C
T ss_pred             c
Confidence            4

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=99.81  E-value=1.1e-19  Score=162.17  Aligned_cols=168  Identities=20%  Similarity=0.232  Sum_probs=102.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceee--cccccc---CccccccccccccCCCCCCCCCCCCCCCCeEE
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQ--IGATNV---PADAIRENTKHVRGPGGEVGGPGPLEIPGLLI   98 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~--~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   98 (259)
                      ..+|+++|++|+|||||+++|+...-.....+.+...  ...+..   ..+..+.......      .....+....++|
T Consensus        13 ~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~------~~~~~~~~~~i~l   86 (529)
T 2h5e_A           13 RRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTS------VMQFPYHDCLVNL   86 (529)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTT------EEEEEETTEEEEE
T ss_pred             CCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeee------EEEEEECCeEEEE
Confidence            4679999999999999999998642111000000000  000000   0000000000000      0000111223999


Q ss_pred             EeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316          99 IDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus        99 iDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      ||||||.+|...+..+++.+|++|+|+|++++...+...++..+...++|+++++||+|+....    ..+..+.++...
T Consensus        87 iDTPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t~~~~~~~~~~~ipiivviNK~Dl~~~~----~~~~~~~i~~~l  162 (529)
T 2h5e_A           87 LDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTRLRDTPILTFMNKLDRDIRD----PMELLDEVENEL  162 (529)
T ss_dssp             ECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHTTTTCCEEEEEECTTSCCSC----HHHHHHHHHHHH
T ss_pred             EECCCChhHHHHHHHHHHHCCEEEEEEeCCccchHHHHHHHHHHHHcCCCEEEEEcCcCCcccc----HHHHHHHHHHHh
Confidence            9999999999999999999999999999999988888888888888899999999999997432    223333333332


Q ss_pred             ccc--cccccccccccCcceeEEee
Q psy6316         179 SSV--QTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       179 ~~~--~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      ...  ...+...|+.++.|+.+++.
T Consensus       163 ~~~~~~~~~pi~sa~~~~Gv~dl~~  187 (529)
T 2h5e_A          163 KIGCAPITWPIGCGKLFKGVYHLYK  187 (529)
T ss_dssp             CCEEEESEEEESCGGGCCEEEETTT
T ss_pred             CCCccceecceecccCcceeeehhh
Confidence            211  11112379999999988543

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=99.80  E-value=7.1e-20  Score=149.40  Aligned_cols=79  Identities=23%  Similarity=0.201  Sum_probs=53.5

Q ss_pred             CCCeEEEEEeCCCC--CCHHHHH-HHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhhhhcc-cccccccc
Q psy6316         117 LCDIAILVVDIMHG--LEPQTIE-SINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS-VQTHKTVE  188 (259)
Q Consensus       117 ~ad~~i~v~d~~~~--~~~~~~~-~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~~  188 (259)
                      .+|++|+|+|+++.  .+..... ++..+.    ..+.|+++|+||+|+...      ..+ ...+.+... .+++++++
T Consensus       162 ~ad~vilV~D~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~------~~v-~~~~~~~~~~~~~~~~e~  234 (255)
T 3c5h_A          162 LVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVE------RYI-RDAHTFALSKKNLQVVET  234 (255)
T ss_dssp             ECCEEEEEEECBC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCH------HHH-HHHHHHHHTSSSCCEEEC
T ss_pred             cCCEEEEEEECCCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEccccccc------HHH-HHHHHHHHhcCCCeEEEE
Confidence            69999999999886  5655433 444443    357999999999998631      222 233333332 36788899


Q ss_pred             ccccCcceeEEeec
Q psy6316         189 SARKGQEICIKIEP  202 (259)
Q Consensus       189 Sa~~g~gv~~~l~~  202 (259)
                      ||++|.|+++++..
T Consensus       235 SAk~g~gv~elf~~  248 (255)
T 3c5h_A          235 SARSNVNVDLAFST  248 (255)
T ss_dssp             BTTTTBSHHHHHHH
T ss_pred             ECCCCCCHHHHHHH
Confidence            99999999875543

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.79  E-value=3.9e-20  Score=168.74  Aligned_cols=132  Identities=29%  Similarity=0.287  Sum_probs=92.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeecccc-ccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGAT-NVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      .+||+|+|+.++|||||..+|+...-.-...+.+....... ..+.+..+..  .+..    ......++...++|+|||
T Consensus         2 IRNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGI--TI~s----~~~~~~~~~~~iNlIDTP   75 (638)
T 3j25_A            2 IINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGI--TIQT----GITSFQWENTKVNIIDTP   75 (638)
T ss_dssp             CCCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSS--CSSC----CCCCCBCSSCBCCCEECC
T ss_pred             eeEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCC--cEEe----eeEEEEECCEEEEEEECC
Confidence            45899999999999999999963321100000111000000 1111111111  1110    112234555569999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCc
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYN  161 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~  161 (259)
                      ||.+|.......++.+|++|+|+|+.++...++...|+++.+.++|.++++||+|....
T Consensus        76 GH~DF~~Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~~a~~~~lp~i~~INKmDr~~a  134 (638)
T 3j25_A           76 GHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGIPTIFFINKIDQNGI  134 (638)
T ss_dssp             CSSSTHHHHHHHHTTCSEEECCEESSCTTCSHHHHHHHHHHHHTCSCEECCEECCSSSC
T ss_pred             CcHHHHHHHHHHHHHhCEEEEEEeCCCCCcHHHHHHHHHHHHcCCCeEEEEeccccccC
Confidence            99999999999999999999999999999999999999999999999999999998754

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=99.79  E-value=4.7e-20  Score=144.77  Aligned_cols=153  Identities=18%  Similarity=0.201  Sum_probs=99.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++|||||||+++|++..+...+.++++.+..........     ..+                .+.+|||||+
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g-----~~~----------------~~~i~Dt~g~   64 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDG-----KTI----------------KAQIWDTAGQ   64 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETT-----EEE----------------EEEEEECSSG
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECC-----EEE----------------EEEEEECCCc
Confidence            4599999999999999999998876543333322211111111100     001                1789999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      +.+...+..+++.+|++++|+|+++..+.... .++..+..   .+.|+++++||+|+.... ....    .....+...
T Consensus        65 ~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~-~~~~----~~a~~l~~~  139 (199)
T 2f9l_A           65 ERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLR-AVPT----DEARAFAEK  139 (199)
T ss_dssp             GGTTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC-CSCH----HHHHHHHHH
T ss_pred             hhhhhhhHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECccccccc-CcCH----HHHHHHHHH
Confidence            88877777788899999999999875444332 34444433   468999999999986321 1111    123333344


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .++.++.+||+++.|+++++..+
T Consensus       140 ~~~~~~d~Sal~~~~i~~l~~~l  162 (199)
T 2f9l_A          140 NNLSFIETSALDSTNVEEAFKNI  162 (199)
T ss_dssp             TTCEEEECCTTTCTTHHHHHHHH
T ss_pred             cCCeEEEEeCCCCCCHHHHHHHH
Confidence            45677789999999998855444

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.78  E-value=1.5e-19  Score=150.51  Aligned_cols=151  Identities=15%  Similarity=0.108  Sum_probs=94.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|..|+|||||++++.+.... ........+++.......      ..+                .+.||||||++
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~-~~~~~~~~Tig~~~~~v~------~~v----------------~LqIWDTAGQE   57 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQP-LDTLYLESTSNPSLEHFS------TLI----------------DLAVMELPGQL   57 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCS-GGGTTCCCCCSCCCEEEC------SSS----------------CEEEEECCSCS
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCC-CccceecCeeeeeeEEEc------cEE----------------EEEEEECCCch
Confidence            4899999999999999988755322 111112222222221110      001                29999999999


Q ss_pred             chHH---HHHhhccCCCeEEEEEeCCCCCCHHHHHHH----HHHH--hCCCCEEEEEecccccCccc-ccchhhHHH-HH
Q psy6316         106 SFSN---LRNRGSSLCDIAILVVDIMHGLEPQTIESI----NILK--SKKTPFVVALNKIDRLYNWN-TMNRRDVRD-II  174 (259)
Q Consensus       106 ~~~~---~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l----~~~~--~~~~piivv~NK~D~~~~~~-~~~~~~~~~-~~  174 (259)
                      +|..   .+..+++.++++|+|+|+++. ......++    ..+.  ..+.|+++++||+|+..... ....+++.. ..
T Consensus        58 rf~~~~l~~~~yyr~a~~~IlV~Ditd~-~~~~~~~l~~~l~~~~~~~~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~  136 (331)
T 3r7w_B           58 NYFEPSYDSERLFKSVGALVYVIDSQDE-YINAITNLAMIIEYAYKVNPSINIEVLIHKVDGLSEDFKVDAQRDIMQRTG  136 (331)
T ss_dssp             SSCCCSHHHHHHHTTCSEEEEECCCSSC-TTHHHHHHHHHHHHHHHHCTTCEEEEECCCCCSSCSHHHHHHHHHHHHHHH
T ss_pred             hccchhhhhhhhccCCCEEEEEEECCch-HHHHHHHHHHHHHHHhhcCCCCcEEEEEECcccCchhhhhhHHHHhhHHHH
Confidence            9963   467889999999999999987 33344433    2222  24789999999999974210 000122222 23


Q ss_pred             hhhhcc----ccccccccccccCcceeEEee
Q psy6316         175 KSQESS----VQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       175 ~~~~~~----~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      +++...    .++.++.+||++ .++.+.+.
T Consensus       137 ~~la~~~~~~~~i~f~eTSAkd-~nV~eAFs  166 (331)
T 3r7w_B          137 EELLELGLDGVQVSFYLTSIFD-HSIYEAFS  166 (331)
T ss_dssp             HTTSSSSCSCCCEEEECCCSSS-SHHHHHHH
T ss_pred             HHHHhhcccccCceEEEeccCC-CcHHHHHH
Confidence            344443    567888999997 57876443

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=99.78  E-value=1.4e-19  Score=153.01  Aligned_cols=150  Identities=15%  Similarity=0.103  Sum_probs=91.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ++|+++|.+|||||||+|+|++.....       ..+..++..+....     +...+          ...++||||||+
T Consensus       159 a~V~lvG~~nvGKSTLln~L~~~~~~i-------~~~~ftTl~p~~g~-----v~~~~----------~~~~~l~DtPG~  216 (342)
T 1lnz_A          159 ADVGLVGFPSVGKSTLLSVVSSAKPKI-------ADYHFTTLVPNLGM-----VETDD----------GRSFVMADLPGL  216 (342)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEE-------SSTTSSCCCCCEEE-----EECSS----------SCEEEEEEHHHH
T ss_pred             CeeeeeCCCCCCHHHHHHHHHcCCCcc-------ccCCccccCceEEE-----EEeCC----------CceEEEecCCCC
Confidence            469999999999999999998765321       11111221111100     00000          013999999994


Q ss_pred             cc-------hHHHHHhhccCCCeEEEEEeCCC---CCCHHHH-HHHHHHHh-----CCCCEEEEEecccccCcccccchh
Q psy6316         105 ES-------FSNLRNRGSSLCDIAILVVDIMH---GLEPQTI-ESINILKS-----KKTPFVVALNKIDRLYNWNTMNRR  168 (259)
Q Consensus       105 ~~-------~~~~~~~~~~~ad~~i~v~d~~~---~~~~~~~-~~l~~~~~-----~~~piivv~NK~D~~~~~~~~~~~  168 (259)
                      ..       +...+...+..+|++|+|+|+++   .....+. .++..+..     .++|+++|+||+|+...      .
T Consensus       217 i~~a~~~~~l~~~fl~~i~~~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~------~  290 (342)
T 1lnz_A          217 IEGAHQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEA------A  290 (342)
T ss_dssp             HHHTTCTTTTHHHHHHHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTH------H
T ss_pred             cccccccchhHHHHHHHHHhccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCC------H
Confidence            32       23334445567999999999986   3333333 34455554     36899999999999732      1


Q ss_pred             hHHHHHhhhhccccccccccccccCcceeEEeecC
Q psy6316         169 DVRDIIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       169 ~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +..+.+.+.... .++++++||+++.|+++++..+
T Consensus       291 e~~~~l~~~l~~-~~~v~~iSA~tg~gi~eL~~~l  324 (342)
T 1lnz_A          291 ENLEAFKEKLTD-DYPVFPISAVTREGLRELLFEV  324 (342)
T ss_dssp             HHHHHHHHHCCS-CCCBCCCSSCCSSTTHHHHHHH
T ss_pred             HHHHHHHHHhhc-CCCEEEEECCCCcCHHHHHHHH
Confidence            222222222211 1678899999999998866554

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.77  E-value=5.2e-18  Score=156.02  Aligned_cols=175  Identities=21%  Similarity=0.220  Sum_probs=107.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeecccccc-CccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNV-PADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      .++|+++|++|+|||||+|+|+...-.....+.+......... ..+..+..  .+...    .....+....++|||||
T Consensus        10 ~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~gi--Ti~~~----~~~~~~~~~~i~liDTP   83 (693)
T 2xex_A           10 TRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGI--TITSA----ATTAAWEGHRVNIIDTP   83 (693)
T ss_dssp             EEEEEEECCGGGTHHHHHHHHHHHHSSCC---------------------------CCS----EEEEEETTEEEEEECCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCc--eEeee----eEEEEECCeeEEEEECc
Confidence            4679999999999999999998532110000000000000000 00000000  00000    00001112239999999


Q ss_pred             CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccc-
Q psy6316         103 GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV-  181 (259)
Q Consensus       103 G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~-  181 (259)
                      |+.+|...+..+++.+|++|+|+|++++.+.++...+..+...++|+++++||+|+...    ......+.++...... 
T Consensus        84 G~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~~~~~~~p~ilviNK~Dl~~~----~~~~~~~~l~~~l~~~~  159 (693)
T 2xex_A           84 GHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQATTYGVPRIVFVNKMDKLGA----NFEYSVSTLHDRLQANA  159 (693)
T ss_dssp             CCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHHHTTCCEEEEEECTTSTTC----CHHHHHHHHHHHHCCCE
T ss_pred             CCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHHHHHcCCCEEEEEECCCcccc----chHHHHHHHHHHhCCCc
Confidence            99999999999999999999999999999999999999998899999999999999743    2333444444443321 


Q ss_pred             cccccccccccCcceeEEeecCCCCCCccc
Q psy6316         182 QTHKTVESARKGQEICIKIEPIPGEAPKMF  211 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~  211 (259)
                      ....+++|+  |.|+..++..+ ....+++
T Consensus       160 ~~~~ipisa--~~~~~~l~d~l-~~~~~~~  186 (693)
T 2xex_A          160 APIQLPIGA--EDEFEAIIDLV-EMKCFKY  186 (693)
T ss_dssp             EESEEEECC--GGGCCEEEETT-TTEEEEC
T ss_pred             eeEEeeccc--CCCcceeeeee-cceeEEe
Confidence            123457887  78888877665 3334444

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=99.77  E-value=3.9e-19  Score=151.61  Aligned_cols=131  Identities=11%  Similarity=0.100  Sum_probs=81.0

Q ss_pred             CeEEEeCCCCc-------------chHHHHHhhccCC-CeEEEEEeCCCCCCHHHH-HHHHHHHhCCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHE-------------SFSNLRNRGSSLC-DIAILVVDIMHGLEPQTI-ESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~-------------~~~~~~~~~~~~a-d~~i~v~d~~~~~~~~~~-~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      +++||||||..             .+..+...++..+ +++++|+|++......+. .++..+...+.|+++|+||+|+.
T Consensus       131 ~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~~i~~~~~~~~~~~i~V~NK~Dl~  210 (353)
T 2x2e_A          131 NLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKVAKEVDPQGQRTIGVITKLDLM  210 (353)
T ss_dssp             SEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHHHHHHHHCTTCTTEEEEEECGGGS
T ss_pred             CcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHHHHHHHHhCcCCCceEEEecccccc
Confidence            49999999952             3445566666554 566667777665555554 36677777789999999999997


Q ss_pred             CcccccchhhHHHHHhhhh--ccccc-cccccccccCcceeEEeecCCCCCCcccccCC-c--chh---hHHHHhhhhhH
Q psy6316         160 YNWNTMNRRDVRDIIKSQE--SSVQT-HKTVESARKGQEICIKIEPIPGEAPKMFGRHF-D--END---FLVSKISRQSI  230 (259)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~--~~~~~-~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~-~--~~~---~~~~~~~~e~~  230 (259)
                      ....     .....++...  ...++ .++++||++|.|++.++..+..+.+.++.+.. .  +.+   +.+.+++++++
T Consensus       211 ~~~~-----~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~e~~~f~~~~~~~~~~~r~~~~~l~~~l~e~l  285 (353)
T 2x2e_A          211 DEGT-----DARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAERKFFLSHPSYRHLADRMGTPYLQKVLNQQL  285 (353)
T ss_dssp             CTTC-----CCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHHHHHHHHHCTTTGGGGGGCSHHHHHHHHHHHH
T ss_pred             Ccch-----hHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHHHHHHhccCCcccccHHhhCHHHHHHHHHHHH
Confidence            4321     1112222111  11233 56789999999999988777665555543321 1  222   55556655543

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=99.77  E-value=2.4e-18  Score=144.51  Aligned_cols=103  Identities=12%  Similarity=0.140  Sum_probs=66.6

Q ss_pred             CeEEEeCCCCcc-------------hHHHHHhhccCCCeEEEEEeC-CCCCCHHH-HHHHHHHHhCCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHES-------------FSNLRNRGSSLCDIAILVVDI-MHGLEPQT-IESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~-------------~~~~~~~~~~~ad~~i~v~d~-~~~~~~~~-~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      +++||||||+..             +......++..+|++++|+|+ +.+....+ ..++..+...+.|+++|+||+|+.
T Consensus       132 ~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~~~~~~~~i~v~NK~Dl~  211 (315)
T 1jwy_B          132 NLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDPEGKRTIGVITKLDLM  211 (315)
T ss_dssp             SEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCSSCSSEEEEEECTTSS
T ss_pred             CcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHhCCCCCcEEEEEcCcccC
Confidence            599999999653             556667788999999999997 44444333 467777777889999999999997


Q ss_pred             CcccccchhhHHHHHhhhhccccc---ccccccccc---CcceeEEeec
Q psy6316         160 YNWNTMNRRDVRDIIKSQESSVQT---HKTVESARK---GQEICIKIEP  202 (259)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~~~---~~i~~Sa~~---g~gv~~~l~~  202 (259)
                      ....     .....++.....++.   +++.+||.+   +.|+.+++..
T Consensus       212 ~~~~-----~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~  255 (315)
T 1jwy_B          212 DKGT-----DAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKS  255 (315)
T ss_dssp             CSSC-----CCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHH
T ss_pred             Ccch-----HHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHH
Confidence            4321     123333322222112   334556666   6666665443

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.77  E-value=2.4e-18  Score=146.97  Aligned_cols=151  Identities=22%  Similarity=0.206  Sum_probs=94.0

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +.++|+++|.+|+|||||+|+|++.....+       ....++......     .+.           .....+.+||||
T Consensus       166 ~~~~v~lvG~~gvGKSTLin~L~~~~~~~~-------~~~~~t~~~~~~-----~~~-----------~~~~~~~l~Dt~  222 (357)
T 2e87_A          166 EIPTVVIAGHPNVGKSTLLKALTTAKPEIA-------SYPFTTRGINVG-----QFE-----------DGYFRYQIIDTP  222 (357)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHCSSCCEEE-------CCTTCSSCEEEE-----EEE-----------ETTEEEEEEECT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCccC-------CCCCeeeceeEE-----EEE-----------ecCceEEEEeCC
Confidence            345799999999999999999987754211       111111111110     000           001128999999


Q ss_pred             CCcchH---------HHHHhhccCCCeEEEEEeCCCCC--CHHH-HHHHHHHHh--CCCCEEEEEecccccCcccccchh
Q psy6316         103 GHESFS---------NLRNRGSSLCDIAILVVDIMHGL--EPQT-IESINILKS--KKTPFVVALNKIDRLYNWNTMNRR  168 (259)
Q Consensus       103 G~~~~~---------~~~~~~~~~ad~~i~v~d~~~~~--~~~~-~~~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~  168 (259)
                      |+....         .........+|++++|+|+++..  +... ..++..+..  .+.|+++|+||+|+...      .
T Consensus       223 G~~~~~~~~~~~~~~~~~~~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~~~piilV~NK~Dl~~~------~  296 (357)
T 2e87_A          223 GLLDRPISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFKDLPFLVVINKIDVADE------E  296 (357)
T ss_dssp             TTSSSCSTTSCHHHHHHHHGGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTTTSCEEEEECCTTTCCH------H
T ss_pred             CccccchhhhhHHHHHHHHHHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcCCCCEEEEEECcccCCh------H
Confidence            964321         12223446799999999987754  4433 445555544  27999999999999732      2


Q ss_pred             hHHHHHhhhhccccccccccccccCcceeEEeecC
Q psy6316         169 DVRDIIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       169 ~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ++ ..........+++++++||++|+|+++++..+
T Consensus       297 ~~-~~~~~~~~~~~~~~~~iSA~~g~gi~~l~~~i  330 (357)
T 2e87_A          297 NI-KRLEKFVKEKGLNPIKISALKGTGIDLVKEEI  330 (357)
T ss_dssp             HH-HHHHHHHHHTTCCCEECBTTTTBTHHHHHHHH
T ss_pred             HH-HHHHHHHHhcCCCeEEEeCCCCcCHHHHHHHH
Confidence            22 12222333446788999999999998855444

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=99.76  E-value=6.8e-19  Score=142.18  Aligned_cols=118  Identities=13%  Similarity=0.137  Sum_probs=72.8

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      ..+.++|+++|++|+|||||+|+|++..+........+     ++.........                .....+.|||
T Consensus        26 ~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~-----~t~~~~~~~~~----------------~~~~~i~liD   84 (239)
T 3lxx_A           26 RNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKS-----ITKKCEKRSSS----------------WKETELVVVD   84 (239)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHTSCCSCC------------CCSCEEEEEE----------------ETTEEEEEEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCc-----eeeeEEEEEEE----------------eCCceEEEEE
Confidence            34456799999999999999999998876432211111     11111110000                0111299999


Q ss_pred             CCCCc-----------chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHh-----CCCCEEEEEecccccC
Q psy6316         101 TPGHE-----------SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKS-----KKTPFVVALNKIDRLY  160 (259)
Q Consensus       101 tpG~~-----------~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~-----~~~piivv~NK~D~~~  160 (259)
                      |||..           .+...+..+++.+|++|+|+|++. ....+..++..+..     ...|+++|+||+|+..
T Consensus        85 TpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~-~~~~~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~  159 (239)
T 3lxx_A           85 TPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPLGR-YTEEEHKATEKILKMFGERARSFMILIFTRKDDLG  159 (239)
T ss_dssp             CCSCC-----CHHHHHHHHHHHHHTTTCCSEEEEEEETTC-CSSHHHHHHHHHHHHHHHHHGGGEEEEEECGGGC-
T ss_pred             CCCccCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEeeCCC-CCHHHHHHHHHHHHHhhhhccceEEEEEeCCccCC
Confidence            99943           344444556678999999999874 34455555544432     3469999999999874

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=99.76  E-value=4e-19  Score=138.63  Aligned_cols=151  Identities=18%  Similarity=0.190  Sum_probs=98.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++|||||||+++|++..+...+..+++.+..........     ..+                .+.+|||||+
T Consensus        30 ~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g-----~~~----------------~~~i~Dt~g~   88 (191)
T 1oix_A           30 FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDG-----KTI----------------KAQIWDTAGL   88 (191)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETT-----EEE----------------EEEEEEECSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECC-----EEE----------------EEEEEECCCC
Confidence            5699999999999999999998876544444333222111111100     000                1678999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      +.+...+..+++.++++++|+|.++..+.... .++..+..   .+.|+++++||+|+.... ...    ......+...
T Consensus        89 ~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~-~~~----~~~a~~l~~~  163 (191)
T 1oix_A           89 ERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLR-AVP----TDEARAFAEK  163 (191)
T ss_dssp             CSSSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC-CSC----HHHHHHHHHH
T ss_pred             cchhhhhHHHhhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccc-ccC----HHHHHHHHHH
Confidence            88877777788899999999998765433332 24444432   467899999999986321 111    1223333444


Q ss_pred             ccccccccccccCcceeEEee
Q psy6316         181 VQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      .++.++.+||+++.|+++++.
T Consensus       164 ~~~~~ld~Sald~~~v~~l~~  184 (191)
T 1oix_A          164 NGLSFIETSALDSTNVEAAFQ  184 (191)
T ss_dssp             TTCEEEECCTTTCTTHHHHHH
T ss_pred             cCCEEEEEeCCCCCCHHHHHH
Confidence            456777899999999877543

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=99.75  E-value=4.8e-18  Score=155.71  Aligned_cols=140  Identities=11%  Similarity=0.065  Sum_probs=92.9

Q ss_pred             CeEEEeCCCCcc-------------hHHHHHhhc-cCCCeEEEEEeCCCCCCHHHH-HHHHHHHhCCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHES-------------FSNLRNRGS-SLCDIAILVVDIMHGLEPQTI-ESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~-------------~~~~~~~~~-~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      +++|+||||...             +..+...++ ..+|++++|+|++.+....+. .++..+...+.|+++|+||+|+.
T Consensus       151 qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~ll~~L~~~g~pvIlVlNKiDlv  230 (772)
T 3zvr_A          151 NLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQGQRTIGVITKLDLM  230 (772)
T ss_dssp             SEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHHHHHHHCTTCSSEEEEEECTTSS
T ss_pred             ceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHHHHHHHHhcCCCEEEEEeCcccC
Confidence            499999999332             333444444 689999999999987776666 68888888899999999999998


Q ss_pred             CcccccchhhHHHHHh-hhh-cccc-ccccccccccCcceeEEeecCCC------CCCcccccCCcchhhHHHHhhhhhH
Q psy6316         160 YNWNTMNRRDVRDIIK-SQE-SSVQ-THKTVESARKGQEICIKIEPIPG------EAPKMFGRHFDENDFLVSKISRQSI  230 (259)
Q Consensus       160 ~~~~~~~~~~~~~~~~-~~~-~~~~-~~~i~~Sa~~g~gv~~~l~~i~~------~~~~~~~~~~~~~~~~~~~~~~e~~  230 (259)
                      .....     ...... +.. ...+ .+++++||++|.|++.++..+..      +.+++..-.-.+.++.+.+++||++
T Consensus       231 ~~~~~-----~~~il~~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~e~~ffpe~P~yd~ltDr~g~~~LaEiLrEkL  305 (772)
T 3zvr_A          231 DEGTD-----ARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAERKFFLSHPSYRHLADRMGTPYLQKVLNQQL  305 (772)
T ss_dssp             CTTCC-----SHHHHTTCSSCCSSCEEECCCCCCEESSSSEEHHHHHHHHHHHHHHCTTTGGGGGGCSHHHHHHHHHHHH
T ss_pred             Ccchh-----hHHHHHHHhhhhhccCCceEEecccccccchhHHHHHHHHHHhccCCcchhhhhhcccHHHHHHHHHHHH
Confidence            53211     111111 111 1123 36778999999999998776654      2344311112467888999999876


Q ss_pred             HH-HHHHHHh
Q psy6316         231 DA-CKDYFRD  239 (259)
Q Consensus       231 ~~-l~~~~~~  239 (259)
                      -. +.+.++.
T Consensus       306 ~~hi~~ELP~  315 (772)
T 3zvr_A          306 TNHIRDTLPG  315 (772)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHhhCcc
Confidence            33 3444444

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=99.75  E-value=1.8e-18  Score=158.52  Aligned_cols=131  Identities=20%  Similarity=0.277  Sum_probs=87.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|+|||||+++|++........+.+............... ....+...    ..........++||||||
T Consensus         9 ~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~-~giti~~~----~~~~~~~~~~~nliDTpG   83 (665)
T 2dy1_A            9 IRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKL-HRTTVRTG----VAPLLFRGHRVFLLDAPG   83 (665)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHH-TTSCCSCE----EEEEEETTEEEEEEECCC
T ss_pred             CcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHh-cCCeEEec----ceEEeeCCEEEEEEeCCC
Confidence            4579999999999999999998554321111112000000000000000 00000000    000001112389999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEeccccc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      |.+|...+..+++.+|++++|+|++++...+...++..+...++|+++++||+|+.
T Consensus        84 ~~~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt~~~~~~~~~~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           84 YGDFVGEIRGALEAADAALVAVSAEAGVQVGTERAWTVAERLGLPRMVVVTKLDKG  139 (665)
T ss_dssp             SGGGHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEECGGGC
T ss_pred             ccchHHHHHHHHhhcCcEEEEEcCCcccchhHHHHHHHHHHccCCEEEEecCCchh
Confidence            99999999999999999999999999999999999999999999999999999986

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.75  E-value=1.3e-17  Score=149.50  Aligned_cols=66  Identities=30%  Similarity=0.392  Sum_probs=56.2

Q ss_pred             CeEEEeCCCCcc-----------hHHHHHhhccCCCeEEEEEeCCC-CCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316          95 GLLIIDTPGHES-----------FSNLRNRGSSLCDIAILVVDIMH-GLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        95 ~~~liDtpG~~~-----------~~~~~~~~~~~ad~~i~v~d~~~-~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      +++||||||+..           |...+..++..+|++|+|+|+++ +....+..++..+...+.|+++|+||+|+..
T Consensus       155 ~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~~~~pvilVlNK~Dl~~  232 (550)
T 2qpt_A          155 SISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRGHEDKIRVVLNKADMVE  232 (550)
T ss_dssp             HCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTTCGGGEEEEEECGGGSC
T ss_pred             CEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHhcCCCEEEEEECCCccC
Confidence            499999999764           55677778899999999999987 4677778888888888899999999999973

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=99.74  E-value=2.7e-18  Score=158.03  Aligned_cols=67  Identities=31%  Similarity=0.426  Sum_probs=62.0

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYN  161 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~  161 (259)
                      .++|||||||.+|...+..+++.+|++|+|+|++++...+....+..+...++|+++++||+|+...
T Consensus        83 ~i~liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~~~~~~ip~ilviNKiD~~~~  149 (704)
T 2rdo_7           83 RINIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQANKYKVPRIAFVNKMDRMGA  149 (704)
T ss_pred             eEEEEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHHHHHcCCCEEEEEeCCCcccc
Confidence            4999999999999999999999999999999999998888888888888889999999999998753

>1dar_A EF-G, elongation factor G; ribosomal translocase, translational GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A 2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A* 1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A* 3izp_E 1zn0_B 1jqs_C 2bcw_C ...

Probab=99.74  E-value=2.8e-17  Score=151.14  Aligned_cols=158  Identities=22%  Similarity=0.251  Sum_probs=103.1

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCccee------------eccccccCccccccccccccCCCCCCCCCCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQ------------QIGATNVPADAIRENTKHVRGPGGEVGGPGP   90 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (259)
                      +.++|+++|++|+|||||+++|+.........+.+..            ..+.+ ......     .+           .
T Consensus        11 ~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giT-i~~~~~-----~~-----------~   73 (691)
T 1dar_A           11 RLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGIT-ITAAVT-----TC-----------F   73 (691)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHHCC-----------------------------CCEE-----EE-----------E
T ss_pred             cccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccc-cccceE-----EE-----------E
Confidence            4568999999999999999999843211000000000            00000 000000     00           1


Q ss_pred             CCCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhH
Q psy6316          91 LEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDV  170 (259)
Q Consensus        91 ~~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~  170 (259)
                      +....++|||||||.+|...+..+++.+|++|+|+|++++...++...+..+...++|+++++||+|+...    .....
T Consensus        74 ~~~~~i~liDTPG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~~~~~~~p~ivviNKiD~~~~----~~~~~  149 (691)
T 1dar_A           74 WKDHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDKTGA----DLWLV  149 (691)
T ss_dssp             ETTEEEEEECCCSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEECTTSTTC----CHHHH
T ss_pred             ECCeEEEEEECcCccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHHHHHcCCCEEEEEECCCcccC----CHHHH
Confidence            11123999999999999999999999999999999999999999999888898899999999999999743    23344


Q ss_pred             HHHHhhhhcccc-ccccccccccCcceeEEeecC
Q psy6316         171 RDIIKSQESSVQ-THKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       171 ~~~~~~~~~~~~-~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+.++....... ...+++|+  +.++..++..+
T Consensus       150 ~~~l~~~l~~~~~~~~~Pi~~--~~~~~g~~d~~  181 (691)
T 1dar_A          150 IRTMQERLGARPVVMQLPIGR--EDTFSGIIDVL  181 (691)
T ss_dssp             HHHHHHTTCCCEEECEEEESC--GGGCCEEEETT
T ss_pred             HHHHHHHhCCCccceeccccC--CCcccchhhhh
Confidence            444444433221 23457777  66666655543

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=99.74  E-value=3.4e-18  Score=147.45  Aligned_cols=62  Identities=16%  Similarity=0.037  Sum_probs=34.7

Q ss_pred             CCCCEEEEEecccccCcccccchhhHHHHHhhhhccccccccccccccCcceeEEee-cC---CCCCCccccc
Q psy6316         145 KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIE-PI---PGEAPKMFGR  213 (259)
Q Consensus       145 ~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~-~i---~~~~~~~~~~  213 (259)
                      ..+|+++|+||+|+. .     .. ....+.+.....+.+++++||+.+.|+.+++. .+   ....+++++.
T Consensus       213 ~~kP~i~v~NK~D~~-~-----~~-~l~~l~~~~~~~~~~vv~iSA~~e~~l~~L~~~~l~~~~p~~~~~~~~  278 (397)
T 1wxq_A          213 VNKPMVIAANKADAA-S-----DE-QIKRLVREEEKRGYIVIPTSAAAELTLRKAAKAGFIEYIPGASEFKVL  278 (397)
T ss_dssp             HHSCEEEEEECGGGS-C-----HH-HHHHHHHHHHHTTCEEEEECHHHHHHHHSCSSSCCCCSCC--------
T ss_pred             cCCCEEEEEeCcccc-c-----hH-HHHHHHHHHhhcCCcEEEEeccchhhHHHHHhhhhhhhcCCCcccccc
Confidence            359999999999986 1     11 12222222222245788999999999987554 33   3444455544

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.73  E-value=1.6e-17  Score=135.97  Aligned_cols=116  Identities=16%  Similarity=0.158  Sum_probs=72.7

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ++..+|+++|++|+|||||+|+|++.......      ....++.........                .....++||||
T Consensus        34 ~~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~------~~~~~t~~~~~~~~~----------------~~~~~l~liDT   91 (262)
T 3def_A           34 MNSMTVLVLGKGGVGKSSTVNSLIGEQVVRVS------PFQAEGLRPVMVSRT----------------MGGFTINIIDT   91 (262)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHTSCCSCCC------SSCC-CCCCEEEEEE----------------ETTEEEEEEEC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCCcccC------CCCCcceeeEEEEEE----------------ECCeeEEEEEC
Confidence            45667999999999999999999987652111      111111111110000                00112999999


Q ss_pred             CCCcchHHHHHh-------hc--cCCCeEEEEEeCCC-CCCHHHHHHHHHHHhC-----CCCEEEEEeccccc
Q psy6316         102 PGHESFSNLRNR-------GS--SLCDIAILVVDIMH-GLEPQTIESINILKSK-----KTPFVVALNKIDRL  159 (259)
Q Consensus       102 pG~~~~~~~~~~-------~~--~~ad~~i~v~d~~~-~~~~~~~~~l~~~~~~-----~~piivv~NK~D~~  159 (259)
                      ||+.++......       ++  ..+|++++|++++. .....+..++..+...     ..|+++|+||+|+.
T Consensus        92 pG~~~~~~~~~~~~~~i~~~l~~~~~~~il~V~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~  164 (262)
T 3def_A           92 PGLVEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFS  164 (262)
T ss_dssp             CCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCSCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCC
T ss_pred             CCCCCcccchHHHHHHHHHHHhcCCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccC
Confidence            998765422111       11  37899999998765 3455555666666553     24899999999985

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=99.72  E-value=7.5e-18  Score=143.77  Aligned_cols=149  Identities=19%  Similarity=0.211  Sum_probs=85.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      +.|+++|.+|||||||+|+|++..+..       .+...++..+........                ...+.+|||||+
T Consensus       180 ~~V~lvG~~naGKSTLln~L~~~~~~~-------~~~~~~T~d~~~~~i~~~----------------g~~v~l~DT~G~  236 (364)
T 2qtf_A          180 PSIGIVGYTNSGKTSLFNSLTGLTQKV-------DTKLFTTMSPKRYAIPIN----------------NRKIMLVDTVGF  236 (364)
T ss_dssp             CEEEEECBTTSSHHHHHHHHHCC------------------CCSCEEEEEET----------------TEEEEEEECCCB
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCCccc-------cCCcccccCCEEEEEEEC----------------CEEEEEEeCCCc
Confidence            359999999999999999999876421       111112221111110000                012899999995


Q ss_pred             cc---------hHHHHHhhccCCCeEEEEEeCCCCC--CHHHH----HHHHHHHhCCCCEEEEEecccccCcccccchhh
Q psy6316         105 ES---------FSNLRNRGSSLCDIAILVVDIMHGL--EPQTI----ESINILKSKKTPFVVALNKIDRLYNWNTMNRRD  169 (259)
Q Consensus       105 ~~---------~~~~~~~~~~~ad~~i~v~d~~~~~--~~~~~----~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~  169 (259)
                      ..         |.. ....+..+|++++|+|+++..  .....    ..+..+...+.|+++|+||+|+....    ...
T Consensus       237 i~~lp~~lve~f~~-tl~~~~~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~----~~~  311 (364)
T 2qtf_A          237 IRGIPPQIVDAFFV-TLSEAKYSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGD----LYK  311 (364)
T ss_dssp             CSSCCGGGHHHHHH-HHHGGGGSSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCCSC----HHH
T ss_pred             hhcCCHHHHHHHHH-HHHHHHhCCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCCch----HHH
Confidence            21         322 234578999999999997753  22222    22333333578999999999997421    111


Q ss_pred             HHHHHhhhhccc---cccccccccccCcceeEEee
Q psy6316         170 VRDIIKSQESSV---QTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       170 ~~~~~~~~~~~~---~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      ....+..+...+   +.+++++||++|.|++.++.
T Consensus       312 ~~~~~~~l~~~l~~~~~~~~~~SA~~g~gi~~L~~  346 (364)
T 2qtf_A          312 KLDLVEKLSKELYSPIFDVIPISALKRTNLELLRD  346 (364)
T ss_dssp             HHHHHHHHHHHHCSCEEEEEECBTTTTBSHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCcEEEEECCCCcCHHHHHH
Confidence            111221111111   34568999999999987443

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=99.72  E-value=1e-17  Score=156.91  Aligned_cols=65  Identities=32%  Similarity=0.450  Sum_probs=61.1

Q ss_pred             eEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316          96 LLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        96 ~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      ++|||||||.+|...+..+++.+|++|+|+|++++.+.++...+.++...++|+++++||+|+..
T Consensus       100 i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~~~~p~ilviNK~D~~~  164 (842)
T 1n0u_A          100 INLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPVVVINKVDRAL  164 (842)
T ss_dssp             EEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHHTTCEEEEEEECHHHHH
T ss_pred             EEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCeEEEEECCCcch
Confidence            99999999999999999999999999999999999999998888888888999999999999873

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.72  E-value=1.5e-17  Score=153.65  Aligned_cols=67  Identities=31%  Similarity=0.374  Sum_probs=64.3

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYN  161 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~  161 (259)
                      .++|+|||||.+|.......++.+|++|+|+|+.++...++...|+++...++|.++++||+|....
T Consensus        86 ~iNlIDTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~~~lp~i~~iNKiDr~~a  152 (709)
T 4fn5_A           86 RVNVIDTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANKYGVPRIVYVNKMDRQGA  152 (709)
T ss_dssp             EEEEECCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHHTCCEEEEEECSSSTTC
T ss_pred             EEEEEeCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEccccccCc
Confidence            3999999999999999999999999999999999999999999999999999999999999999754

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.72  E-value=1.3e-17  Score=153.44  Aligned_cols=66  Identities=17%  Similarity=0.263  Sum_probs=54.2

Q ss_pred             CeEEEeCCCCcc---hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHH-HHHhCCCCEEEEEecccccC
Q psy6316          95 GLLIIDTPGHES---FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESIN-ILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        95 ~~~liDtpG~~~---~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~-~~~~~~~piivv~NK~D~~~  160 (259)
                      +++||||||...   ....+..++..+|++|+|+|++++.+..+..++. .+...+.|+++|+||+|+..
T Consensus       175 ~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~~~~~~iiiVlNK~Dl~~  244 (695)
T 2j69_A          175 GIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKGRGLTVFFLVNAWDQVR  244 (695)
T ss_dssp             TEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTTTSCCCEEEEEECGGGGG
T ss_pred             CeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHHhhCCCEEEEEECccccc
Confidence            499999999544   3455667889999999999999888888877664 55667889999999999874

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=99.72  E-value=2e-17  Score=141.51  Aligned_cols=100  Identities=17%  Similarity=0.143  Sum_probs=72.3

Q ss_pred             CeEEEeCCCCcch-------------HHHHHhhccCCCeEEEEEeCCCCC--CHHHHHHHHHHHhCCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHESF-------------SNLRNRGSSLCDIAILVVDIMHGL--EPQTIESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~-------------~~~~~~~~~~ad~~i~v~d~~~~~--~~~~~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      +++||||||...+             ......++..+|++|+|+|+....  ......++..+...+.|+++|+||+|+.
T Consensus       137 ~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~~~~~~l~~~~~~~~~~~i~V~nK~Dl~  216 (360)
T 3t34_A          137 NLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLATSDAIKISREVDPSGDRTFGVLTKIDLM  216 (360)
T ss_dssp             SEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGGCHHHHHHHHSCTTCTTEEEEEECGGGC
T ss_pred             CeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCCHHHHHHHHHhcccCCCEEEEEeCCccC
Confidence            4999999997665             566777889999999999875422  2233556666666788999999999998


Q ss_pred             CcccccchhhHHHHHhhhhccccccccccccccCcceeEE
Q psy6316         160 YNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIK  199 (259)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~  199 (259)
                      ...     ......++......+..++.+|++++.+++..
T Consensus       217 ~~~-----~~~~~~~~~~~~~~~~~~~~v~~~s~~~i~~~  251 (360)
T 3t34_A          217 DKG-----TDAVEILEGRSFKLKYPWVGVVNRSQADINKN  251 (360)
T ss_dssp             CTT-----CCSHHHHTTSSSCCSSCCEEECCCCHHHHHTT
T ss_pred             CCc-----ccHHHHHcCccccccCCeEEEEECChHHhccC
Confidence            432     12233344445556678889999999988753

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=99.72  E-value=1.3e-17  Score=131.75  Aligned_cols=151  Identities=18%  Similarity=0.217  Sum_probs=91.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|||||||+|+|++..+....    ....+.+.. .....     .   +           +.+.+|||||
T Consensus        26 ~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~----~~~~G~~~~-~~~~~-----~---~-----------~~~~l~Dt~G   81 (210)
T 1pui_A           26 GIEVAFAGRSNAGKSSALNTLTNQKSLART----SKTPGRTQL-INLFE-----V---A-----------DGKRLVDLPG   81 (210)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCCC-----------------CC-EEEEE-----E---E-----------TTEEEEECCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCccccc----cCCCcccee-eEEEE-----e---c-----------CCEEEEECcC
Confidence            346999999999999999999876532111    111111111 00000     0   0           0289999999


Q ss_pred             Ccc----------hHHHHHhhc---cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhH
Q psy6316         104 HES----------FSNLRNRGS---SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDV  170 (259)
Q Consensus       104 ~~~----------~~~~~~~~~---~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~  170 (259)
                      +..          +......++   ..++++++|+|++.+.+..+......+...+.|++++.||+|+....   .++..
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~v~nK~D~~s~~---~~~~~  158 (210)
T 1pui_A           82 YGYAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIAVLVLLTKADKLASG---ARKAQ  158 (210)
T ss_dssp             CC------CCHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCCEEEEEECGGGSCHH---HHHHH
T ss_pred             CcccccCHHHHHHHHHHHHHHHHhhhcccEEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEecccCCCch---hHHHH
Confidence            742          222222333   57899999999988777665566666677889999999999987421   11111


Q ss_pred             HHHHhhhhccc--cccccccccccCcceeEEee
Q psy6316         171 RDIIKSQESSV--QTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       171 ~~~~~~~~~~~--~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      ...+.......  .+..+++||+++.|+++++.
T Consensus       159 ~~~~~~~~~~~~~~~~~~~~Sal~~~~~~~l~~  191 (210)
T 1pui_A          159 LNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQ  191 (210)
T ss_dssp             HHHHHHHHGGGCSCEEEEECBTTTTBSHHHHHH
T ss_pred             HHHHHHHHHhcCCCCceEEEeecCCCCHHHHHH
Confidence            22233333222  34667899999999987544

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.71  E-value=1.2e-17  Score=130.04  Aligned_cols=112  Identities=19%  Similarity=0.211  Sum_probs=71.4

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      +.++|+++|.+|+|||||+++|++..+...    ...........                       +....+.+||||
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~~~~~~----~~~~~~~~~~~-----------------------~~~~~~~l~Dt~   99 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTDSVRPT----VVSQEPLSAAD-----------------------YDGSGVTLVDFP   99 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHSSCC----------------C-----------------------CCCTTCSEEEET
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCcc----cccCCCceeee-----------------------ecCCeEEEEECC
Confidence            356799999999999999999998765321    00000000000                       011139999999


Q ss_pred             CCcchHHHHHhhccC----CCeEEEEEeCC-CCCCHHH-HHHHHHHH-------hCCCCEEEEEecccccCc
Q psy6316         103 GHESFSNLRNRGSSL----CDIAILVVDIM-HGLEPQT-IESINILK-------SKKTPFVVALNKIDRLYN  161 (259)
Q Consensus       103 G~~~~~~~~~~~~~~----ad~~i~v~d~~-~~~~~~~-~~~l~~~~-------~~~~piivv~NK~D~~~~  161 (259)
                      |+..+...+..++..    +|++++|+|++ +..+... ..++..+.       ..+.|+++|+||+|+...
T Consensus       100 G~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  171 (193)
T 2ged_A          100 GHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTA  171 (193)
T ss_dssp             TCCBSSCCHHHHHHHHGGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTC
T ss_pred             CCchHHHHHHHHHHhhcccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCC
Confidence            988876666666554    89999999998 3222222 12332222       147999999999999743

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.71  E-value=9.4e-18  Score=143.27  Aligned_cols=157  Identities=18%  Similarity=0.237  Sum_probs=75.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCC-CcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEA-GGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      .+|+++|++|+|||||+|+|++........ ......... +.......   ..+. .+        -....+++|||||
T Consensus        38 ~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~-ti~~~~~~---~~~~-~~--------~~~~~l~i~DTpG  104 (361)
T 2qag_A           38 FTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIER-TVQIEAST---VEIE-ER--------GVKLRLTVVDTPG  104 (361)
T ss_dssp             ECEEECCCTTSCHHHHHHHHTTCCC----------------CEEEEEEE---EC-------------CEEEEEEEEC---
T ss_pred             EEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCC-ceeEEEEE---EEee-cC--------CcccceEEEEecc
Confidence            459999999999999999987654321110 000000000 00000000   0000 00        0001289999999


Q ss_pred             C-------cchHHHHH-------hhcc-------------CCCeEEEEEeC-CCCCCHHHHHHHHHHHhCCCCEEEEEec
Q psy6316         104 H-------ESFSNLRN-------RGSS-------------LCDIAILVVDI-MHGLEPQTIESINILKSKKTPFVVALNK  155 (259)
Q Consensus       104 ~-------~~~~~~~~-------~~~~-------------~ad~~i~v~d~-~~~~~~~~~~~l~~~~~~~~piivv~NK  155 (259)
                      +       +.+..++.       .+++             .+|+++|+++. ..+....+..++..+. .++|+|+|+||
T Consensus       105 ~gd~~~~~e~~~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l~-~~~piIlV~NK  183 (361)
T 2qag_A          105 YGDAINCRDCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAIH-NKVNIVPVIAK  183 (361)
T ss_dssp             -----------CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHTC-S-SCEEEEEEC
T ss_pred             ccccCccHHHHHHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHhc-cCCCEEEEEEC
Confidence            8       44433332       3332             24578888886 4556666666666653 57899999999


Q ss_pred             ccccCcccccchhhHHHHHhhhhccccccccccccccCcceeEE
Q psy6316         156 IDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIK  199 (259)
Q Consensus       156 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~  199 (259)
                      +|+....   ........+.......+++++++||++|.| ++.
T Consensus       184 ~Dl~~~~---ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~~-~e~  223 (361)
T 2qag_A          184 ADTLTLK---ERERLKKRILDEIEEHNIKIYHLPDAESDE-DED  223 (361)
T ss_dssp             CSSSCHH---HHHHHHHHHHHHTTCC-CCSCCCC----------
T ss_pred             CCCCCHH---HHHHHHHHHHHHHHHCCCCEEeCCCcCCCc-chh
Confidence            9997421   122223455666666788999999999998 543

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.67  E-value=5.5e-16  Score=127.36  Aligned_cols=115  Identities=15%  Similarity=0.092  Sum_probs=72.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+|+|++..+.....     ..+ ++...........                ...+.||||||
T Consensus        39 ~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~-----~~~-~t~~~~~~~~~~~----------------~~~l~iiDTpG   96 (270)
T 1h65_A           39 SLTILVMGKGGVGKSSTVNSIIGERVVSISP-----FQS-EGPRPVMVSRSRA----------------GFTLNIIDTPG   96 (270)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHTSCCSCCCS-----SSC-CCSSCEEEEEEET----------------TEEEEEEECCC
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCcccccC-----CCC-cceeeEEEEEeeC----------------CeEEEEEECCC
Confidence            4569999999999999999999876531110     011 1111100000000                11299999999


Q ss_pred             CcchHH-------HHHhh--ccCCCeEEEEEeCCC-CCCHHHHHHHHHHHhC-C----CCEEEEEecccccC
Q psy6316         104 HESFSN-------LRNRG--SSLCDIAILVVDIMH-GLEPQTIESINILKSK-K----TPFVVALNKIDRLY  160 (259)
Q Consensus       104 ~~~~~~-------~~~~~--~~~ad~~i~v~d~~~-~~~~~~~~~l~~~~~~-~----~piivv~NK~D~~~  160 (259)
                      +.++..       .+..+  ...+|++++|+|++. .....+..++..+... +    .|+++|+||+|+..
T Consensus        97 ~~~~~~~~~~~~~~i~~~~~~~~~d~il~v~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~  168 (270)
T 1h65_A           97 LIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSP  168 (270)
T ss_dssp             SEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCC
T ss_pred             CCCCccchHHHHHHHHHHhhcCCCCEEEEEEeCCCCcCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCC
Confidence            765431       11122  347999999998865 4555566777766543 2    69999999999864

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=99.64  E-value=1.9e-17  Score=141.24  Aligned_cols=102  Identities=16%  Similarity=0.112  Sum_probs=64.1

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      +++||||||...   .....+..+|++++|+|++.+...+...  .  .....|+++|+||+|+....   ........+
T Consensus       173 ~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~~~l~--~--~~~~~p~ivVlNK~Dl~~~~---~~~~~~~~l  242 (355)
T 3p32_A          173 DVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQLQGIK--K--GVLELADIVVVNKADGEHHK---EARLAAREL  242 (355)
T ss_dssp             CEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTTTTCC--T--TSGGGCSEEEEECCCGGGHH---HHHHHHHHH
T ss_pred             CEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccHHHHH--H--hHhhcCCEEEEECCCCcChh---HHHHHHHHH
Confidence            599999999543   2234458999999999987643321111  0  11246999999999986321   111122222


Q ss_pred             hhhhc-------cccccccccccccCcceeEEeecCCCC
Q psy6316         175 KSQES-------SVQTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       175 ~~~~~-------~~~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      .....       .++.+++++||++|.|+++++..+...
T Consensus       243 ~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~  281 (355)
T 3p32_A          243 SAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERH  281 (355)
T ss_dssp             HHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHH
T ss_pred             HHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHH
Confidence            22211       234678899999999999977666443

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.61  E-value=2.6e-15  Score=129.84  Aligned_cols=165  Identities=21%  Similarity=0.209  Sum_probs=80.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|++|+|||||+|.|++..+......+.......+ ..    ......+...        ......+++|||||.
T Consensus        32 f~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t-~~----~~~i~~v~q~--------~~~~~~Ltv~Dt~g~   98 (418)
T 2qag_C           32 FTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKT-VQ----VEQSKVLIKE--------GGVQLLLTIVDTPGF   98 (418)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----C-CE----EEEEECC--------------CEEEEEEECC--
T ss_pred             EEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccc-ee----eeeEEEEEec--------CCcccceeeeechhh
Confidence            4599999999999999999998765211111111000000 00    0000000000        000113899999996


Q ss_pred             cchH-------HHH------------------HhhccC--CCeEEEEEeCC-CCCCHHHHHHHHHHHhCCCCEEEEEecc
Q psy6316         105 ESFS-------NLR------------------NRGSSL--CDIAILVVDIM-HGLEPQTIESINILKSKKTPFVVALNKI  156 (259)
Q Consensus       105 ~~~~-------~~~------------------~~~~~~--ad~~i~v~d~~-~~~~~~~~~~l~~~~~~~~piivv~NK~  156 (259)
                      ..+.       ...                  ..++..  +|++||+++++ .++...+..++..+.. ++|+|+|+||+
T Consensus        99 ~~~~~~~~~~~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~~-~v~iIlVinK~  177 (418)
T 2qag_C           99 GDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE-KVNIIPLIAKA  177 (418)
T ss_dssp             ---------CHHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHTT-TSEEEEEEEST
T ss_pred             hhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHhc-cCcEEEEEEcc
Confidence            5431       110                  112233  45677777776 5778878778887765 79999999999


Q ss_pred             cccCcccccchhhHHHHHhhhhccccccccccccccCcceeEEeecCCCC
Q psy6316         157 DRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       157 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      |+....   ........+.......+++++.+||.++.+++..+..+...
T Consensus       178 Dll~~~---ev~~~k~~i~~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~~  224 (418)
T 2qag_C          178 DTLTPE---ECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDR  224 (418)
T ss_dssp             TSSCHH---HHHHHHHHHHHHHHHHTCCCCCCC-----------------
T ss_pred             cCccHH---HHHHHHHHHHHHHHHcCCeEEeCCCCCCcCHHHHHHHHHhh
Confidence            997321   22223344555555567889999999999998765555443

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.60  E-value=1.3e-16  Score=135.54  Aligned_cols=129  Identities=16%  Similarity=0.122  Sum_probs=68.3

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccc-cchhhHHHH
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNT-MNRRDVRDI  173 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~-~~~~~~~~~  173 (259)
                      ++.|+||||....   .......+|++++|+|++.+...+   .+.. .....|.++|+||+|+...... .....+...
T Consensus       168 ~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~---~i~~-~il~~~~ivVlNK~Dl~~~~~~~~~~~~l~~~  240 (349)
T 2www_A          168 DIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQ---GIKR-GIIEMADLVAVTKSDGDLIVPARRIQAEYVSA  240 (349)
T ss_dssp             SEEEEECCCC--C---HHHHHTTCSEEEEEECCC----------------CCSCSEEEECCCSGGGHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHH---HhHH-HHHhcCCEEEEeeecCCCchhHHHHHHHHHHH
Confidence            4999999995321   133457899999999987643221   1111 1135688999999998631100 000111111


Q ss_pred             Hhhhhc---cccccccccccccCcceeEEeecCCCCCCcccccCC------cchhhHHHHhhhhhH
Q psy6316         174 IKSQES---SVQTHKTVESARKGQEICIKIEPIPGEAPKMFGRHF------DENDFLVSKISRQSI  230 (259)
Q Consensus       174 ~~~~~~---~~~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~------~~~~~~~~~~~~e~~  230 (259)
                      +.....   .+..+++++||++|.|+++++..+....+.++.+++      ....+++.+++++.+
T Consensus       241 l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~~~~~~~~~~~~R~~~~~~~~~~~~~~~~  306 (349)
T 2www_A          241 LKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQDLMLASGELTAKRRKQQKVWMWNLIQESV  306 (349)
T ss_dssp             HTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHHHHHHHH
Confidence            111111   123467889999999999877666443333333222      133455555555555

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=99.60  E-value=1.4e-15  Score=126.80  Aligned_cols=160  Identities=16%  Similarity=0.178  Sum_probs=77.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcc-eeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGI-TQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      .+|+++|++|+|||||+++|++........... +..... +....    ........        ......+++|||||
T Consensus        19 ~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~-t~~~~----~~~~~~q~--------~~~~~~ltv~Dt~g   85 (301)
T 2qnr_A           19 FTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIER-TVQIE----ASTVEIEE--------RGVKLRLTVVDTPG   85 (301)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHC-----------------------------CEEEEC-----------CCEEEEEEEEC-
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCC-cceEe----eEEEEecC--------CCcccCcchhhhhh
Confidence            459999999999999999998763221111000 000000 00000    00000000        00011389999999


Q ss_pred             C-------cchHHHHH-------hhcc-------------CCCeEEEEEeCCC-CCCHHHHHHHHHHHhCCCCEEEEEec
Q psy6316         104 H-------ESFSNLRN-------RGSS-------------LCDIAILVVDIMH-GLEPQTIESINILKSKKTPFVVALNK  155 (259)
Q Consensus       104 ~-------~~~~~~~~-------~~~~-------------~ad~~i~v~d~~~-~~~~~~~~~l~~~~~~~~piivv~NK  155 (259)
                      +       +.+.....       .+++             .+++++|+.+++. ++...+.+.+..+. ...|+++|+||
T Consensus        86 ~~~~~~~~e~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~~Ld~~~~~~l~~l~-~~~~iilV~~K  164 (301)
T 2qnr_A           86 YGDAINCRDCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAIH-NKVNIVPVIAK  164 (301)
T ss_dssp             ----------CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSSSCCHHHHHHHHHHT-TTSCEEEEECC
T ss_pred             hhhhcCcHHHHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcccCCCHHHHHHHHHHH-hcCCEEEEEEe
Confidence            7       44333332       2221             2455677777654 47777766666554 35799999999


Q ss_pred             ccccCcccccchhhHHHHHhhhhccccccccccccccCcceeEEeec
Q psy6316         156 IDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       156 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      .|+....   ......+.........++.++++||++| |+++.+..
T Consensus       165 ~Dl~~~~---e~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~  207 (301)
T 2qnr_A          165 ADTLTLK---ERERLKKRILDEIEEHNIKIYHLPDAES-DEDEDFKE  207 (301)
T ss_dssp             GGGSCHH---HHHHHHHHHHHHHHHTTCCCCCCC----------CHH
T ss_pred             CCCCCHH---HHHHHHHHHHHHHHHcCCeEEecCCccc-cccHHHHH
Confidence            9997321   1122234455555566788999999999 99986643

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.60  E-value=8.6e-17  Score=128.03  Aligned_cols=170  Identities=11%  Similarity=0.075  Sum_probs=89.5

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCC----------CCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPG----------PLE   92 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~   92 (259)
                      +.++|+++|.+|+|||||+++|++..........+..+.+.+ ................+....+..          ...
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~~~~~~~~~~i~~d~~~~-~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  107 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIERIGNEVKIGAMLGDVVSK-ADYERVRRFGIKAEAISTGKECHLDAHMIYHRLKKFS  107 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHHHTTTSCEEEEECSCCCH-HHHHHHHTTTCEEEECCCTTCSSCCHHHHHTTGGGGT
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEecCCCCc-hhHHHHHhCCCcEEEecCCceeecccHHHHHHHHhcC
Confidence            456899999999999999999987643221111111111100 000000000000000000000000          112


Q ss_pred             CCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHH
Q psy6316          93 IPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus        93 ~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      ..++.+|||+|+....   ..+....+.+++|+|++.+....    +......+.|+++|+||+|+.... ....++...
T Consensus       108 ~~d~iiidt~G~~~~~---~~~~~~~~~~i~vvd~~~~~~~~----~~~~~~~~~~~iiv~NK~Dl~~~~-~~~~~~~~~  179 (221)
T 2wsm_A          108 DCDLLLIENVGNLICP---VDFDLGENYRVVMVSVTEGDDVV----EKHPEIFRVADLIVINKVALAEAV-GADVEKMKA  179 (221)
T ss_dssp             TCSEEEEEEEEBSSGG---GGCCCSCSEEEEEEEGGGCTTHH----HHCHHHHHTCSEEEEECGGGHHHH-TCCHHHHHH
T ss_pred             CCCEEEEeCCCCCCCC---chhccccCcEEEEEeCCCcchhh----hhhhhhhhcCCEEEEecccCCcch-hhHHHHHHH
Confidence            3359999999952111   01113578999999998764321    122223468999999999986321 112333444


Q ss_pred             HHhhhhccccccccccccccCcceeEEeecC
Q psy6316         173 IIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       173 ~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+...  ...++++++||++|.|+++++..+
T Consensus       180 ~~~~~--~~~~~i~~~Sa~~g~gi~~l~~~l  208 (221)
T 2wsm_A          180 DAKLI--NPRAKIIEMDLKTGKGFEEWIDFL  208 (221)
T ss_dssp             HHHHH--CTTSEEEECBTTTTBTHHHHHHHH
T ss_pred             HHHHh--CCCCeEEEeecCCCCCHHHHHHHH
Confidence            44333  124678899999999998755443

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=99.57  E-value=3.8e-15  Score=128.80  Aligned_cols=149  Identities=19%  Similarity=0.178  Sum_probs=89.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ..|+++|++|||||||+++|++....       ...+..++..+..     ..+...+          ...+++||+||+
T Consensus       158 ~~VgLVG~~gAGKSTLL~~Lsg~~~~-------i~~~~ftTl~p~~-----G~V~~~~----------~~~~~l~DtpGl  215 (416)
T 1udx_A          158 ADVGLVGYPNAGKSSLLAAMTRAHPK-------IAPYPFTTLSPNL-----GVVEVSE----------EERFTLADIPGI  215 (416)
T ss_dssp             CSEEEECCGGGCHHHHHHHHCSSCCE-------ECCCTTCSSCCEE-----EEEECSS----------SCEEEEEECCCC
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCcc-------ccCcccceeccee-----eEEEecC----------cceEEEEecccc
Confidence            45999999999999999999876431       1111111111110     0010000          013899999996


Q ss_pred             cc-------hHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh-----CCCCEEEEEecccccCcccccchhhHH
Q psy6316         105 ES-------FSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS-----KKTPFVVALNKIDRLYNWNTMNRRDVR  171 (259)
Q Consensus       105 ~~-------~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~-----~~~piivv~NK~D~~~~~~~~~~~~~~  171 (259)
                      ..       +.......+..++.+++|+|++ .....+.. +..++..     ...|.++++||+|+..      . ...
T Consensus       216 i~~a~~~~~L~~~fl~~~era~~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~------~-~~~  287 (416)
T 1udx_A          216 IEGASEGKGLGLEFLRHIARTRVLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLE------E-EAV  287 (416)
T ss_dssp             CCCGGGSCCSCHHHHHHHTSSSEEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSC------H-HHH
T ss_pred             ccchhhhhhhhHHHHHHHHHHHhhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhh------H-HHH
Confidence            42       2222334456899999999997 22222222 2233322     3589999999999873      2 223


Q ss_pred             HHHhhhhccccccccccccccCcceeEEeecC
Q psy6316         172 DIIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       172 ~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+.......++.++.+||+++.|+++++..+
T Consensus       288 ~~l~~~l~~~g~~vi~iSA~~g~gi~eL~~~i  319 (416)
T 1udx_A          288 KALADALAREGLAVLPVSALTGAGLPALKEAL  319 (416)
T ss_dssp             HHHHHHHHTTTSCEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHHHHHhcCCeEEEEECCCccCHHHHHHHH
Confidence            33333333445788999999999998865444

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=99.53  E-value=8.2e-16  Score=130.40  Aligned_cols=101  Identities=19%  Similarity=0.060  Sum_probs=60.2

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      +++||||||.......   ....+|++++|+|++.+...+   .+.. ...+.|.++|+||+|+....   ........+
T Consensus       150 ~i~liDTpG~~~~~~~---~~~~aD~vl~Vvd~~~~~~~~---~l~~-~~~~~p~ivv~NK~Dl~~~~---~~~~~~~~l  219 (341)
T 2p67_A          150 DVVIVETVGVGQSETE---VARMVDCFISLQIAGGGDDLQ---GIKK-GLMEVADLIVINKDDGDNHT---NVAIARHMY  219 (341)
T ss_dssp             SEEEEEEECCTTHHHH---HHTTCSEEEEEECC------C---CCCH-HHHHHCSEEEECCCCTTCHH---HHHHHHHHH
T ss_pred             CEEEEeCCCccchHHH---HHHhCCEEEEEEeCCccHHHH---HHHH-hhhcccCEEEEECCCCCChH---HHHHHHHHH
Confidence            4999999997654432   458999999999987542211   1110 11246889999999987321   111111122


Q ss_pred             hh----hh---ccccccccccccccCcceeEEeecCCC
Q psy6316         175 KS----QE---SSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       175 ~~----~~---~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      +.    +.   ..+..+++++||++|.|++.++..+..
T Consensus       220 ~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~  257 (341)
T 2p67_A          220 ESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIID  257 (341)
T ss_dssp             HHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHH
T ss_pred             HHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHH
Confidence            22    11   112346779999999999987766544

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=99.52  E-value=1.4e-14  Score=118.11  Aligned_cols=103  Identities=17%  Similarity=0.105  Sum_probs=63.1

Q ss_pred             CeEEEeCCCCcchHHH------HHhhccCCCeEEEEEeCCCCCCHHHHHH-----HHHHHhCCCCEEEEEecccccCccc
Q psy6316          95 GLLIIDTPGHESFSNL------RNRGSSLCDIAILVVDIMHGLEPQTIES-----INILKSKKTPFVVALNKIDRLYNWN  163 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~------~~~~~~~ad~~i~v~d~~~~~~~~~~~~-----l~~~~~~~~piivv~NK~D~~~~~~  163 (259)
                      +++||||||+......      ....+.. +++++++|+.......+...     .......+.|+++|+||+|+.....
T Consensus       110 d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~~~~p~~iv~NK~D~~~~~~  188 (262)
T 1yrb_A          110 DYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSEEE  188 (262)
T ss_dssp             SEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCHHH
T ss_pred             CEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcccCCCeEEEEeccccccccc
Confidence            4999999997664322      2235566 99999999876655544321     1223345789999999999874211


Q ss_pred             ccchhhHHHHHh-------hh-----------------hccc--cccccccccccCcceeEEee
Q psy6316         164 TMNRRDVRDIIK-------SQ-----------------ESSV--QTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       164 ~~~~~~~~~~~~-------~~-----------------~~~~--~~~~i~~Sa~~g~gv~~~l~  201 (259)
                         .++..+.++       .+                 ...+  ..+++++||++|.|+++++.
T Consensus       189 ---~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~  249 (262)
T 1yrb_A          189 ---KERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLET  249 (262)
T ss_dssp             ---HHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHH
T ss_pred             ---HHHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHH
Confidence               111111111       00                 1111  23778999999999987544

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=99.49  E-value=1e-13  Score=117.43  Aligned_cols=97  Identities=13%  Similarity=0.172  Sum_probs=52.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCC--CcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEA--GGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      .+|+++|.+|+|||||+|+|++..+.....  .++....+....+-.... ......       .|.......+.|||||
T Consensus         3 ~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~g~v~~~~~r~~-~l~~~~-------~~~~~~~~~i~lvDtp   74 (363)
T 1jal_A            3 FKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLD-ALAEIV-------KPERILPTTMEFVDIA   74 (363)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHH-HHHHHH-------CCSEEECCEEEEEECC
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceEEEEecCCcccc-eeeeee-------cccceeeeEEEEEECC
Confidence            359999999999999999999876422111  122222221111100000 000000       0000001129999999


Q ss_pred             CCcchHHH-------HHhhccCCCeEEEEEeCCC
Q psy6316         103 GHESFSNL-------RNRGSSLCDIAILVVDIMH  129 (259)
Q Consensus       103 G~~~~~~~-------~~~~~~~ad~~i~v~d~~~  129 (259)
                      |+..+...       ...+++.+|++++|+|+++
T Consensus        75 Gl~~~a~~~~gl~~~fl~~ir~ad~il~VvD~~~  108 (363)
T 1jal_A           75 GLVAGASKGEGLGNKFLANIRETDAIGHVVRCFE  108 (363)
T ss_dssp             SCCTTHHHHGGGTCCHHHHHHTCSEEEEEEECSC
T ss_pred             CCcccccccchHHHHHHHHHHhcCeEEEEEecCC
Confidence            98765422       3345789999999999986

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=99.45  E-value=6.7e-14  Score=119.21  Aligned_cols=100  Identities=15%  Similarity=0.187  Sum_probs=54.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCC--CCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGE--AGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      +|+++|.+|+|||||+|+|++.......  ..++....+....+..........+.... .  .| ......+.||||||
T Consensus         3 ~v~IVG~pnvGKSTL~n~L~~~~~~v~~~p~~Ti~pn~g~~~v~~~~l~~~~~~~~~~~-~--~~-~~~~~~i~lvDtpG   78 (368)
T 2dby_A            3 AVGIVGLPNVGKSTLFNALTRANALAANYPFATIDKNVGVVPLEDERLYALQRTFAKGE-R--VP-PVVPTHVEFVDIAG   78 (368)
T ss_dssp             SEEEECCSSSSHHHHHHHHHHHHTTCSSCCGGGGSTTEEEEECCCHHHHHHHHHHCBTT-B--CC-CEECCEEEEEECCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeccceeeEecChHHHHHHHHHhcccc-c--cc-ccCCceEEEEECCC
Confidence            4999999999999999999876531111  11222222222111100000000000000 0  00 00111399999999


Q ss_pred             Ccch-------HHHHHhhccCCCeEEEEEeCCC
Q psy6316         104 HESF-------SNLRNRGSSLCDIAILVVDIMH  129 (259)
Q Consensus       104 ~~~~-------~~~~~~~~~~ad~~i~v~d~~~  129 (259)
                      +...       .......++.+|++++|+|+++
T Consensus        79 l~~~a~~~~~lg~~fl~~ir~ad~ii~VvD~~~  111 (368)
T 2dby_A           79 LVKGAHKGEGLGNQFLAHIREVAAIAHVLRCFP  111 (368)
T ss_dssp             CCCCCCSSSCTTHHHHHHHHTCSEEEEEEECCC
T ss_pred             ccccccccchHHHHHHHHHHhCCEEEEEEECCC
Confidence            6543       3445567899999999999975

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=99.44  E-value=1.9e-14  Score=122.02  Aligned_cols=107  Identities=11%  Similarity=0.088  Sum_probs=73.3

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCC----------CH-HHHHHHHHHHh----CCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGL----------EP-QTIESINILKS----KKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~----------~~-~~~~~l~~~~~----~~~piivv~NK~D~~  159 (259)
                      .+.+|||+|++.+...|..+++.++++|+|+|.++..          +. ....++..+..    .+.|+++++||+|+.
T Consensus       194 ~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~piiLv~NK~DL~  273 (353)
T 1cip_A          194 HFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLF  273 (353)
T ss_dssp             EEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHH
T ss_pred             eEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCCcEEEEEECcCch
Confidence            4889999999999999999999999999999998732          11 22334454443    368999999999985


Q ss_pred             Cccc--------------ccchhhHHHHHhh----hh---ccccccccccccccCcceeEEee
Q psy6316         160 YNWN--------------TMNRRDVRDIIKS----QE---SSVQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       160 ~~~~--------------~~~~~~~~~~~~~----~~---~~~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      ...-              ....++....+..    +.   ...++.++++||++|.|+.+.+.
T Consensus       274 ~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~  336 (353)
T 1cip_A          274 EEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFD  336 (353)
T ss_dssp             HHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHH
T ss_pred             hhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHH
Confidence            2110              0122333333321    11   12456778899999999977443

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.44  E-value=1.3e-13  Score=117.41  Aligned_cols=110  Identities=19%  Similarity=0.237  Sum_probs=70.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ..|+++|.||||||||+|+|++.+..       ...+..+|..+......                +...+++|+||||.
T Consensus        73 a~V~ivG~PNvGKSTL~n~Lt~~~~~-------v~~~pftT~~~~~g~~~----------------~~~~~i~l~D~pGl  129 (376)
T 4a9a_A           73 ASVGFVGFPSVGKSTLLSKLTGTESE-------AAEYEFTTLVTVPGVIR----------------YKGAKIQMLDLPGI  129 (376)
T ss_dssp             EEEEEECCCCHHHHHHHHHHHSBCCC-------GGGTCSSCCCEEEEEEE----------------ETTEEEEEEECGGG
T ss_pred             CeEEEECCCCCCHHHHHHHHhCCCCc-------ccCCCCceeeeeeEEEE----------------eCCcEEEEEeCCCc
Confidence            46999999999999999999987642       23333333332211111                11113999999994


Q ss_pred             cc-------hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHH-HHHHHh-----CCCCEEEEEeccccc
Q psy6316         105 ES-------FSNLRNRGSSLCDIAILVVDIMHGLEPQTIES-INILKS-----KKTPFVVALNKIDRL  159 (259)
Q Consensus       105 ~~-------~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~-l~~~~~-----~~~piivv~NK~D~~  159 (259)
                      ..       ........++.||++++|+|++++..  +.+. ...+..     ...|.++++||+|..
T Consensus       130 ~~~a~~~~~~g~~~l~~i~~ad~il~vvD~~~p~~--~~~~i~~EL~~~~~~l~~k~~~i~~nK~d~~  195 (376)
T 4a9a_A          130 IDGAKDGRGRGKQVIAVARTCNLLFIILDVNKPLH--HKQIIEKELEGVGIRLNKTPPDILIKKKEKG  195 (376)
T ss_dssp             CCC-----CHHHHHHHHHHHCSEEEEEEETTSHHH--HHHHHHHHHHHTTEEETCCCCCEEEEECSSS
T ss_pred             cCCchhhhHHHHHHHHHHHhcCccccccccCccHH--HHHHHHHHHHHhhHhhccCChhhhhhHhhhh
Confidence            22       23345566789999999999976422  2222 223332     357888999999974

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.39  E-value=6.8e-14  Score=111.53  Aligned_cols=168  Identities=15%  Similarity=0.104  Sum_probs=86.3

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCcccccc---cc-----ccccCCCC----CCCCCCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRE---NT-----KHVRGPGG----EVGGPGP   90 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~-----~~~~~~~~----~~~~~~~   90 (259)
                      +.++|+++|.+|+|||||+++|+...+...+...+..+.+.+ ........   ..     ........    .......
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~~~~~~~~~~i~~d~~~~-~d~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~  115 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVIAK-FDAERMEKHGAKVVPLNTGKECHLDAHLVGHALEDLN  115 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHHHTTTCCEEEEEEETTTH-HHHHHHHTTTCEEEEEECTTCSSCCHHHHHHHHTTSC
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEECCCCCC-ccHHHHHhcCCcEEEecCCceEeccHHHHHHHHHHHh
Confidence            457799999999999999999987755443333333333210 00000000   00     00000000    0000000


Q ss_pred             CCCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhH
Q psy6316          91 LEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDV  170 (259)
Q Consensus        91 ~~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~  170 (259)
                      ....++.++|++|.....   ..+-...+..+.++|+..+..... ...   ...+.|.++|+||+|+.... ....++.
T Consensus       116 ~~~~d~~~id~~g~i~~~---~s~~~~~~~~~~v~~~~~~~~~~~-~~~---~~~~~~~iiv~NK~Dl~~~~-~~~~~~~  187 (226)
T 2hf9_A          116 LDEIDLLFIENVGNLICP---ADFDLGTHKRIVVISTTEGDDTIE-KHP---GIMKTADLIVINKIDLADAV-GADIKKM  187 (226)
T ss_dssp             GGGCSEEEEECCSCSSGG---GGCCCSCSEEEEEEEGGGCTTTTT-TCH---HHHTTCSEEEEECGGGHHHH-TCCHHHH
T ss_pred             cCCCCEEEEeCCCCccCc---chhhhccCcEEEEEecCcchhhHh-hhh---hHhhcCCEEEEeccccCchh-HHHHHHH
Confidence            111249999999942211   122235567788888643221111 011   11368999999999986321 1122333


Q ss_pred             HHHHhhhhccccccccccccccCcceeEEee
Q psy6316         171 RDIIKSQESSVQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       171 ~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      ...+...  ....+++++||++|.|+++++.
T Consensus       188 ~~~~~~~--~~~~~~~~~Sa~~g~gv~~l~~  216 (226)
T 2hf9_A          188 ENDAKRI--NPDAEVVLLSLKTMEGFDKVLE  216 (226)
T ss_dssp             HHHHHHH--CTTSEEEECCTTTCTTHHHHHH
T ss_pred             HHHHHHh--CCCCeEEEEEecCCCCHHHHHH
Confidence            3333332  1246788999999999987554

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=99.38  E-value=1.2e-13  Score=115.52  Aligned_cols=106  Identities=13%  Similarity=0.104  Sum_probs=69.1

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCC-------CCCC---H-HHHHHHHHHHh----CCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIM-------HGLE---P-QTIESINILKS----KKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~-------~~~~---~-~~~~~l~~~~~----~~~piivv~NK~D~~  159 (259)
                      .+.+|||+|++.++..|..+++.++++|+|+|.+       +..+   . ....++..+..    .+.|+++++||+|+.
T Consensus       168 ~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~~~~iiL~~NK~DL~  247 (327)
T 3ohm_A          168 IFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLL  247 (327)
T ss_dssp             EEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGTTCEEEEEEECHHHH
T ss_pred             eeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccCCceEEEEEECchhh
Confidence            3889999999999999999999999999999775       2211   1 12334444433    468999999999986


Q ss_pred             Cccc---------------ccchhhHHHHHhhh------hccccccccccccccCcceeEEe
Q psy6316         160 YNWN---------------TMNRRDVRDIIKSQ------ESSVQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       160 ~~~~---------------~~~~~~~~~~~~~~------~~~~~~~~i~~Sa~~g~gv~~~l  200 (259)
                      ...-               ....++..+.+...      ....++.++.+||+++.|+...+
T Consensus       248 ~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF  309 (327)
T 3ohm_A          248 EEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVF  309 (327)
T ss_dssp             HHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHH
T ss_pred             hhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHH
Confidence            4210               11222222222111      12234566679999998887644

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.36  E-value=1.7e-13  Score=115.85  Aligned_cols=102  Identities=14%  Similarity=0.089  Sum_probs=57.1

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      ++.|+||||...-..   .....+|++++|+|+..+..   ...+.. .....+.++++||+|+.....  ......+.+
T Consensus       149 ~~iliDT~Gi~~~~~---~v~~~~d~vl~v~d~~~~~~---~~~i~~-~i~~~~~ivvlNK~Dl~~~~~--~s~~~~~~l  219 (337)
T 2qm8_A          149 DVILVETVGVGQSET---AVADLTDFFLVLMLPGAGDE---LQGIKK-GIFELADMIAVNKADDGDGER--RASAAASEY  219 (337)
T ss_dssp             CEEEEEECSSSSCHH---HHHTTSSEEEEEECSCC---------CCT-THHHHCSEEEEECCSTTCCHH--HHHHHHHHH
T ss_pred             CEEEEECCCCCcchh---hHHhhCCEEEEEEcCCCccc---HHHHHH-HHhccccEEEEEchhccCchh--HHHHHHHHH
Confidence            599999999643221   23478999999999864321   110000 001246788889999752110  011112222


Q ss_pred             hhhh---c----cccccccccccccCcceeEEeecCCC
Q psy6316         175 KSQE---S----SVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       175 ~~~~---~----~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      ....   .    .+..+++++||++|.|+++++..+..
T Consensus       220 ~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~  257 (337)
T 2qm8_A          220 RAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIED  257 (337)
T ss_dssp             HHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHH
T ss_pred             HHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHH
Confidence            2211   1    12346778999999999987665543

>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=99.32  E-value=3.8e-13  Score=112.02  Aligned_cols=106  Identities=19%  Similarity=0.126  Sum_probs=76.9

Q ss_pred             eEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCC-CHHH-HHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHH
Q psy6316          96 LLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGL-EPQT-IESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDI  173 (259)
Q Consensus        96 ~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~-~~~~-~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~  173 (259)
                      +.+|||  +++|..++..+++.+|++|+|+|+++.. +... ..++..+...++|+++|+||+|+....   ..++..+.
T Consensus        65 ~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~~~l~~~~~~~~piilv~NK~DL~~~~---~v~~~~~~  139 (301)
T 1u0l_A           65 GVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIIDKFLVLAEKNELETVMVINKMDLYDED---DLRKVREL  139 (301)
T ss_dssp             EEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHHHHHHHHHHTTCEEEEEECCGGGCCHH---HHHHHHHH
T ss_pred             EEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHHHHHHHHHHCCCCEEEEEeHHHcCCch---hHHHHHHH
Confidence            999999  8899999999999999999999999765 4443 345666666789999999999997321   11112222


Q ss_pred             HhhhhccccccccccccccCcceeEEeecCCCCCC
Q psy6316         174 IKSQESSVQTHKTVESARKGQEICIKIEPIPGEAP  208 (259)
Q Consensus       174 ~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~~~  208 (259)
                      .+.+. .. +.++++||++|.|+++++..+..+..
T Consensus       140 ~~~~~-~~-~~~~~~SAktg~gv~~lf~~l~geiv  172 (301)
T 1u0l_A          140 EEIYS-GL-YPIVKTSAKTGMGIEELKEYLKGKIS  172 (301)
T ss_dssp             HHHHT-TT-SCEEECCTTTCTTHHHHHHHHSSSEE
T ss_pred             HHHHh-hh-CcEEEEECCCCcCHHHHHHHhcCCeE
Confidence            22222 12 78889999999999987665554433

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.32  E-value=1.8e-13  Score=117.00  Aligned_cols=151  Identities=11%  Similarity=0.085  Sum_probs=85.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+|+|++.................++.......        .+.           .+.++||||.
T Consensus       161 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~~--------~~~-----------~~~liDtPG~  221 (368)
T 3h2y_A          161 KDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIP--------LDE-----------ESSLYDTPGI  221 (368)
T ss_dssp             SCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEEE--------SSS-----------SCEEEECCCB
T ss_pred             ceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEEEE--------ecC-----------CeEEEeCCCc
Confidence            459999999999999999998875321000111111111222111110        011           2899999994


Q ss_pred             cchH-------H-HHHhh--ccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316         105 ESFS-------N-LRNRG--SSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus       105 ~~~~-------~-~~~~~--~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      ....       . .....  ....+.+++++++...........+..+...+.|+++++||+|...      ..+.....
T Consensus       222 ~~~~~~~~~l~~~~l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~~d~l~~~~~~~~~v~nk~d~~~------~~~~~~~~  295 (368)
T 3h2y_A          222 INHHQMAHYVGKQSLKLITPTKEIKPMVFQLNEEQTLFFSGLARFDYVSGGRRAFTCHFSNRLTIH------RTKLEKAD  295 (368)
T ss_dssp             CCTTSGGGGSCHHHHHHHSCSSCCCCEEEEECTTEEEEETTTEEEEEEESSSEEEEEEECTTSCEE------EEEHHHHH
T ss_pred             CcHHHHHHHhhHHHHHHhccccccCceEEEEcCCCEEEEcceEEEEEecCCCceEEEEecCccccc------cccHHHHH
Confidence            3211       1 11111  3678999999998533222222234445566789999999999984      23334444


Q ss_pred             hhhhccccccccccccccCcceeEEe
Q psy6316         175 KSQESSVQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       175 ~~~~~~~~~~~i~~Sa~~g~gv~~~l  200 (259)
                      +.+.+..+....+.++..+.++..+.
T Consensus       296 ~~~~~~~g~~l~p~~~~~~~~~~~l~  321 (368)
T 3h2y_A          296 ELYKNHAGDLLSPPTPEELENMPELV  321 (368)
T ss_dssp             HHHHHHBTTTBCSSCHHHHHTSCCEE
T ss_pred             HHHHHHhCCccCCCchhhHhhccCcE
Confidence            44444445566667776666665544

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=99.31  E-value=1.9e-12  Score=108.65  Aligned_cols=66  Identities=23%  Similarity=0.185  Sum_probs=51.4

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCC----------CCCCHH-HHHHHHHHHh----CCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIM----------HGLEPQ-TIESINILKS----KKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~----------~~~~~~-~~~~l~~~~~----~~~piivv~NK~D~~  159 (259)
                      .+.+|||+|++.++..|..+++.++++|+|+|.+          +..+.. ...++..+..    .+.|+++++||+|+.
T Consensus       162 ~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~~~piiLv~NK~DL~  241 (340)
T 4fid_A          162 PFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLKGAVKLIFLNKMDLF  241 (340)
T ss_dssp             EEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGTTSEEEEEEECHHHH
T ss_pred             eeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhccCCCeEEEEEECchhh
Confidence            4899999999999999999999999999999997          221221 2334444432    468999999999986


Q ss_pred             C
Q psy6316         160 Y  160 (259)
Q Consensus       160 ~  160 (259)
                      .
T Consensus       242 ~  242 (340)
T 4fid_A          242 E  242 (340)
T ss_dssp             H
T ss_pred             h
Confidence            3

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=99.29  E-value=1.4e-13  Score=117.76  Aligned_cols=150  Identities=14%  Similarity=0.125  Sum_probs=84.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+|+|++........ ........++.......        .+.           .+.++||||.
T Consensus       163 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~-~~~~~~~gtT~~~~~~~--------~~~-----------~~~liDtPG~  222 (369)
T 3ec1_A          163 GDVYVVGCTNVGKSTFINRIIEEATGKGNV-ITTSYFPGTTLDMIEIP--------LES-----------GATLYDTPGI  222 (369)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHHHTTCC-CEEEECTTSSCEEEEEE--------CST-----------TCEEEECCSC
T ss_pred             CcEEEEcCCCCchHHHHHHHHhhccCCccc-eeecCCCCeEEeeEEEE--------eCC-----------CeEEEeCCCc
Confidence            459999999999999999998762111000 11111111221111100        111           2899999994


Q ss_pred             cchH---H-----HHHhhc--cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316         105 ESFS---N-----LRNRGS--SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus       105 ~~~~---~-----~~~~~~--~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      ....   .     .....+  ...|.+++++++...........+..+...+.|+++++||+|.....   ..+...+.+
T Consensus       223 ~~~~~~~~~l~~~~l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~l~~l~~~~~~~~~v~~k~d~~~~~---~~~~~~~~~  299 (369)
T 3ec1_A          223 INHHQMAHFVDARDLKIITPKREIHPRVYQLNEGQTLFFGGLARLDYIKGGRRSFVCYMANELTVHRT---KLEKADSLY  299 (369)
T ss_dssp             CCCSSGGGGSCTTTHHHHSCSSCCCCEEEEECTTEEEEETTTEEEEEEESSSEEEEEEECTTSCEEEE---EGGGHHHHH
T ss_pred             CcHHHHHHHHhHHHHHHHhcccccCceEEEEcCCceEEECCEEEEEEccCCCceEEEEecCCcccccc---cHHHHHHHH
Confidence            3211   1     111122  67899999999853311112223444556678999999999998432   222233333


Q ss_pred             hhhhccccccccccccccCcceeEEe
Q psy6316         175 KSQESSVQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       175 ~~~~~~~~~~~i~~Sa~~g~gv~~~l  200 (259)
                      +   ...+....+.++....++..+.
T Consensus       300 ~---~~~g~~l~p~~~~~~~~~~~l~  322 (369)
T 3ec1_A          300 A---NQLGELLSPPSKRYAAEFPPLV  322 (369)
T ss_dssp             H---HHBTTTBCSSCGGGTTTCCCEE
T ss_pred             H---HhcCCccCCCCchhhhhccCcE
Confidence            3   3334566667777777766544

>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=99.28  E-value=8.8e-12  Score=107.51  Aligned_cols=144  Identities=14%  Similarity=0.092  Sum_probs=78.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +++|+|++|+|||||+|.|++..+....   +..      ............+....        .....++++|+||..
T Consensus        44 ~vaLvG~nGaGKSTLln~L~G~~l~g~~---~~~------~~~~~~~~~i~~v~Q~~--------~l~~~ltv~D~~~~g  106 (427)
T 2qag_B           44 NILCVGETGLGKSTLMDTLFNTKFEGEP---ATH------TQPGVQLQSNTYDLQES--------NVRLKLTIVSTVGFG  106 (427)
T ss_dssp             EEEEECSTTSSSHHHHHHHHTSCC----------------CCSSCEEEEEEEEEEC----------CEEEEEEEEEECCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCccccCCc---CCC------CCccceEeeEEEEeecC--------ccccccchhhhhhhh
Confidence            4899999999999999999987532111   000      00000000001000000        000128999999953


Q ss_pred             ch--------------HHHH----Hhh---------ccC--CC-eEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEec
Q psy6316         106 SF--------------SNLR----NRG---------SSL--CD-IAILVVDIMHGLEPQTIESINILKSKKTPFVVALNK  155 (259)
Q Consensus       106 ~~--------------~~~~----~~~---------~~~--ad-~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK  155 (259)
                      ..              ...+    ...         ...  +| +++|+.|+..+....+.++++.+. .+.|+|+|+||
T Consensus       107 ~~~~~~~~~~~i~~~i~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~Dieilk~L~-~~~~vI~Vi~K  185 (427)
T 2qag_B          107 DQINKEDSYKPIVEFIDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLDLVTMKKLD-SKVNIIPIIAK  185 (427)
T ss_dssp             C-CCHHHHSHHHHHHHHHHHHHHHHHC--CCCCCCCSCC--CCEEEEEECCCC---CHHHHHHHHHTC-SCSEEEEEESC
T ss_pred             hccccchhhhHHHHHHHHHHHHHHHHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHHHHHHHHHh-hCCCEEEEEcc
Confidence            21              1111    111         112  23 366677877788888888888887 78999999999


Q ss_pred             ccccCcccccchhhHHHHHhhhhcccccccccccc
Q psy6316         156 IDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESA  190 (259)
Q Consensus       156 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa  190 (259)
                      +|.+...   +.......+.......++.++.+|.
T Consensus       186 tD~Lt~~---E~~~l~~~I~~~L~~~gi~I~~is~  217 (427)
T 2qag_B          186 ADAISKS---ELTKFKIKITSELVSNGVQIYQFPT  217 (427)
T ss_dssp             GGGSCHH---HHHHHHHHHHHHHBTTBCCCCCCC-
T ss_pred             hhccchH---HHHHHHHHHHHHHHHcCCcEEecCC
Confidence            9998432   2344444455433444666666664

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=99.23  E-value=6.8e-11  Score=96.75  Aligned_cols=123  Identities=18%  Similarity=0.266  Sum_probs=70.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+++++|++|||||||+|.|++......  +.+... + ...+..........+...        ......++++|+||.
T Consensus         3 f~v~lvG~nGaGKSTLln~L~g~~~~~~--G~i~~~-g-~~i~~~~~~~~i~~v~q~--------~~~~~~ltv~d~~~~   70 (270)
T 3sop_A            3 FNIMVVGQSGLGKSTLVNTLFKSQVSRK--ASSWNR-E-EKIPKTVEIKAIGHVIEE--------GGVKMKLTVIDTPGF   70 (270)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHC----------------CCCCCSCCEEEESCC------------CCEEEEECCCC-
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCCCC--CccccC-C-cccCcceeeeeeEEEeec--------CCCcCCceEEechhh
Confidence            4699999999999999999987653211  001000 0 000000000001111100        011123899999993


Q ss_pred             cc----------hHHH--------HHh----------hccCCCeEEEEEeCC-CCCCHHHHHHHHHHHhCCCCEEEEEec
Q psy6316         105 ES----------FSNL--------RNR----------GSSLCDIAILVVDIM-HGLEPQTIESINILKSKKTPFVVALNK  155 (259)
Q Consensus       105 ~~----------~~~~--------~~~----------~~~~ad~~i~v~d~~-~~~~~~~~~~l~~~~~~~~piivv~NK  155 (259)
                      ..          ....        ...          .+..+++.++++|.. .+....+.+.+..+... .++|+|+||
T Consensus        71 g~~~~~~~~~~~i~~~~~~~~~~~~~~~LS~G~~qrv~iaRal~~lllldep~~gL~~lD~~~l~~L~~~-~~vI~Vi~K  149 (270)
T 3sop_A           71 GDQINNENCWEPIEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLDLEFMKHLSKV-VNIIPVIAK  149 (270)
T ss_dssp             -CCSBCTTCSHHHHHHHHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEEECCCSSSCCHHHHHHHHHHHTT-SEEEEEETT
T ss_pred             hhhcccHHHHHHHHHHHHHHHHhhhHHhcCcccchhhhhheeeeeeEEEecCCCcCCHHHHHHHHHHHhc-CcEEEEEec
Confidence            21          0010        011          112368999999965 78888899999999887 999999999


Q ss_pred             ccccC
Q psy6316         156 IDRLY  160 (259)
Q Consensus       156 ~D~~~  160 (259)
                      +|...
T Consensus       150 ~D~lt  154 (270)
T 3sop_A          150 ADTMT  154 (270)
T ss_dssp             GGGSC
T ss_pred             cccCC
Confidence            99884

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=99.17  E-value=2.8e-11  Score=106.88  Aligned_cols=104  Identities=16%  Similarity=0.103  Sum_probs=60.4

Q ss_pred             CeEEEeCCCCcchH----HHHHhh--ccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCE-EEEEecccccCcccccch
Q psy6316          95 GLLIIDTPGHESFS----NLRNRG--SSLCDIAILVVDIMHGLEPQTIESINILKSKKTPF-VVALNKIDRLYNWNTMNR  167 (259)
Q Consensus        95 ~~~liDtpG~~~~~----~~~~~~--~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pi-ivv~NK~D~~~~~~~~~~  167 (259)
                      +++||||||.....    ......  +..+|.+++|+|++.+..  ....+..+.+. .|+ .+|+||+|.....     
T Consensus       185 DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~--~~~~a~~~~~~-~~i~gvVlNK~D~~~~~-----  256 (504)
T 2j37_W          185 EIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQA--CEAQAKAFKDK-VDVASVIVTKLDGHAKG-----  256 (504)
T ss_dssp             CEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTT--HHHHHHHHHHH-HCCCCEEEECTTSCCCC-----
T ss_pred             cEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEecccccc--HHHHHHHHHhh-cCceEEEEeCCccccch-----
Confidence            59999999955321    111111  237899999999988654  33344444433 675 8899999986321     


Q ss_pred             hhHHHHHhhhh-------------ccccc-cccccccccCcc-eeEEeecCCCC
Q psy6316         168 RDVRDIIKSQE-------------SSVQT-HKTVESARKGQE-ICIKIEPIPGE  206 (259)
Q Consensus       168 ~~~~~~~~~~~-------------~~~~~-~~i~~Sa~~g~g-v~~~l~~i~~~  206 (259)
                      .........+.             ....+ +.+++|+..|.| +..+++.+...
T Consensus       257 g~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          257 GGALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             THHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             HHHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            11122111110             00012 334689999999 87766666543

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.04  E-value=2e-10  Score=98.23  Aligned_cols=97  Identities=14%  Similarity=0.144  Sum_probs=47.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCC--cceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAG--GITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      .+|+++|.+|+|||||+|+|++..+.....+  ++....+....+..... .......       |.......+.|||||
T Consensus        23 ~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~-~l~~~~~-------p~~~~~~~i~lvDtp   94 (396)
T 2ohf_A           23 LKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFD-FLCQYHK-------PASKIPAFLNVVDIA   94 (396)
T ss_dssp             CCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEECCCHHHH-HHHHHHC-------CSEEECCEEEEEECC
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccce-eeccccC-------cccccccccEEEECC
Confidence            4499999999999999999998765221111  11111111111100000 0000000       000001129999999


Q ss_pred             CCcchHH-------HHHhhccCCCeEEEEEeCCC
Q psy6316         103 GHESFSN-------LRNRGSSLCDIAILVVDIMH  129 (259)
Q Consensus       103 G~~~~~~-------~~~~~~~~ad~~i~v~d~~~  129 (259)
                      |+.....       .+..+++.+|++++|+|+++
T Consensus        95 Gl~~~as~~~glg~~~l~~ir~aD~Il~VvD~~~  128 (396)
T 2ohf_A           95 GLVKGAHNGQGLGNAFLSHISACDGIFHLTRAFE  128 (396)
T ss_dssp             C-----------CCHHHHHHHTSSSEEEEEEC--
T ss_pred             CcccccchhhHHHHHHHHHHHhcCeEEEEEecCC
Confidence            9765443       45677899999999999975

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=99.03  E-value=3.9e-11  Score=102.03  Aligned_cols=106  Identities=13%  Similarity=0.121  Sum_probs=64.7

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCC----------CCHH-HHHHHHHHHh----CCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG----------LEPQ-TIESINILKS----KKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~----------~~~~-~~~~l~~~~~----~~~piivv~NK~D~~  159 (259)
                      .+.+|||||++.+...|..+++.++++|||+|.++.          .+.. ...++..+..    .+.|+|+++||+|+.
T Consensus       202 ~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~piILv~NK~DL~  281 (362)
T 1zcb_A          202 PFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLL  281 (362)
T ss_dssp             EEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHH
T ss_pred             EEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCCCCEEEEEEChhhh
Confidence            489999999999999999999999999999999872          1222 2334444443    368999999999986


Q ss_pred             Ccc---------------cccchhhHHHHHh----hhhc---cccccccccccccCcceeEEe
Q psy6316         160 YNW---------------NTMNRRDVRDIIK----SQES---SVQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       160 ~~~---------------~~~~~~~~~~~~~----~~~~---~~~~~~i~~Sa~~g~gv~~~l  200 (259)
                      ...               .....++....+.    .+..   ..++.++++||++|.|+...+
T Consensus       282 ~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF  344 (362)
T 1zcb_A          282 EEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVF  344 (362)
T ss_dssp             HHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHH
T ss_pred             hhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHHHH
Confidence            311               0012223332221    1112   235677789999999997744

>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=99.01  E-value=1.2e-09  Score=94.30  Aligned_cols=158  Identities=18%  Similarity=0.234  Sum_probs=90.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ..++++|++|||||||+|.|.+.....  .+.+......++      +.  ..+..         .....+++++|+||.
T Consensus        70 ~~valvG~nGaGKSTLln~L~Gl~~p~--~GsI~~~g~~~t------~~--~~v~q---------~~~~~~ltv~D~~g~  130 (413)
T 1tq4_A           70 LNVAVTGETGSGKSSFINTLRGIGNEE--EGAAKTGVVEVT------ME--RHPYK---------HPNIPNVVFWDLPGI  130 (413)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTCCTTS--TTSCCCCC----------CC--CEEEE---------CSSCTTEEEEECCCG
T ss_pred             eEEEEECCCCCcHHHHHHHHhCCCCcc--CceEEECCeecc------ee--EEecc---------ccccCCeeehHhhcc
Confidence            479999999999999999998853211  111110000000      00  00110         001124899999994


Q ss_pred             cc----hHHHHH-hhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC-c-----ccccchhhHHHH
Q psy6316         105 ES----FSNLRN-RGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY-N-----WNTMNRRDVRDI  173 (259)
Q Consensus       105 ~~----~~~~~~-~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~-~-----~~~~~~~~~~~~  173 (259)
                      ..    ...... ..+...+..++ ++... ...+...+...+...+.|+++|+||.|+.- +     -+.....++.+.
T Consensus       131 ~~~~~~~~~~L~~~~L~~~~~~~~-lS~G~-~~kqrv~la~aL~~~~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~  208 (413)
T 1tq4_A          131 GSTNFPPDTYLEKMKFYEYDFFII-ISATR-FKKNDIDIAKAISMMKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQD  208 (413)
T ss_dssp             GGSSCCHHHHHHHTTGGGCSEEEE-EESSC-CCHHHHHHHHHHHHTTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHH
T ss_pred             cchHHHHHHHHHHcCCCccCCeEE-eCCCC-ccHHHHHHHHHHHhcCCCeEEEEecCcccccCcccccCCHHHHHHHHHH
Confidence            21    222222 12344566555 77644 466777788888888999999999999762 1     112234455555


Q ss_pred             Hhhhh-----cc-c-ccccccccc--ccCcceeEEeecC
Q psy6316         174 IKSQE-----SS-V-QTHKTVESA--RKGQEICIKIEPI  203 (259)
Q Consensus       174 ~~~~~-----~~-~-~~~~i~~Sa--~~g~gv~~~l~~i  203 (259)
                      +.++.     .. . ...+|++|+  .++.|++.+...+
T Consensus       209 l~~l~~~~l~~~g~~~~~iiliSsh~l~~~~~e~L~d~I  247 (413)
T 1tq4_A          209 IRLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKL  247 (413)
T ss_dssp             HHHHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCCcEEEEecCcCCccCHHHHHHHH
Confidence            55543     11 1 235678999  6677787755444

>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=99.00  E-value=6.6e-10  Score=96.62  Aligned_cols=105  Identities=19%  Similarity=0.101  Sum_probs=60.2

Q ss_pred             CCeEEEeCCCCcchHHHHH----h--hccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCC-C-EEEEEecccccCccccc
Q psy6316          94 PGLLIIDTPGHESFSNLRN----R--GSSLCDIAILVVDIMHGLEPQTIESINILKSKKT-P-FVVALNKIDRLYNWNTM  165 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~----~--~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~-p-iivv~NK~D~~~~~~~~  165 (259)
                      .+++|+||||.........    .  .+..+|.+++|+|++.+.  .....+..+.. .. | ..+|+||+|....    
T Consensus       181 ~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~--~~~~~~~~~~~-~~~~i~gvVlnK~D~~~~----  253 (432)
T 2v3c_C          181 ADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQ--QAGIQAKAFKE-AVGEIGSIIVTKLDGSAK----  253 (432)
T ss_dssp             CSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGG--GHHHHHHHHHT-TSCSCEEEEEECSSSCST----
T ss_pred             CCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccH--HHHHHHHHHhh-cccCCeEEEEeCCCCccc----
Confidence            3599999999554322111    1  223689999999997653  22333333333 35 6 7899999998531    


Q ss_pred             chhhHHHHHhhhhcc-------------ccc-cccccccccCcc-eeEEeecCCCC
Q psy6316         166 NRRDVRDIIKSQESS-------------VQT-HKTVESARKGQE-ICIKIEPIPGE  206 (259)
Q Consensus       166 ~~~~~~~~~~~~~~~-------------~~~-~~i~~Sa~~g~g-v~~~l~~i~~~  206 (259)
                       ..............             ..+ +..++|+..|.| +..+++.+...
T Consensus       254 -~g~~l~~~~~~~~pi~~ig~Ge~~~dl~~f~~~~~~s~l~g~gdi~~L~e~~~~~  308 (432)
T 2v3c_C          254 -GGGALSAVAETKAPIKFIGIGEGIDDLEPFDPKKFISRLLGMGDLESLLEKAEDM  308 (432)
T ss_dssp             -THHHHHHHHHSSCCEEEECCSSSSSSCCBCCHHHHHHHHTCSSCSSTTSSTTTSC
T ss_pred             -hHHHHHHHHHHCCCEEEeecCccccccccCCHHHHHHHHcCCCcHHHHHHHHHHH
Confidence             11222222221110             011 234689999999 88766666444

>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=98.97  E-value=2.8e-10  Score=88.17  Aligned_cols=109  Identities=11%  Similarity=-0.047  Sum_probs=67.3

Q ss_pred             eEEEeCC------CCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHH----HHHHh----CCCCEEEEEecc-cccC
Q psy6316          96 LLIIDTP------GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESI----NILKS----KKTPFVVALNKI-DRLY  160 (259)
Q Consensus        96 ~~liDtp------G~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l----~~~~~----~~~piivv~NK~-D~~~  160 (259)
                      +-...+|      ||..++..|..|+..+|++|||+|+++.......+-+    ..+.+    .+.|++|++||. |+..
T Consensus        98 ~~~~~~~~~~~~GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~eak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~  177 (227)
T 3l82_B           98 MFSRHNEGDDQQGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVK  177 (227)
T ss_dssp             -------------------CCHHHHHHHCSEEEEEEECBTTCCCCHHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSC
T ss_pred             cccccCCCccccCcHHHHHHHHHHHhcCCCEEEEEeccccHhHHHHHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccC
Confidence            4455565      6888999999999999999999999876332233322    22222    468999999995 6653


Q ss_pred             cccccchhhHHHHHhhhhccccccccccccccCcceeEEeecCCCCC
Q psy6316         161 NWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICIKIEPIPGEA  207 (259)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~~~  207 (259)
                      .   ....++.+.+....-...|.+..+||++|+|+.+-++++....
T Consensus       178 A---ms~~EI~e~L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l  221 (227)
T 3l82_B          178 R---MPCFYLAHELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEV  221 (227)
T ss_dssp             B---CCHHHHHHHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTT
T ss_pred             C---CCHHHHHHHcCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHH
Confidence            2   3445566555443323578899999999999998777665443

>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=98.97  E-value=8.9e-11  Score=99.49  Aligned_cols=65  Identities=18%  Similarity=0.122  Sum_probs=51.3

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCC----------CCCCHHH-HHHHHHHHh----CCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIM----------HGLEPQT-IESINILKS----KKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~----------~~~~~~~-~~~l~~~~~----~~~piivv~NK~D~~  159 (259)
                      .+.+|||+|++.+...|..+++.++++|+|+|.+          +..+..+ ..++..+..    .+.|+++++||+|+.
T Consensus       184 ~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~DL~  263 (354)
T 2xtz_A          184 VYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKFDIF  263 (354)
T ss_dssp             EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHH
T ss_pred             eeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECcchh
Confidence            4999999999999999999999999999999987          2222222 334444443    468999999999985

>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=98.93  E-value=3.3e-10  Score=97.24  Aligned_cols=65  Identities=17%  Similarity=0.135  Sum_probs=52.3

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCC----------CCCHHH-HHHHHHHHh----CCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMH----------GLEPQT-IESINILKS----KKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~----------~~~~~~-~~~l~~~~~----~~~piivv~NK~D~~  159 (259)
                      .+.+|||+|++.+...|..+++.++++|+|+|.++          ..+..+ ..++..+..    .+.|+++++||+|+.
T Consensus       218 ~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~~piiLvgNK~DL~  297 (402)
T 1azs_C          218 NFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLL  297 (402)
T ss_dssp             EEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSSCCEEEEEECHHHH
T ss_pred             cceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCCCeEEEEEEChhhh
Confidence            48899999999999999999999999999999987          333322 335555543    358999999999985

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=98.89  E-value=3.8e-09  Score=91.53  Aligned_cols=93  Identities=16%  Similarity=0.108  Sum_probs=55.0

Q ss_pred             CCeEEEeCCCCcchHHHHH------hhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccch
Q psy6316          94 PGLLIIDTPGHESFSNLRN------RGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNR  167 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~------~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~  167 (259)
                      .+++|+||||.........      .....+|.+++|+|++.+.  ........+.+...+..+|+||+|....     .
T Consensus       183 ~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq--~a~~~a~~f~~~~~i~gVIlTKlD~~~~-----g  255 (443)
T 3dm5_A          183 VDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQ--QAYNQALAFKEATPIGSIIVTKLDGSAK-----G  255 (443)
T ss_dssp             CSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGG--GHHHHHHHHHHSCTTEEEEEECCSSCSS-----H
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCch--hHHHHHHHHHhhCCCeEEEEECCCCccc-----c
Confidence            3599999999432211111      1234679999999998743  2344455555555566789999998632     1


Q ss_pred             hhHHHHHhhhhccccccccccccccCcceeEE
Q psy6316         168 RDVRDIIKSQESSVQTHKTVESARKGQEICIK  199 (259)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~  199 (259)
                      ........    ..+.++.+++.  |++++.+
T Consensus       256 G~~ls~~~----~~g~PI~fig~--Ge~vddL  281 (443)
T 3dm5_A          256 GGALSAVA----ATGAPIKFIGT--GEKIDDI  281 (443)
T ss_dssp             HHHHHHHH----TTCCCEEEEEC--SSSTTCE
T ss_pred             cHHHHHHH----HHCCCEEEEEc--CCChHHh
Confidence            11222221    23456666664  8888553

>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=98.85  E-value=1.1e-09  Score=91.03  Aligned_cols=100  Identities=18%  Similarity=0.061  Sum_probs=70.2

Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCC-CHHH-HHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGL-EPQT-IESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~-~~~~-~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      ++++..+...++..+|++++|+|++++. +... ..++..+...++|+++|+||+|+....   .. .............
T Consensus        66 ~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~~~~~~ilV~NK~DL~~~~---~v-~~~~~~~~~~~~~  141 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEYFKVEPVIVFNKIDLLNEE---EK-KELERWISIYRDA  141 (302)
T ss_dssp             CCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHHTTCEEEEEECCGGGCCHH---HH-HHHHHHHHHHHHT
T ss_pred             CChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHhCCCCEEEEEEcccCCCcc---cc-HHHHHHHHHHHHC
Confidence            6666666667899999999999998764 5554 346666777889999999999997321   00 1122233333344


Q ss_pred             cccccccccccCcceeEEeecCCCCC
Q psy6316         182 QTHKTVESARKGQEICIKIEPIPGEA  207 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i~~~~  207 (259)
                      +.+++++||++|.|+++++..+....
T Consensus       142 g~~~~~~SA~~g~gi~~L~~~l~G~i  167 (302)
T 2yv5_A          142 GYDVLKVSAKTGEGIDELVDYLEGFI  167 (302)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHTTTCE
T ss_pred             CCeEEEEECCCCCCHHHHHhhccCcE
Confidence            67889999999999988766655443

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=98.81  E-value=6.9e-09  Score=88.87  Aligned_cols=97  Identities=14%  Similarity=0.164  Sum_probs=53.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcccc-CCCCCC--cceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNV-QDGEAG--GITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~-~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      .+|+++|++|||||||+|+|++..+ .....+  ++....+....+-.+......... ..       ......+.+||+
T Consensus        21 ~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~-~~-------~~v~~~i~lvD~   92 (392)
T 1ni3_A           21 LKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYK-PK-------SRVPAFLTVFDI   92 (392)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHC-CS-------EEECEEEEEECT
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcc-cc-------cccCcceEEEec
Confidence            4699999999999999999998764 221111  111111211111000000000000 00       000002899999


Q ss_pred             CCCc-------chHHHHHhhccCCCeEEEEEeCCC
Q psy6316         102 PGHE-------SFSNLRNRGSSLCDIAILVVDIMH  129 (259)
Q Consensus       102 pG~~-------~~~~~~~~~~~~ad~~i~v~d~~~  129 (259)
                      ||..       .+...+...++.+|++++|+|+.+
T Consensus        93 pGl~~~~s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           93 AGLTKGASTGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             GGGCCCCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cccccCCcHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            9932       244456677889999999999864

>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=98.73  E-value=4.6e-09  Score=85.28  Aligned_cols=99  Identities=12%  Similarity=-0.070  Sum_probs=68.5

Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHH----HHH---H-hCCCCEEEEEec-ccccCcccccchhhHHH
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESI----NIL---K-SKKTPFVVALNK-IDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l----~~~---~-~~~~piivv~NK-~D~~~~~~~~~~~~~~~  172 (259)
                      .||..++..|..|++.+|++|||+|+++.......+-+    ..+   . ..+.|++|++|| .|+...   ....++.+
T Consensus       195 GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~A---ms~~EI~e  271 (312)
T 3l2o_B          195 GSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR---MPCFYLAH  271 (312)
T ss_dssp             --CCCCCHHHHHHHHHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCB---CCHHHHHH
T ss_pred             CCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCC---CCHHHHHH
Confidence            46899999999999999999999999876432222211    222   1 257899999997 577633   24455555


Q ss_pred             HHhhhhccccccccccccccCcceeEEeecC
Q psy6316         173 IIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       173 ~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+....-...|.+..+||.+|+|+.+-++.+
T Consensus       272 ~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL  302 (312)
T 3l2o_B          272 ELHLNLLNHPWLVQDTEAETLTGFLNGIEWI  302 (312)
T ss_dssp             HTTGGGGCSCEEEEEEETTTCTTHHHHHHHH
T ss_pred             HcCCccCCCcEEEEecccCCCcCHHHHHHHH
Confidence            5544332357888999999999998755443

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=98.68  E-value=3.1e-08  Score=85.83  Aligned_cols=92  Identities=16%  Similarity=0.160  Sum_probs=53.8

Q ss_pred             CCeEEEeCCCCcc------hHHHHHh--hccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCccccc
Q psy6316          94 PGLLIIDTPGHES------FSNLRNR--GSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTM  165 (259)
Q Consensus        94 ~~~~liDtpG~~~------~~~~~~~--~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~  165 (259)
                      .++.|+||||...      +......  ..-..|.+++|+|++.+.  ........+.+.-.+..+|+||+|....    
T Consensus       180 ~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq--~a~~~a~~f~~~~~~~gVIlTKlD~~a~----  253 (433)
T 3kl4_A          180 MDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQ--KAYDLASRFHQASPIGSVIITKMDGTAK----  253 (433)
T ss_dssp             CSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGG--GGHHHHHHHHHHCSSEEEEEECGGGCSC----
T ss_pred             CCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccch--HHHHHHHHHhcccCCcEEEEeccccccc----
Confidence            3599999999533      1111111  122569999999998642  2334455555444567889999998631    


Q ss_pred             chhhHHHHHhhhhccccccccccccccCcceeE
Q psy6316         166 NRRDVRDIIKSQESSVQTHKTVESARKGQEICI  198 (259)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~  198 (259)
                       ..........    .+.++.+++.  |++++.
T Consensus       254 -~G~als~~~~----~g~Pi~fig~--Ge~v~d  279 (433)
T 3kl4_A          254 -GGGALSAVVA----TGATIKFIGT--GEKIDE  279 (433)
T ss_dssp             -HHHHHHHHHH----HTCEEEEEEC--CSSSSC
T ss_pred             -chHHHHHHHH----HCCCEEEEEC--CCChHh
Confidence             1222222222    2456666664  777754

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=98.62  E-value=4e-08  Score=88.21  Aligned_cols=26  Identities=27%  Similarity=0.500  Sum_probs=23.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ...|+|+|.+|+|||||+|+|++...
T Consensus        38 ~~~VaivG~pnvGKStLiN~L~g~~~   63 (592)
T 1f5n_A           38 MVVVAIVGLYRTGKSYLMNKLAGKKK   63 (592)
T ss_dssp             EEEEEEEEBTTSSHHHHHHHHTTCSS
T ss_pred             CcEEEEECCCCCCHHHHHHhHcCCCC
Confidence            45699999999999999999998753

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=98.62  E-value=1.2e-07  Score=78.53  Aligned_cols=62  Identities=18%  Similarity=0.213  Sum_probs=41.2

Q ss_pred             CeEEEeCCCCcc--hHHHHH------hhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEeccccc
Q psy6316          95 GLLIIDTPGHES--FSNLRN------RGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~--~~~~~~------~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~  159 (259)
                      +++|+||||...  ......      ..+..+|.+++|+|++.+  ......+..+.. ..| ..+|+||+|..
T Consensus       182 D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g--~~~~~~~~~~~~-~~~i~gvVlnk~D~~  252 (297)
T 1j8m_F          182 EIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIG--QKAYDLASKFNQ-ASKIGTIIITKMDGT  252 (297)
T ss_dssp             SEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGG--GGHHHHHHHHHH-TCTTEEEEEECGGGC
T ss_pred             CEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCch--HHHHHHHHHHHh-hCCCCEEEEeCCCCC
Confidence            599999999665  322111      234578999999998753  233444444444 466 67899999975

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.58  E-value=4e-08  Score=80.75  Aligned_cols=95  Identities=21%  Similarity=0.169  Sum_probs=61.4

Q ss_pred             EEeCCCCc-chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316          98 IIDTPGHE-SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus        98 liDtpG~~-~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      +-..|||- .....+...+..+|++++|+|+.++.+.....+-..+  .++|.++|+||+|+..      ...... ..+
T Consensus         3 i~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l--~~kp~ilVlNK~DL~~------~~~~~~-~~~   73 (282)
T 1puj_A            3 IQWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL--KNKPRIMLLNKADKAD------AAVTQQ-WKE   73 (282)
T ss_dssp             ------CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC--SSSCEEEEEECGGGSC------HHHHHH-HHH
T ss_pred             CcCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH--CCCCEEEEEECcccCC------HHHHHH-HHH
Confidence            34578975 4556677788999999999999987665433332222  5799999999999973      222222 222


Q ss_pred             hhccccccccccccccCcceeEEee
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      +....+.+++++||++|.|+.+++.
T Consensus        74 ~~~~~g~~~i~iSA~~~~gi~~L~~   98 (282)
T 1puj_A           74 HFENQGIRSLSINSVNGQGLNQIVP   98 (282)
T ss_dssp             HHHTTTCCEEECCTTTCTTGGGHHH
T ss_pred             HHHhcCCcEEEEECCCcccHHHHHH
Confidence            3333356788999999999977543

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.55  E-value=1.8e-08  Score=86.07  Aligned_cols=103  Identities=16%  Similarity=0.130  Sum_probs=66.2

Q ss_pred             eEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316          96 LLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus        96 ~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      +.-++++ +++|.+.+..+.+.++++++|+|+++.......++...+  .++|+++|+||+|+....  ...+...+.+.
T Consensus        51 ~~~v~~~-~e~f~~~L~~~~~~~~lil~VvD~~d~~~s~~~~l~~~l--~~~piilV~NK~DLl~~~--~~~~~~~~~l~  125 (369)
T 3ec1_A           51 VQDVPLD-DDDFLSMLHRIGESKALVVNIVDIFDFNGSFIPGLPRFA--ADNPILLVGNKADLLPRS--VKYPKLLRWMR  125 (369)
T ss_dssp             ---------CHHHHHHHHHHHHCCEEEEEEETTCSGGGCCSSHHHHC--TTSCEEEEEECGGGSCTT--CCHHHHHHHHH
T ss_pred             ccCCcCC-HHHHHHHHHHhhccCcEEEEEEECCCCCCchhhHHHHHh--CCCCEEEEEEChhcCCCc--cCHHHHHHHHH
Confidence            5555555 788999998888999999999999875432211222222  378999999999997421  12234445555


Q ss_pred             hhhccccc---cccccccccCcceeEEeecC
Q psy6316         176 SQESSVQT---HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       176 ~~~~~~~~---~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ......+.   .++.+||++|.|+++++..+
T Consensus       126 ~~~~~~g~~~~~v~~iSA~~g~gi~~L~~~I  156 (369)
T 3ec1_A          126 RMAEELGLCPVDVCLVSAAKGIGMAKVMEAI  156 (369)
T ss_dssp             HHHHTTTCCCSEEEECBTTTTBTHHHHHHHH
T ss_pred             HHHHHcCCCcccEEEEECCCCCCHHHHHHHH
Confidence            44444454   56789999999999876655

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.52  E-value=8.2e-08  Score=78.89  Aligned_cols=26  Identities=23%  Similarity=0.558  Sum_probs=22.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ..+|+++|.||+|||||+|+|.+...
T Consensus       120 ~~~v~~vG~~nvGKSsliN~l~~~~~  145 (282)
T 1puj_A          120 AIRALIIGIPNVGKSTLINRLAKKNI  145 (282)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCC
T ss_pred             CceEEEEecCCCchHHHHHHHhcCce
Confidence            34699999999999999999998764

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=98.50  E-value=1.9e-07  Score=84.68  Aligned_cols=68  Identities=19%  Similarity=0.240  Sum_probs=43.0

Q ss_pred             CCeEEEeCCCCc-------------chHHHHHhhccC-CCeEEEEEeCCCCCC-HHHHHHHHHHHhCCCCEEEEEecccc
Q psy6316          94 PGLLIIDTPGHE-------------SFSNLRNRGSSL-CDIAILVVDIMHGLE-PQTIESINILKSKKTPFVVALNKIDR  158 (259)
Q Consensus        94 ~~~~liDtpG~~-------------~~~~~~~~~~~~-ad~~i~v~d~~~~~~-~~~~~~l~~~~~~~~piivv~NK~D~  158 (259)
                      .++.++|.||..             ....+...++.. ..++++++++..... ......+..+...+.+.|+|+||.|+
T Consensus       147 p~LlLlDePGi~~~~t~~LD~~~~~~i~~li~~~l~~~~~iil~vvt~~~d~a~~~~l~la~~v~~~g~rtI~VlTK~Dl  226 (608)
T 3szr_A          147 PDLTLIDLPGITRVAVGNQPADIGYKIKTLIKKYIQRQETISLVVVPSNVDIATTEALSMAQEVDPEGDRTIGILTKPDL  226 (608)
T ss_dssp             CCEEEEECCC------CCSSCSHHHHHHHHHHHHTTSSSCCEEEEEESSSCTTTCHHHHHHHHHCSSCCSEEEEEECGGG
T ss_pred             CceeEeeCCCccccccCCCCHHHHHHHHHHHHHHHhcCCCCceEEEeccchhccHHHHHHHHHHhhcCCceEEEecchhh
Confidence            359999999722             122334444443 456666666543322 23455667777778899999999999


Q ss_pred             cCc
Q psy6316         159 LYN  161 (259)
Q Consensus       159 ~~~  161 (259)
                      ...
T Consensus       227 v~~  229 (608)
T 3szr_A          227 VDK  229 (608)
T ss_dssp             SSS
T ss_pred             cCc
Confidence            854

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.43  E-value=3.5e-08  Score=84.18  Aligned_cols=101  Identities=17%  Similarity=0.155  Sum_probs=65.8

Q ss_pred             eEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHh--CCCCEEEEEecccccCcccccchhhHHHH
Q psy6316          96 LLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKS--KKTPFVVALNKIDRLYNWNTMNRRDVRDI  173 (259)
Q Consensus        96 ~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~~~~~~  173 (259)
                      +.-++++ .++|.+.+..+.+.+|++++|+|+++.    ...+...+.+  .++|+++|+||+|+....  ...+...+.
T Consensus        49 ~~~v~~~-~e~f~~~l~~i~~~~~~il~VvD~~d~----~~~~~~~l~~~~~~~p~ilV~NK~DL~~~~--~~~~~~~~~  121 (368)
T 3h2y_A           49 IQDVSLT-DDDFLRILNGIGKSDALVVKIVDIFDF----NGSWLPGLHRFVGNNKVLLVGNKADLIPKS--VKHDKVKHW  121 (368)
T ss_dssp             --------CHHHHHHHHHHHHSCCEEEEEEETTSH----HHHCCTTHHHHSSSSCEEEEEECGGGSCTT--SCHHHHHHH
T ss_pred             cccCCCC-HHHHHHHHHHHhccCcEEEEEEECCCC----cccHHHHHHHHhCCCcEEEEEEChhcCCcc--cCHHHHHHH
Confidence            3444443 577888888889999999999999763    2222222222  378999999999997421  122344444


Q ss_pred             Hhhhhccccc---cccccccccCcceeEEeecC
Q psy6316         174 IKSQESSVQT---HKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       174 ~~~~~~~~~~---~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +.......+.   .++.+||++|.|+++++..+
T Consensus       122 l~~~~~~~g~~~~~v~~iSA~~g~gi~~L~~~l  154 (368)
T 3h2y_A          122 MRYSAKQLGLKPEDVFLISAAKGQGIAELADAI  154 (368)
T ss_dssp             HHHHHHHTTCCCSEEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHHHHcCCCcccEEEEeCCCCcCHHHHHhhh
Confidence            4444444455   67889999999999877655

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.40  E-value=2.1e-07  Score=75.64  Aligned_cols=24  Identities=33%  Similarity=0.580  Sum_probs=22.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhcccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      +++++|.+|+|||||+|+|.+...
T Consensus       101 ~v~~vG~~~vGKSslin~l~~~~~  124 (262)
T 3cnl_A          101 RVLIVGVPNTGKSTIINKLKGKRA  124 (262)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTTCC
T ss_pred             heEEeCCCCCCHHHHHHHHhcccc
Confidence            699999999999999999997765

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.23  E-value=2.2e-07  Score=75.46  Aligned_cols=93  Identities=11%  Similarity=0.088  Sum_probs=58.4

Q ss_pred             CCCCcc-hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         101 TPGHES-FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       101 tpG~~~-~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      -|||.. ........+..+|+++.|+|+.++........ ..+   ++|.++|+||+|+...      ......+. ...
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~~l-~ll---~k~~iivlNK~DL~~~------~~~~~~~~-~~~   72 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAYGV-DFS---RKETIILLNKVDIADE------KTTKKWVE-FFK   72 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCTTS-CCT---TSEEEEEEECGGGSCH------HHHHHHHH-HHH
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcChHH-Hhc---CCCcEEEEECccCCCH------HHHHHHHH-HHH
Confidence            377543 33456678899999999999987655432221 112   8999999999999832      22222222 222


Q ss_pred             cccccccccccccCcceeEEeecCCC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      ..+.++ .+||++|.|++.++..+..
T Consensus        73 ~~g~~v-~iSa~~~~gi~~L~~~l~~   97 (262)
T 3cnl_A           73 KQGKRV-ITTHKGEPRKVLLKKLSFD   97 (262)
T ss_dssp             HTTCCE-EECCTTSCHHHHHHHHCCC
T ss_pred             HcCCeE-EEECCCCcCHHHHHHHHHH
Confidence            234566 9999999999876665544

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=98.20  E-value=3.3e-06  Score=73.36  Aligned_cols=62  Identities=24%  Similarity=0.304  Sum_probs=38.5

Q ss_pred             CeEEEeCCCCcchHHHHH------hhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRN------RGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~------~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~  159 (259)
                      +++|+||||.........      ..+..+|.+++|+|+..+..  ....+..+.. ..+ .-+|+||+|..
T Consensus       185 D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~~--~~~~~~~f~~-~l~i~gvVlnK~D~~  253 (433)
T 2xxa_A          185 DVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQD--AANTAKAFNE-ALPLTGVVLTKVDGD  253 (433)
T ss_dssp             SEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCTT--HHHHHHHHHH-HSCCCCEEEECTTSS
T ss_pred             CEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhHH--HHHHHHHHhc-cCCCeEEEEecCCCC
Confidence            599999999544322111      12447899999999986532  2333333332 244 34689999975

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=98.09  E-value=2.3e-06  Score=70.84  Aligned_cols=87  Identities=10%  Similarity=0.135  Sum_probs=57.0

Q ss_pred             hhccCCCeEEEEEeCCCCCCHHH-H-HHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhcccccccccccc
Q psy6316         113 RGSSLCDIAILVVDIMHGLEPQT-I-ESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESA  190 (259)
Q Consensus       113 ~~~~~ad~~i~v~d~~~~~~~~~-~-~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa  190 (259)
                      ..+..+|.+++|+|+..+....+ . +++......++|.++|+||+|+....   ...+..+.+.......+.+++.+||
T Consensus        82 ~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~~~~~~~vivlnK~DL~~~~---~~~~~~~~~~~~y~~~g~~v~~~sa  158 (307)
T 1t9h_A           82 PPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEANDIQPIICITKMDLIEDQ---DTEDTIQAYAEDYRNIGYDVYLTSS  158 (307)
T ss_dssp             TTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHTTTCEEEEEEECGGGCCCH---HHHHHHHHHHHHHHHHTCCEEECCH
T ss_pred             HHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHHHCCCCEEEEEECCccCchh---hhHHHHHHHHHHHHhCCCeEEEEec
Confidence            46789999999999986543333 2 23444456789999999999997421   0001123333333344678889999


Q ss_pred             ccCcceeEEeec
Q psy6316         191 RKGQEICIKIEP  202 (259)
Q Consensus       191 ~~g~gv~~~l~~  202 (259)
                      .+|.|++.++..
T Consensus       159 ~~~~g~~~L~~~  170 (307)
T 1t9h_A          159 KDQDSLADIIPH  170 (307)
T ss_dssp             HHHTTCTTTGGG
T ss_pred             CCCCCHHHHHhh
Confidence            999998764443

>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=98.06  E-value=2.9e-06  Score=71.04  Aligned_cols=91  Identities=16%  Similarity=0.151  Sum_probs=49.6

Q ss_pred             CeEEEeCCCCcc----hHHHHHh--hccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchh
Q psy6316          95 GLLIIDTPGHES----FSNLRNR--GSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRR  168 (259)
Q Consensus        95 ~~~liDtpG~~~----~~~~~~~--~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~  168 (259)
                      ++.++||+|...    +...+..  ..-..|-.++++|++.+.  +....+..+.+......+++||.|....     .-
T Consensus       213 d~vliDtaG~~~~~~~l~~eL~~i~ral~~de~llvLDa~t~~--~~~~~~~~~~~~~~it~iilTKlD~~a~-----~G  285 (328)
T 3e70_C          213 DVVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAGN--AIVEQARQFNEAVKIDGIILTKLDADAR-----GG  285 (328)
T ss_dssp             SEEEEEECCSCCTTTCHHHHHHHHHHHHCCSEEEEEEEGGGTT--HHHHHHHHHHHHSCCCEEEEECGGGCSC-----CH
T ss_pred             hhhHHhhccchhHHHHHHHHHHHHHHHhcCCCCEEEEecHHHH--HHHHHHHHHHHhcCCCEEEEeCcCCccc-----hh
Confidence            488999999432    1111111  112478999999987652  3344445554332334677999997521     12


Q ss_pred             hHHHHHhhhhccccccccccccccCcceeE
Q psy6316         169 DVRDIIKSQESSVQTHKTVESARKGQEICI  198 (259)
Q Consensus       169 ~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~  198 (259)
                      .......    ..+.++.+++  .|++++.
T Consensus       286 ~~l~~~~----~~~~pi~~i~--~Ge~v~d  309 (328)
T 3e70_C          286 AALSISY----VIDAPILFVG--VGQGYDD  309 (328)
T ss_dssp             HHHHHHH----HHTCCEEEEE--CSSSTTC
T ss_pred             HHHHHHH----HHCCCEEEEe--CCCCccc
Confidence            2222222    2245555555  6766644

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=98.04  E-value=1e-05  Score=67.59  Aligned_cols=24  Identities=33%  Similarity=0.396  Sum_probs=20.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...|+++|.+|+||||++..|.+.
T Consensus       105 ~~vI~ivG~~G~GKTT~~~~LA~~  128 (320)
T 1zu4_A          105 LNIFMLVGVNGTGKTTSLAKMANY  128 (320)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            456999999999999999999654

>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=98.01  E-value=6.3e-06  Score=72.24  Aligned_cols=24  Identities=29%  Similarity=0.481  Sum_probs=21.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...|+|+|.+|+|||||++.|.+.
T Consensus       293 GeVI~LVGpNGSGKTTLl~~LAgl  316 (503)
T 2yhs_A          293 PFVILMVGVNGVGKTTTIGKLARQ  316 (503)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCcccHHHHHHHHHHH
Confidence            346999999999999999999764

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=98.01  E-value=2e-05  Score=61.11  Aligned_cols=62  Identities=15%  Similarity=0.104  Sum_probs=46.7

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhC-----CCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSK-----KTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~-----~~piivv~NK~D~~  159 (259)
                      +++|+|||+..  .......+..+|.+++++.++... ......+..+...     +.++.+|+|++|..
T Consensus        77 D~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~  143 (206)
T 4dzz_A           77 DFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPLD-FSAAGSVVTVLEAQAYSRKVEARFLITRKIEM  143 (206)
T ss_dssp             SEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTTT-HHHHHHHHHHHTTSCGGGCCEEEEEECSBCTT
T ss_pred             CEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHHH-HHHHHHHHHHHHHHHhCCCCcEEEEEeccCCC
Confidence            49999999865  345556777899999999987655 5555666666654     35778999999954

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=98.00  E-value=1.2e-05  Score=69.51  Aligned_cols=62  Identities=24%  Similarity=0.343  Sum_probs=37.1

Q ss_pred             CeEEEeCCCCcchHH-HHH-----hhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSN-LRN-----RGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~-~~~-----~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~  159 (259)
                      +++|+||||...... ...     ...-.+|.+++|+|+..+  ......+..+... .+ .-+|+||+|..
T Consensus       182 DvVIIDTaG~l~~d~~l~~el~~i~~~~~pd~vlLVvDa~tg--q~av~~a~~f~~~-l~i~GVIlTKlD~~  250 (425)
T 2ffh_A          182 DLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTG--QEALSVARAFDEK-VGVTGLVLTKLDGD  250 (425)
T ss_dssp             SEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGT--THHHHHHHHHHHH-TCCCEEEEESGGGC
T ss_pred             CEEEEcCCCcccccHHHHHHHHHhhhccCCceEEEEEeccch--HHHHHHHHHHHhc-CCceEEEEeCcCCc
Confidence            599999999543221 111     112358999999998754  2223333333332 33 45789999975

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=97.92  E-value=2.3e-05  Score=68.14  Aligned_cols=27  Identities=26%  Similarity=0.294  Sum_probs=24.0

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..+...|+|+|++++|||||+|.|++.
T Consensus        64 ~~~v~vVsV~G~~~~GKStLLN~llg~   90 (447)
T 3q5d_A           64 DKEVVAVSVAGAFRKGKSFLMDFMLRY   90 (447)
T ss_dssp             TSBEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHhhh
Confidence            456788999999999999999999875

>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=97.90  E-value=1.8e-05  Score=65.63  Aligned_cols=25  Identities=32%  Similarity=0.379  Sum_probs=21.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ...|+++|++|+||||++..|.+..
T Consensus       104 ~~vi~ivG~~GsGKTTl~~~LA~~l  128 (306)
T 1vma_A          104 PFVIMVVGVNGTGKTTSCGKLAKMF  128 (306)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHHHH
Confidence            4469999999999999999997543

>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=97.86  E-value=3.1e-05  Score=63.87  Aligned_cols=25  Identities=28%  Similarity=0.478  Sum_probs=21.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ...|+++|++|+||||++..|.+..
T Consensus       105 g~vi~lvG~~GsGKTTl~~~LA~~l  129 (296)
T 2px0_A          105 SKYIVLFGSTGAGKTTTLAKLAAIS  129 (296)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4579999999999999999997543

>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=97.83  E-value=3.3e-05  Score=63.99  Aligned_cols=24  Identities=38%  Similarity=0.499  Sum_probs=21.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...|+++|++||||||+++.|.+.
T Consensus       102 g~vi~lvG~nGsGKTTll~~Lagl  125 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLGRY  125 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHH
Confidence            346999999999999999999754

>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=97.75  E-value=4.7e-05  Score=62.81  Aligned_cols=63  Identities=22%  Similarity=0.288  Sum_probs=36.5

Q ss_pred             CCeEEEeCCCCcchHHH-HHh-----hccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEeccccc
Q psy6316          94 PGLLIIDTPGHESFSNL-RNR-----GSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRL  159 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~-~~~-----~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~  159 (259)
                      .++.|+||||....... +..     ..-.+|.+++|+|+..+  ......+..+... .+ .-+|+||+|..
T Consensus       181 ~D~viiDtpp~~~~d~~~~~~l~~~~~~~~~~~~~lv~~~~~~--~~~~~~~~~~~~~-~~i~givlnk~d~~  250 (295)
T 1ls1_A          181 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTG--QEALSVARAFDEK-VGVTGLVLTKLDGD  250 (295)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGT--HHHHHHHHHHHHH-TCCCEEEEECGGGC
T ss_pred             CCEEEEeCCCCccccHHHHHHHHHHhhhcCCCEEEEEEeCCCc--HHHHHHHHHHhhc-CCCCEEEEECCCCC
Confidence            35999999984322111 111     11258889999998743  2333333333322 33 45789999975

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=97.60  E-value=8.5e-05  Score=57.99  Aligned_cols=63  Identities=17%  Similarity=0.165  Sum_probs=44.3

Q ss_pred             CeEEEeCCCC-cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhC-CCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGH-ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSK-KTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~-~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~-~~piivv~NK~D~~  159 (259)
                      +++++|||+. ..  ......+..+|.+|+++.++..........+..+... +.++.+|+|++|..
T Consensus        69 D~viiD~p~~~~~--~~~~~~l~~aD~viiv~~~~~~~~~~~~~~~~~l~~~~~~~~~vv~N~~~~~  133 (209)
T 3cwq_A           69 QNIVIDTQARPED--EDLEALADGCDLLVIPSTPDALALDALMLTIETLQKLGNNRFRILLTIIPPY  133 (209)
T ss_dssp             SEEEEEEECCCSS--SHHHHHHHTSSEEEEEECSSHHHHHHHHHHHHHHHHTCSSSEEEEECSBCCT
T ss_pred             CEEEEeCCCCcCc--HHHHHHHHHCCEEEEEecCCchhHHHHHHHHHHHHhccCCCEEEEEEecCCc
Confidence            4999999986 43  2344567889999999997543222334455666653 67788999999965

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=97.57  E-value=0.00016  Score=61.04  Aligned_cols=84  Identities=17%  Similarity=0.087  Sum_probs=52.6

Q ss_pred             hccCCCeEEEEEeCCCCCCHHHH-HHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhcccccccccccccc
Q psy6316         114 GSSLCDIAILVVDIMHGLEPQTI-ESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARK  192 (259)
Q Consensus       114 ~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~  192 (259)
                      .+..+|.+++|.......+.... +++......++|.++|+||+|+...+   ........+. .....+++++.+||.+
T Consensus       127 i~anvD~v~iv~a~~P~~~~~~i~r~L~~a~~~~~~~iivlNK~DL~~~~---~~~~~~~~~~-~y~~~G~~v~~~Sa~~  202 (358)
T 2rcn_A          127 IAANIDQIVIVSAILPELSLNIIDRYLVGCETLQVEPLIVLNKIDLLDDE---GMDFVNEQMD-IYRNIGYRVLMVSSHT  202 (358)
T ss_dssp             EEECCCEEEEEEESTTTCCHHHHHHHHHHHHHHTCEEEEEEECGGGCCHH---HHHHHHHHHH-HHHTTTCCEEECBTTT
T ss_pred             HHhcCCEEEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEEECccCCCch---hHHHHHHHHH-HHHhCCCcEEEEecCC
Confidence            35789999987554333333322 23444456789999999999998421   1111222333 3344567889999999


Q ss_pred             CcceeEEee
Q psy6316         193 GQEICIKIE  201 (259)
Q Consensus       193 g~gv~~~l~  201 (259)
                      |.|++.+..
T Consensus       203 ~~gl~~L~~  211 (358)
T 2rcn_A          203 QDGLKPLEE  211 (358)
T ss_dssp             TBTHHHHHH
T ss_pred             CcCHHHHHH
Confidence            999876433

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=97.49  E-value=0.00067  Score=54.73  Aligned_cols=62  Identities=10%  Similarity=0.034  Sum_probs=42.7

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhC--CCCEEEEEecccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSK--KTPFVVALNKIDR  158 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~--~~piivv~NK~D~  158 (259)
                      +++|+|||+...  ......+..+|.+|+++.++......-...+..+...  +.++.+|+|+.+.
T Consensus       146 D~viiD~pp~~~--~~~~~~l~~aD~vivv~~~~~~s~~~~~~~~~~l~~~~~~~~~~vv~N~~~~  209 (267)
T 3k9g_A          146 DYIVIDTNPSLD--VTLKNALLCSDYVIIPMTAEKWAVESLDLFNFFVRKLNLFLPIFLIITRFKK  209 (267)
T ss_dssp             SEEEEEECSSCS--HHHHHHHTTCSEEEEEEESCTTHHHHHHHHHHHHHTTTCCCCEEEEEEEECT
T ss_pred             CEEEEECcCCcc--HHHHHHHHHCCeEEEEeCCChHHHHHHHHHHHHHHHHhccCCEEEEEecccC
Confidence            599999998543  3455666779999999998543222233455666655  4578899999943

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=97.42  E-value=6.9e-05  Score=65.90  Aligned_cols=108  Identities=14%  Similarity=0.039  Sum_probs=57.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      +..|+++|.+|+||||+.++|........    +.. ....   .+..+...   .+...           ...+||..|
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~~~~----~~t-~~~~---~d~~r~~~---~g~~~-----------~~~ifd~~g   96 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLNFIG----VPT-REFN---VGQYRRDM---VKTYK-----------SFEFFLPDN   96 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTT----CCE-EEEE---HHHHHHHH---HCSCC-----------CGGGGCTTC
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHhccC----CCc-eEEe---cchhhhhh---ccCCC-----------cccccCCCC
Confidence            35799999999999999999965421100    000 0000   00000000   00000           156789888


Q ss_pred             Ccc--hHHHH--------HhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEE
Q psy6316         104 HES--FSNLR--------NRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVAL  153 (259)
Q Consensus       104 ~~~--~~~~~--------~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~  153 (259)
                      ...  ....+        ..++..+++.++|+|+++.....-..++..+++.+.+++++-
T Consensus        97 ~~~~r~re~~~~~~l~~~~~~l~~~~G~~vV~D~tn~~~~~R~~~~~~~~~~~~~vv~l~  156 (469)
T 1bif_A           97 EEGLKIRKQCALAALNDVRKFLSEEGGHVAVFDATNTTRERRAMIFNFGEQNGYKTFFVE  156 (469)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTCCSEEEEESCCCSHHHHHHHHHHHHHHTCEEEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCCEEEEeCCCCCHHHHHHHHHHHHhcCCcEEEEE
Confidence            632  22222        345556788899999987633222334455555565655544

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=97.35  E-value=6.1e-05  Score=60.11  Aligned_cols=63  Identities=11%  Similarity=0.098  Sum_probs=41.0

Q ss_pred             CCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCC-CEEEEEecccc
Q psy6316          94 PGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKT-PFVVALNKIDR  158 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~-piivv~NK~D~  158 (259)
                      .+++|+|||+....  .....+..+|.+++|+.++.............+...+. .+.+++|+.+.
T Consensus       132 yD~viiD~pp~~~~--~~~~~l~~aD~viiv~~~~~~s~~~~~~~~~~~~~~~~~~~~~v~N~~~~  195 (254)
T 3kjh_A          132 KEAVVMDMGAGIEH--LTRGTAKAVDMMIAVIEPNLNSIKTGLNIEKLAGDLGIKKVRYVINKVRN  195 (254)
T ss_dssp             CSEEEEEECTTCTT--CCHHHHTTCSEEEEEECSSHHHHHHHHHHHHHHHHHTCSCEEEEEEEECC
T ss_pred             CCEEEEeCCCcccH--HHHHHHHHCCEEEEecCCCHHHHHHHHHHHHHHHHcCCccEEEEEeCCCC
Confidence            35999999985432  33455688999999999754211222334444555554 46789999984

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=97.26  E-value=8.2e-05  Score=61.54  Aligned_cols=24  Identities=17%  Similarity=0.326  Sum_probs=20.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ..++++|++|+|||||+|.|.+..
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g~~  197 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISPEL  197 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             CEEEEECCCCCCHHHHHHHhcccc
Confidence            469999999999999999998754

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=97.25  E-value=0.00014  Score=56.11  Aligned_cols=30  Identities=17%  Similarity=0.328  Sum_probs=23.7

Q ss_pred             CcccccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          18 DENFMRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        18 ~~~~~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..+.|+...|+|+|++|||||||++.|.+.
T Consensus        13 ~~~~~~g~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           13 NLYFQGRKTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             ---CCSCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCCCCCCCEEEEECcCCCCHHHHHHHHHhh
Confidence            334566667999999999999999999865

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=97.24  E-value=0.00012  Score=55.63  Aligned_cols=23  Identities=22%  Similarity=0.374  Sum_probs=20.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      +++++|++|+|||||++.|.+..
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            49999999999999999997653

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=97.21  E-value=0.00026  Score=54.12  Aligned_cols=37  Identities=22%  Similarity=0.315  Sum_probs=26.6

Q ss_pred             EEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPA   68 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~   68 (259)
                      |+|+|++|||||||+++|+.....     .+...+..||.++
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~~~~-----~~~~svs~TTR~p   40 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAEYPD-----SFGFSVSSTTRTP   40 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHCTT-----TEEECCCEECSCC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCC-----CeEEEEEEeccCC
Confidence            899999999999999999765321     1344455555554

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=97.20  E-value=0.00041  Score=57.30  Aligned_cols=21  Identities=33%  Similarity=0.512  Sum_probs=19.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHh
Q psy6316          25 AIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~   45 (259)
                      ..++++|++|+|||||+|.|.
T Consensus       166 ~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          166 FICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            469999999999999999998

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.17  E-value=0.00019  Score=54.47  Aligned_cols=23  Identities=22%  Similarity=0.377  Sum_probs=20.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..++++|++|||||||++.|.+.
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            46999999999999999999864

>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=97.15  E-value=0.00038  Score=57.46  Aligned_cols=24  Identities=21%  Similarity=0.340  Sum_probs=21.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ..++++|++|+|||||+|.|.+..
T Consensus       170 eiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          170 KISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             CeEEEECCCCCcHHHHHHHhcccc
Confidence            469999999999999999998754

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.11  E-value=0.0002  Score=55.38  Aligned_cols=22  Identities=32%  Similarity=0.453  Sum_probs=20.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++|+|++|||||||++.|.+.
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~~   27 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQE   27 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4999999999999999999764

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.99  E-value=0.00032  Score=54.13  Aligned_cols=22  Identities=18%  Similarity=0.357  Sum_probs=20.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .|+++|++|||||||++.|.+.
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHhh
Confidence            5999999999999999999875

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=96.98  E-value=0.00032  Score=54.47  Aligned_cols=23  Identities=26%  Similarity=0.432  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+..
T Consensus        22 i~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            49999999999999999998754

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=96.95  E-value=0.00042  Score=52.85  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=20.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+++|++||||||+++.|.+.
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            35999999999999999999775

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.91  E-value=0.00036  Score=54.76  Aligned_cols=23  Identities=22%  Similarity=0.326  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++|+|++|||||||++.|.+..
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            49999999999999999998754

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.91  E-value=0.00041  Score=53.91  Aligned_cols=23  Identities=22%  Similarity=0.420  Sum_probs=20.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+|+|++|+|||||++.|.+.
T Consensus        23 ~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           23 QLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            35999999999999999999764

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=96.89  E-value=0.0004  Score=54.62  Aligned_cols=23  Identities=22%  Similarity=0.381  Sum_probs=20.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+..
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            59999999999999999998754

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=96.89  E-value=0.00044  Score=54.98  Aligned_cols=23  Identities=22%  Similarity=0.508  Sum_probs=20.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            58999999999999999997653

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.87  E-value=0.00048  Score=51.23  Aligned_cols=23  Identities=22%  Similarity=0.355  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|||||||++.|.+..
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            49999999999999999998764

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.87  E-value=0.00051  Score=54.19  Aligned_cols=23  Identities=26%  Similarity=0.462  Sum_probs=20.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            48999999999999999998653

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=96.85  E-value=0.00049  Score=58.08  Aligned_cols=25  Identities=24%  Similarity=0.336  Sum_probs=22.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ..++++|++|||||||+|.|.+...
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             CEEEEECCCCccHHHHHHHHhcccc
Confidence            3699999999999999999987643

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.82  E-value=0.0005  Score=51.71  Aligned_cols=20  Identities=25%  Similarity=0.461  Sum_probs=18.2

Q ss_pred             EEEEEeeCCCChhHHHhHHh
Q psy6316          26 IVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~   45 (259)
                      .++++|++|||||||++.+.
T Consensus        11 i~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             EEEEECCTTSCHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHc
Confidence            58999999999999999764

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=96.80  E-value=0.014  Score=48.74  Aligned_cols=24  Identities=25%  Similarity=0.271  Sum_probs=21.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ..++++|++|+|||||++.|.+-.
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            359999999999999999998753

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.76  E-value=0.00065  Score=54.15  Aligned_cols=24  Identities=21%  Similarity=0.343  Sum_probs=21.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      -.++++|++|||||||++.|.+-.
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC
Confidence            359999999999999999998764

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=96.76  E-value=0.00073  Score=50.84  Aligned_cols=24  Identities=21%  Similarity=0.374  Sum_probs=20.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...|+++|.+|+||||+.+.|...
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~   26 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            356999999999999999999654

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=96.75  E-value=0.0044  Score=53.75  Aligned_cols=23  Identities=26%  Similarity=0.390  Sum_probs=20.2

Q ss_pred             cccEEEEEeeCCCChhHHHhHHh
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~   45 (259)
                      +...|+|+|..++|||+|+|.|+
T Consensus        66 ~v~vvsv~G~~~~gks~l~N~ll   88 (457)
T 4ido_A           66 EVVAVSVAGAFRKGKSFLMDFML   88 (457)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHH
T ss_pred             ceEEEEEECCCCCchhHHHHHHH
Confidence            45679999999999999999765

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.75  E-value=0.00069  Score=52.56  Aligned_cols=23  Identities=30%  Similarity=0.512  Sum_probs=20.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+++|++|+|||||++.|.+.
T Consensus         7 ~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            7 FVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            35999999999999999999764

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.73  E-value=0.00068  Score=55.19  Aligned_cols=23  Identities=17%  Similarity=0.427  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            48999999999999999998753

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.73  E-value=0.00068  Score=54.78  Aligned_cols=23  Identities=17%  Similarity=0.465  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999998753

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=96.73  E-value=0.00065  Score=52.81  Aligned_cols=24  Identities=13%  Similarity=0.299  Sum_probs=21.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ..|+++|++|||||||++.|.+..
T Consensus         9 ~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            9 LLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHST
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            359999999999999999998653

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.72  E-value=0.00074  Score=52.05  Aligned_cols=24  Identities=13%  Similarity=0.293  Sum_probs=21.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ..|+++|++||||||+++.|.+..
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            359999999999999999997654

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=96.72  E-value=0.0007  Score=53.87  Aligned_cols=23  Identities=35%  Similarity=0.579  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|+|||||++.|.+-.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            59999999999999999997653

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=96.72  E-value=0.00067  Score=53.10  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|+|||||++.|.+-.
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            48999999999999999998753

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=96.72  E-value=0.0007  Score=54.84  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            48999999999999999998753

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=96.71  E-value=0.00071  Score=54.51  Aligned_cols=23  Identities=13%  Similarity=0.382  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998754

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.71  E-value=0.0007  Score=52.76  Aligned_cols=22  Identities=32%  Similarity=0.277  Sum_probs=20.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++++|+.|+|||||++.|.+-
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999999876

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=96.71  E-value=0.00072  Score=54.14  Aligned_cols=23  Identities=17%  Similarity=0.488  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999998764

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.70  E-value=0.00086  Score=50.36  Aligned_cols=23  Identities=17%  Similarity=0.398  Sum_probs=20.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ...|+++|.+|+||||+++.|.+
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            34699999999999999999865

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=96.70  E-value=0.00075  Score=53.37  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|+|||||++.|.+-.
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998753

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=96.70  E-value=0.00075  Score=53.89  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|+|||||++.|.+-.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999998764

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.70  E-value=0.00066  Score=50.81  Aligned_cols=22  Identities=23%  Similarity=0.425  Sum_probs=19.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .|+++|++|+||||+.+.|.+.
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5999999999999999999654

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=96.68  E-value=0.00078  Score=54.45  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Confidence            58999999999999999998753

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.67  E-value=0.00083  Score=51.02  Aligned_cols=23  Identities=22%  Similarity=0.173  Sum_probs=20.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ...|+|.|.+||||||+.+.|..
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            34699999999999999999964

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.67  E-value=0.00094  Score=50.76  Aligned_cols=26  Identities=19%  Similarity=0.312  Sum_probs=22.0

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ++..+|+++|.+|+||||+.+.|...
T Consensus         8 ~~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            8 PKGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            34457999999999999999999654

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.67  E-value=0.00082  Score=54.12  Aligned_cols=23  Identities=26%  Similarity=0.326  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|||||||++.|.+-.
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999998763

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.67  E-value=0.00087  Score=51.03  Aligned_cols=25  Identities=28%  Similarity=0.432  Sum_probs=20.5

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      |++..|+++|.+|+||||+.+.|..
T Consensus         1 M~~~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            1 MKPLVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             --CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHH
Confidence            4456799999999999999999864

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.67  E-value=0.00081  Score=53.60  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|+|||||++.|.+-.
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998753

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=96.65  E-value=0.00085  Score=53.81  Aligned_cols=22  Identities=18%  Similarity=0.317  Sum_probs=20.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++++|++|+|||||++.|.+-
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999885

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=96.65  E-value=0.00086  Score=53.77  Aligned_cols=23  Identities=22%  Similarity=0.491  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|+|||||++.|.+-.
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            58999999999999999998764

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=96.64  E-value=0.00087  Score=51.04  Aligned_cols=21  Identities=19%  Similarity=0.373  Sum_probs=19.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .++++|++||||||+++.|.+
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            589999999999999999975

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=96.62  E-value=0.00093  Score=54.15  Aligned_cols=22  Identities=18%  Similarity=0.403  Sum_probs=20.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++++|++|||||||++.|.+-
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999885

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.62  E-value=0.0009  Score=54.01  Aligned_cols=23  Identities=30%  Similarity=0.488  Sum_probs=21.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|+|||||++.|.+-.
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            59999999999999999998764

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.61  E-value=0.001  Score=53.03  Aligned_cols=22  Identities=18%  Similarity=0.363  Sum_probs=20.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHh
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~   45 (259)
                      +..|+++|++||||||+++.|.
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3469999999999999999997

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.61  E-value=0.00091  Score=54.01  Aligned_cols=23  Identities=17%  Similarity=0.374  Sum_probs=20.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..++++|++|+|||||++.|.+.
T Consensus        26 ~~v~i~Gp~GsGKSTll~~l~g~   48 (261)
T 2eyu_A           26 GLILVTGPTGSGKSTTIASMIDY   48 (261)
T ss_dssp             EEEEEECSTTCSHHHHHHHHHHH
T ss_pred             CEEEEECCCCccHHHHHHHHHHh
Confidence            35999999999999999999764

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.61  E-value=0.00094  Score=54.48  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|||||||++.|.+-.
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            58999999999999999998754

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.60  E-value=0.0008  Score=51.58  Aligned_cols=23  Identities=26%  Similarity=0.325  Sum_probs=20.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|+|||||++.|.+..
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhc
Confidence            48999999999999999998653

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.60  E-value=0.00096  Score=51.42  Aligned_cols=23  Identities=30%  Similarity=0.397  Sum_probs=20.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+++|++||||||+++.|.+.
T Consensus        30 ~~i~l~G~~GsGKSTl~~~L~~~   52 (200)
T 4eun_A           30 RHVVVMGVSGSGKTTIAHGVADE   52 (200)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            46999999999999999999654

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.60  E-value=0.00095  Score=54.22  Aligned_cols=23  Identities=17%  Similarity=0.380  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|+|||||++.|.+-.
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999998764

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.58  E-value=0.001  Score=53.51  Aligned_cols=23  Identities=39%  Similarity=0.596  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998753

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=96.57  E-value=0.00097  Score=55.03  Aligned_cols=23  Identities=22%  Similarity=0.335  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++|+|++|+|||||++.|.+-.
T Consensus       128 ~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          128 CLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhhhc
Confidence            59999999999999999998654

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.57  E-value=0.0011  Score=49.46  Aligned_cols=20  Identities=20%  Similarity=0.433  Sum_probs=18.6

Q ss_pred             cEEEEEeeCCCChhHHHhHH
Q psy6316          25 AIVCVLGHVDTGKTKILDKL   44 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l   44 (259)
                      +.|+++|.+||||||+.+.|
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            35999999999999999999

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.57  E-value=0.0011  Score=50.13  Aligned_cols=23  Identities=30%  Similarity=0.433  Sum_probs=20.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +.++++|++|+|||||+++|++.
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHh
Confidence            56999999999999999999764

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.56  E-value=0.001  Score=53.84  Aligned_cols=23  Identities=22%  Similarity=0.348  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|+|||||++.|.+-.
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            58999999999999999998753

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.56  E-value=0.00097  Score=51.57  Aligned_cols=23  Identities=22%  Similarity=0.341  Sum_probs=20.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+|+|++||||||+++.|...
T Consensus        13 ~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           13 PPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            35999999999999999999754

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.56  E-value=0.0012  Score=51.08  Aligned_cols=25  Identities=16%  Similarity=0.258  Sum_probs=21.4

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +...|+|.|.+|+||||+.+.|...
T Consensus         3 ~~~~I~i~G~~GsGKsT~~~~L~~~   27 (213)
T 2plr_A            3 KGVLIAFEGIDGSGKSSQATLLKDW   27 (213)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            4456999999999999999999653

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.54  E-value=0.00083  Score=53.02  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=15.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHh-cc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLR-RT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~-~~   47 (259)
                      ..|+++|++|||||||++.|. +.
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             CEEEEECSCC----CHHHHHHC--
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            359999999999999999998 64

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=96.53  E-value=0.005  Score=53.13  Aligned_cols=23  Identities=17%  Similarity=0.368  Sum_probs=20.4

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      +..|+++|.+|+||||+.+.|..
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            45699999999999999999964

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.49  E-value=0.0013  Score=49.06  Aligned_cols=22  Identities=18%  Similarity=0.206  Sum_probs=19.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .|+++|.+||||||+.+.|...
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~   24 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKE   24 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5999999999999999999643

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.48  E-value=0.0013  Score=53.18  Aligned_cols=23  Identities=30%  Similarity=0.407  Sum_probs=21.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|+|||||++.|.+-.
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998764

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.47  E-value=0.0013  Score=51.53  Aligned_cols=23  Identities=13%  Similarity=0.345  Sum_probs=20.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+++|++|+||||+.+.|.+.
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~   28 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEA   28 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            35999999999999999999653

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=96.47  E-value=0.0061  Score=47.85  Aligned_cols=42  Identities=12%  Similarity=0.091  Sum_probs=31.1

Q ss_pred             CeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316         119 DIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus       119 d~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      +.-++++|--..+.....+.+..+...++++++++-..|-..
T Consensus        89 ~~dvViIDEaQ~l~~~~ve~l~~L~~~gi~Vil~Gl~~df~~  130 (223)
T 2b8t_A           89 ETKVIGIDEVQFFDDRICEVANILAENGFVVIISGLDKNFKG  130 (223)
T ss_dssp             TCCEEEECSGGGSCTHHHHHHHHHHHTTCEEEEECCSBCTTS
T ss_pred             CCCEEEEecCccCcHHHHHHHHHHHhCCCeEEEEeccccccC
Confidence            455788897665555566677777777999999999888654

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.46  E-value=0.0015  Score=49.12  Aligned_cols=22  Identities=18%  Similarity=0.326  Sum_probs=20.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..|+++|.+|+||||+.+.|..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            4599999999999999999975

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.44  E-value=0.0014  Score=50.55  Aligned_cols=23  Identities=22%  Similarity=0.403  Sum_probs=20.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+++|++|+||||+.+.|.+.
T Consensus        26 ~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           26 CVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999999654

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.44  E-value=0.00067  Score=51.13  Aligned_cols=23  Identities=26%  Similarity=0.601  Sum_probs=20.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+|+|++|+|||||++.|.+.
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            36999999999999999999754

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.44  E-value=0.0013  Score=54.53  Aligned_cols=23  Identities=30%  Similarity=0.374  Sum_probs=20.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+|+|++|||||||++.|.+.
T Consensus        91 ~ivgI~G~sGsGKSTL~~~L~gl  113 (312)
T 3aez_A           91 FIIGVAGSVAVGKSTTARVLQAL  113 (312)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEEECCCCchHHHHHHHHHhh
Confidence            46999999999999999999764

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.44  E-value=0.0015  Score=50.30  Aligned_cols=21  Identities=19%  Similarity=0.471  Sum_probs=19.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .|+++|.+|+||||+.+.|.+
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            599999999999999999976

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=96.44  E-value=0.0015  Score=53.63  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|+|||||++.|.+-.
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            58999999999999999998653

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=96.41  E-value=0.0018  Score=48.91  Aligned_cols=24  Identities=17%  Similarity=0.158  Sum_probs=21.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ..++++|++|+|||||++.+.+..
T Consensus        39 ~~~~l~G~~G~GKTtL~~~i~~~~   62 (180)
T 3ec2_A           39 KGLTFVGSPGVGKTHLAVATLKAI   62 (180)
T ss_dssp             CEEEECCSSSSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            469999999999999999997653

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=96.40  E-value=0.0016  Score=54.95  Aligned_cols=23  Identities=30%  Similarity=0.472  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            48999999999999999998754

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.37  E-value=0.0017  Score=50.15  Aligned_cols=21  Identities=33%  Similarity=0.518  Sum_probs=19.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .|+++|.+||||||+.+.|.+
T Consensus         4 ~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999999975

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.37  E-value=0.0017  Score=50.83  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=20.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++++|++|+|||||++.|++.
T Consensus        27 ~~~l~G~nGsGKSTll~~l~g~   48 (231)
T 4a74_A           27 ITEVFGEFGSGKTQLAHTLAVM   48 (231)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5999999999999999999764

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=96.36  E-value=0.0016  Score=49.11  Aligned_cols=25  Identities=24%  Similarity=0.279  Sum_probs=21.3

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ++...|+++|.+|+||||+.+.|..
T Consensus         9 ~~~~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A            9 MLLPNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCCCCEEEECSTTSSHHHHHHHHHH
T ss_pred             ccCCeEEEEeCCCCCHHHHHHHHHH
Confidence            3455799999999999999999963

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=96.36  E-value=0.00097  Score=55.11  Aligned_cols=22  Identities=32%  Similarity=0.468  Sum_probs=20.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++++|++|+|||||++.|.+-
T Consensus        82 ~vaivG~sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFRF  103 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTTS
T ss_pred             EEEEECCCCchHHHHHHHHHcC
Confidence            5999999999999999999765

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.36  E-value=0.0014  Score=50.41  Aligned_cols=23  Identities=17%  Similarity=0.419  Sum_probs=20.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+++|.+||||||+.+.|...
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~~   41 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAEA   41 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            36999999999999999999654

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=96.35  E-value=0.0017  Score=53.94  Aligned_cols=25  Identities=24%  Similarity=0.450  Sum_probs=22.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .+.++++|..|||||||++.|.+..
T Consensus         4 i~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            4 IAVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             ccEEEEEecCCCCHHHHHHHHHhhc
Confidence            4679999999999999999998763

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.34  E-value=0.0016  Score=51.83  Aligned_cols=23  Identities=22%  Similarity=0.413  Sum_probs=20.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+++|+.|+|||||++.|.+.
T Consensus        26 ~iigI~G~~GsGKSTl~k~L~~~   48 (245)
T 2jeo_A           26 FLIGVSGGTASGKSTVCEKIMEL   48 (245)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            35999999999999999999763

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=96.34  E-value=0.0017  Score=54.84  Aligned_cols=23  Identities=22%  Similarity=0.378  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        56 i~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHhcCC
Confidence            48999999999999999998754

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=96.32  E-value=0.0021  Score=48.82  Aligned_cols=23  Identities=39%  Similarity=0.572  Sum_probs=20.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ...|+++|.+|+||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            34699999999999999999964

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.30  E-value=0.002  Score=48.73  Aligned_cols=22  Identities=27%  Similarity=0.359  Sum_probs=19.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..|+++|.+|+||||+.+.|..
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4599999999999999999964

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.28  E-value=0.0015  Score=49.23  Aligned_cols=24  Identities=29%  Similarity=0.481  Sum_probs=16.3

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      +...|+++|.+||||||+.+.|..
T Consensus         4 ~~~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            4 RSPIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             -CCEEEEECCC----CHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            345699999999999999999964

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.28  E-value=0.0018  Score=53.89  Aligned_cols=25  Identities=24%  Similarity=0.323  Sum_probs=21.4

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ++..|+++|++|||||||++.|.+.
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~~l  115 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLKAL  115 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4567999999999999999998543

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.27  E-value=0.0019  Score=54.40  Aligned_cols=23  Identities=35%  Similarity=0.502  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            58999999999999999998754

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.27  E-value=0.0018  Score=50.37  Aligned_cols=20  Identities=15%  Similarity=0.368  Sum_probs=18.7

Q ss_pred             EEEEeeCCCChhHHHhHHhc
Q psy6316          27 VCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~   46 (259)
                      |+|+|.+|+||||+.+.|..
T Consensus         3 I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            3 IVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            99999999999999999954

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.26  E-value=0.002  Score=49.53  Aligned_cols=21  Identities=24%  Similarity=0.384  Sum_probs=19.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .|+++|.+||||||+.+.|..
T Consensus        27 ~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           27 RIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            699999999999999999964

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.26  E-value=0.003  Score=48.81  Aligned_cols=24  Identities=17%  Similarity=0.216  Sum_probs=20.9

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      +...|+++|.+|+||||+.+.|..
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHH
Confidence            345699999999999999999964

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=96.26  E-value=0.0018  Score=54.64  Aligned_cols=23  Identities=26%  Similarity=0.391  Sum_probs=20.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+|+|++|+|||||++.|++.
T Consensus       124 g~i~I~GptGSGKTTlL~~l~g~  146 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLAAMLDY  146 (356)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            46999999999999999999764

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.25  E-value=0.0018  Score=54.78  Aligned_cols=24  Identities=25%  Similarity=0.493  Sum_probs=21.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ..++++|++|+|||||++.|.+..
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            369999999999999999998753

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.25  E-value=0.0018  Score=47.47  Aligned_cols=25  Identities=20%  Similarity=0.375  Sum_probs=21.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ...++++|++|+|||||++.+.+..
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3469999999999999999997653

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=96.25  E-value=0.002  Score=54.73  Aligned_cols=23  Identities=22%  Similarity=0.403  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHcCC
Confidence            48999999999999999998754

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=96.24  E-value=0.015  Score=46.61  Aligned_cols=65  Identities=15%  Similarity=0.032  Sum_probs=43.9

Q ss_pred             CCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEE-EEEecccc
Q psy6316          94 PGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFV-VALNKIDR  158 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pii-vv~NK~D~  158 (259)
                      .+++|+|||+...........+..+|.+|+|+.++..........+..++..+.+++ +|+|+.|.
T Consensus       129 yD~ViID~pp~~~~~~~~~~~~~~aD~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~gvV~N~~~~  194 (262)
T 2ph1_A          129 LDHLLIDLPPGTGDAPLTVMQDAKPTGVVVVSTPQELTAVIVEKAINMAEETNTSVLGLVENMSYF  194 (262)
T ss_dssp             CSEEEEECCSSSSSHHHHHHHHHCCSEEEEEECSSSCCHHHHHHHHHHHHTTTCCEEEEEETTCCE
T ss_pred             CCEEEEECcCCCchHHHHHHhhccCCeEEEEecCccchHHHHHHHHHHHHhCCCCEEEEEECCCcc
Confidence            469999999854322122222236899999998765433334556677777788887 89999885

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.24  E-value=0.0024  Score=49.02  Aligned_cols=24  Identities=21%  Similarity=0.275  Sum_probs=20.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...|+++|.+|+||||+.+.|...
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            346999999999999999999754

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.23  E-value=0.0023  Score=48.50  Aligned_cols=22  Identities=32%  Similarity=0.457  Sum_probs=19.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .|+|+|.+|+||||+.+.|...
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~   24 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5999999999999999999653

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=96.23  E-value=0.0021  Score=54.30  Aligned_cols=23  Identities=35%  Similarity=0.372  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHCCC
Confidence            48999999999999999998753

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.22  E-value=0.0022  Score=54.26  Aligned_cols=23  Identities=22%  Similarity=0.432  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            58999999999999999998754

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.22  E-value=0.0025  Score=49.27  Aligned_cols=23  Identities=26%  Similarity=0.512  Sum_probs=20.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+++|.+|+||||+++.|.+.
T Consensus        22 ~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           22 FIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            35999999999999999999764

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=96.21  E-value=0.002  Score=50.13  Aligned_cols=20  Identities=15%  Similarity=0.320  Sum_probs=18.7

Q ss_pred             EEEEeeCCCChhHHHhHHhc
Q psy6316          27 VCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~   46 (259)
                      |+|+|.+|+||||+.+.|..
T Consensus         3 I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            3 LVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            99999999999999999964

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.21  E-value=0.0022  Score=49.14  Aligned_cols=21  Identities=24%  Similarity=0.580  Sum_probs=19.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .|+++|.+||||||+.+.|..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            499999999999999999965

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.20  E-value=0.0027  Score=48.11  Aligned_cols=26  Identities=27%  Similarity=0.393  Sum_probs=21.9

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ++...|+++|.+|+||||+.+.|...
T Consensus        11 ~~~~~i~l~G~~GsGKsT~~~~L~~~   36 (186)
T 2yvu_A           11 EKGIVVWLTGLPGSGKTTIATRLADL   36 (186)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            34556999999999999999999654

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.19  E-value=0.0027  Score=48.64  Aligned_cols=25  Identities=24%  Similarity=0.473  Sum_probs=21.7

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +...|+|+|.+|+||||+.+.|...
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            3457999999999999999999754

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.19  E-value=0.0028  Score=48.29  Aligned_cols=23  Identities=26%  Similarity=0.442  Sum_probs=20.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ...|+++|.+|+||||+.+.|..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            34699999999999999999964

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=96.18  E-value=0.0023  Score=54.35  Aligned_cols=23  Identities=26%  Similarity=0.382  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCcHHHHHHHHHHcCC
Confidence            48999999999999999998764

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=96.18  E-value=0.0024  Score=52.79  Aligned_cols=23  Identities=26%  Similarity=0.401  Sum_probs=20.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+|+|++|+|||||++.|.+.
T Consensus        81 ~iigI~G~~GsGKSTl~~~L~~~  103 (308)
T 1sq5_A           81 YIISIAGSVAVGKSTTARVLQAL  103 (308)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            35999999999999999999764

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=96.17  E-value=0.0024  Score=54.24  Aligned_cols=23  Identities=26%  Similarity=0.401  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            48999999999999999998753

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.17  E-value=0.0026  Score=47.71  Aligned_cols=23  Identities=26%  Similarity=0.419  Sum_probs=20.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +.|+++|.+|+|||||+.+|...
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~~   27 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVAA   27 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            46999999999999999999754

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.15  E-value=0.0025  Score=48.17  Aligned_cols=22  Identities=23%  Similarity=0.474  Sum_probs=19.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      +.|+++|.+|+||||+.+.|..
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999954

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.14  E-value=0.0029  Score=48.77  Aligned_cols=22  Identities=23%  Similarity=0.436  Sum_probs=20.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..|+++|.+|+||||+++.|.+
T Consensus        23 ~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           23 LVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999965

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.13  E-value=0.003  Score=51.68  Aligned_cols=27  Identities=15%  Similarity=0.182  Sum_probs=22.5

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .+++..|+++|++||||||+.+.|...
T Consensus        30 ~~~~~livl~G~sGsGKSTla~~L~~~   56 (287)
T 1gvn_B           30 VESPTAFLLGGQPGSGKTSLRSAIFEE   56 (287)
T ss_dssp             CSSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            344567999999999999999999653

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=96.12  E-value=0.0019  Score=54.69  Aligned_cols=24  Identities=29%  Similarity=0.481  Sum_probs=21.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .+++|+|++|+|||||++.|.+..
T Consensus       171 ~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          171 KTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            469999999999999999997653

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=96.09  E-value=0.0033  Score=47.42  Aligned_cols=25  Identities=20%  Similarity=0.333  Sum_probs=21.2

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .+...+|+|+.|+|||||+.+|...
T Consensus        25 ~~g~~~i~G~NGsGKStll~ai~~~   49 (182)
T 3kta_A           25 SKGFTAIVGANGSGKSNIGDAILFV   49 (182)
T ss_dssp             CSSEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHH
Confidence            3456899999999999999999653

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.08  E-value=0.0033  Score=48.66  Aligned_cols=23  Identities=26%  Similarity=0.328  Sum_probs=20.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ...|+++|.+|+||||+.+.|..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45699999999999999999964

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=96.08  E-value=0.0029  Score=54.02  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTCS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            59999999999999999998753

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=96.07  E-value=0.0026  Score=54.08  Aligned_cols=23  Identities=17%  Similarity=0.374  Sum_probs=20.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+|+|++|+||||+++.|++.
T Consensus       137 ~~i~ivG~~GsGKTTll~~l~~~  159 (372)
T 2ewv_A          137 GLILVTGPTGSGKSTTIASMIDY  159 (372)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            46999999999999999999764

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.07  E-value=0.003  Score=50.58  Aligned_cols=26  Identities=19%  Similarity=0.250  Sum_probs=21.9

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++..|+++|.+|+||||+.+.|...
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~~   55 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQKE   55 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            34557999999999999999999654

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.05  E-value=0.0028  Score=52.26  Aligned_cols=24  Identities=33%  Similarity=0.501  Sum_probs=21.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...++++|++||||||+++.|.+.
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag~  123 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAHR  123 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            346999999999999999999765

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.05  E-value=0.0027  Score=56.22  Aligned_cols=23  Identities=26%  Similarity=0.329  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      +++|+|++|||||||++.|++.-
T Consensus       262 ~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          262 SAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            59999999999999999997653

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.02  E-value=0.0035  Score=50.22  Aligned_cols=21  Identities=24%  Similarity=0.385  Sum_probs=19.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHh
Q psy6316          25 AIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~   45 (259)
                      ..|+|+|++||||||+++.|.
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            469999999999999999997

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.02  E-value=0.0032  Score=51.63  Aligned_cols=24  Identities=13%  Similarity=0.141  Sum_probs=20.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...|+|+|.+|+|||||++.|.+.
T Consensus        31 ~~ii~I~G~sGsGKSTla~~L~~~   54 (290)
T 1odf_A           31 PLFIFFSGPQGSGKSFTSIQIYNH   54 (290)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            456999999999999999988543

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=96.00  E-value=0.002  Score=54.21  Aligned_cols=23  Identities=26%  Similarity=0.417  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCccHHHHHHHHHcCC
Confidence            58999999999999999998754

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.99  E-value=0.0044  Score=47.59  Aligned_cols=23  Identities=30%  Similarity=0.495  Sum_probs=20.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ...|+|+|.+|+||||+.+.|..
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            34699999999999999999964

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.98  E-value=0.003  Score=46.85  Aligned_cols=21  Identities=24%  Similarity=0.449  Sum_probs=19.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      +|+++|.+|+||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            399999999999999999964

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=95.97  E-value=0.004  Score=47.83  Aligned_cols=24  Identities=29%  Similarity=0.249  Sum_probs=20.7

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ++..|+++|.+|+||||+.+.|..
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            345699999999999999999964

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=95.97  E-value=0.0034  Score=48.79  Aligned_cols=21  Identities=19%  Similarity=0.191  Sum_probs=19.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      +|+|+|.+|+||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            399999999999999999964

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.96  E-value=0.0031  Score=47.32  Aligned_cols=21  Identities=19%  Similarity=0.498  Sum_probs=19.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      +|+++|.+|+||||+.+.|..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            599999999999999999954

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=95.95  E-value=0.0038  Score=46.98  Aligned_cols=24  Identities=25%  Similarity=0.288  Sum_probs=20.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...|+++|.+|+||||+.+.|.+.
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~   28 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEY   28 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            345999999999999999999653

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.95  E-value=0.004  Score=48.85  Aligned_cols=22  Identities=14%  Similarity=0.356  Sum_probs=19.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..|+|+|.+|+||||+.+.|..
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4599999999999999999964

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=95.94  E-value=0.0032  Score=54.31  Aligned_cols=24  Identities=25%  Similarity=0.261  Sum_probs=21.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ..|+|+|++|+|||||++.|++..
T Consensus       168 gii~I~GpnGSGKTTlL~allg~l  191 (418)
T 1p9r_A          168 GIILVTGPTGSGKSTTLYAGLQEL  191 (418)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhc
Confidence            459999999999999999998653

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=95.92  E-value=0.004  Score=48.56  Aligned_cols=22  Identities=18%  Similarity=0.291  Sum_probs=19.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..|+|+|.+|+||||+.+.|..
T Consensus         5 ~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4599999999999999999964

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=95.90  E-value=0.0047  Score=46.76  Aligned_cols=22  Identities=32%  Similarity=0.443  Sum_probs=19.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..|+++|.+|+||||+.+.|..
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999964

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=95.90  E-value=0.0032  Score=49.59  Aligned_cols=24  Identities=25%  Similarity=0.470  Sum_probs=21.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...|+|.|..||||||+++.|.+.
T Consensus        20 g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           20 PFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            346999999999999999999765

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.88  E-value=0.0044  Score=47.28  Aligned_cols=23  Identities=26%  Similarity=0.444  Sum_probs=20.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+++|.+|+||||+.+.|...
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~   35 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEK   35 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999999643

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.87  E-value=0.004  Score=48.66  Aligned_cols=22  Identities=18%  Similarity=0.274  Sum_probs=19.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .|+|+|.+|+||||+.+.|...
T Consensus         7 ~I~l~G~~GsGKsT~~~~La~~   28 (222)
T 1zak_A            7 KVMISGAPASGKGTQCELIKTK   28 (222)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5999999999999999999643

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=95.86  E-value=0.0034  Score=51.02  Aligned_cols=21  Identities=24%  Similarity=0.305  Sum_probs=19.6

Q ss_pred             EEEEeeCCCChhHHHhHHhcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~   47 (259)
                      ++++|++|+|||||++.+.+.
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            999999999999999999764

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=95.86  E-value=0.019  Score=47.04  Aligned_cols=23  Identities=26%  Similarity=0.278  Sum_probs=19.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..+++.|++|+|||++++.+...
T Consensus        68 ~~vll~G~~GtGKT~la~~la~~   90 (309)
T 3syl_A           68 LHMSFTGNPGTGKTTVALKMAGL   90 (309)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999877543

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=95.85  E-value=0.0039  Score=48.40  Aligned_cols=21  Identities=24%  Similarity=0.401  Sum_probs=19.1

Q ss_pred             EEEEeeCCCChhHHHhHHhcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+++|+|||||+|....|...
T Consensus         3 Iil~GpPGsGKgTqa~~La~~   23 (206)
T 3sr0_A            3 LVFLGPPGAGKGTQAKRLAKE   23 (206)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            999999999999999999644

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=95.85  E-value=0.0035  Score=47.35  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=19.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      +.|+++|.+|+||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3499999999999999999854

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=95.84  E-value=0.0045  Score=49.27  Aligned_cols=23  Identities=22%  Similarity=0.238  Sum_probs=20.4

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      +..|+++|.+|+||||+.+.|..
T Consensus        29 ~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           29 DGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            44699999999999999999964

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=95.84  E-value=0.0019  Score=54.41  Aligned_cols=23  Identities=22%  Similarity=0.348  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            58999999999999999998753

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=95.83  E-value=0.0024  Score=49.45  Aligned_cols=22  Identities=23%  Similarity=0.496  Sum_probs=19.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .|+|.|.+|+||||+++.|...
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~   23 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGA   23 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4899999999999999999643

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=95.81  E-value=0.0046  Score=48.12  Aligned_cols=22  Identities=23%  Similarity=0.490  Sum_probs=20.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..|+|+|.+||||||+.+.|..
T Consensus         5 ~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            5 YIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999964

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=95.80  E-value=0.0046  Score=48.93  Aligned_cols=24  Identities=33%  Similarity=0.454  Sum_probs=20.4

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ++..|++.|++|+||||+.+.|..
T Consensus         8 ~~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            8 GSLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999999963

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.80  E-value=0.005  Score=48.15  Aligned_cols=24  Identities=33%  Similarity=0.483  Sum_probs=19.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ++.|+++|+|||||+|....|...
T Consensus        29 ~kiI~llGpPGsGKgTqa~~L~~~   52 (217)
T 3umf_A           29 AKVIFVLGGPGSGKGTQCEKLVQK   52 (217)
T ss_dssp             CEEEEEECCTTCCHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            445778999999999999998643

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=95.79  E-value=0.0045  Score=49.44  Aligned_cols=24  Identities=21%  Similarity=0.393  Sum_probs=21.0

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      +...|+|+|.+|+||||+.+.|..
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            445799999999999999999854

>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=95.78  E-value=0.0041  Score=49.67  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=19.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++++|++|+|||||++.+.+.
T Consensus        51 g~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           51 GVLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3999999999999999999764

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.74  E-value=0.0047  Score=49.47  Aligned_cols=22  Identities=18%  Similarity=0.329  Sum_probs=19.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .|+|+|++|+|||||.+.|...
T Consensus         3 li~I~G~~GSGKSTla~~La~~   24 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQE   24 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHhc
Confidence            5899999999999999999643

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.72  E-value=0.005  Score=45.74  Aligned_cols=22  Identities=18%  Similarity=0.450  Sum_probs=19.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      .+|+++|.+|+||||+.+.|..
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999999854

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.72  E-value=0.004  Score=49.83  Aligned_cols=23  Identities=22%  Similarity=0.403  Sum_probs=20.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ...|+++|.+|+||||+.+.|.+
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            34699999999999999999964

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=95.72  E-value=0.043  Score=45.53  Aligned_cols=23  Identities=17%  Similarity=0.238  Sum_probs=20.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|++.|++|+|||++++.+...
T Consensus        56 ~~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            46999999999999999999543

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=95.71  E-value=0.0043  Score=54.24  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=20.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++|+|+.|+|||||++.|++-.
T Consensus       140 ~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          140 RVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCcc
Confidence            49999999999999999997653

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.71  E-value=0.0047  Score=52.13  Aligned_cols=25  Identities=32%  Similarity=0.441  Sum_probs=21.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ...|+++|++||||||+++.|.+..
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHhhc
Confidence            4469999999999999999997653

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.70  E-value=0.0051  Score=46.64  Aligned_cols=21  Identities=29%  Similarity=0.357  Sum_probs=19.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .|+++|.+|+||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            499999999999999999965

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=95.70  E-value=0.0045  Score=46.09  Aligned_cols=21  Identities=24%  Similarity=0.351  Sum_probs=19.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .|+++|.+|+||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999999964

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=95.69  E-value=0.0054  Score=50.61  Aligned_cols=26  Identities=31%  Similarity=0.485  Sum_probs=21.9

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+.+.|+|+|++|+|||||...|...
T Consensus         1 m~~~~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            1 MKEKLVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             -CCEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CCCcEEEEECCCcCCHHHHHHHHHHh
Confidence            45567999999999999999999654

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=95.68  E-value=0.0063  Score=44.54  Aligned_cols=25  Identities=24%  Similarity=0.525  Sum_probs=21.1

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      +.+...+|+|+.|+||||++.+|..
T Consensus        21 f~~g~~~I~G~NGsGKStil~Ai~~   45 (149)
T 1f2t_A           21 FKEGINLIIGQNGSGKSSLLDAILV   45 (149)
T ss_dssp             CCSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHHH
Confidence            3355789999999999999999853

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=95.68  E-value=0.0056  Score=47.02  Aligned_cols=21  Identities=24%  Similarity=0.446  Sum_probs=19.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .|++.|.+|+||||+.+.|..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999999964

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=95.67  E-value=0.0055  Score=49.26  Aligned_cols=22  Identities=18%  Similarity=0.385  Sum_probs=19.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..|+++|.+|+||||+.+.|..
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4699999999999999999965

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=95.67  E-value=0.0055  Score=46.00  Aligned_cols=24  Identities=25%  Similarity=0.398  Sum_probs=20.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...+++.|++|+|||++++.+...
T Consensus        43 ~~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           43 KNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             SCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHH
Confidence            356999999999999999999654

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=95.64  E-value=0.0053  Score=47.90  Aligned_cols=22  Identities=23%  Similarity=0.270  Sum_probs=19.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++++|++|+|||||++.+++.
T Consensus        25 ~~~i~G~~GsGKTtl~~~l~~~   46 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHFIAK   46 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            5899999999999999999754

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=95.64  E-value=0.0044  Score=51.75  Aligned_cols=23  Identities=22%  Similarity=0.244  Sum_probs=20.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..++++|++|+|||||++.+.+.
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            45999999999999999999765

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.63  E-value=0.0053  Score=54.78  Aligned_cols=23  Identities=26%  Similarity=0.371  Sum_probs=20.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|||||||++.|.+..
T Consensus        49 ~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           49 VVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            49999999999999999998754

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=95.61  E-value=0.0058  Score=51.38  Aligned_cols=23  Identities=13%  Similarity=0.268  Sum_probs=21.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|+|||||++.|.+..
T Consensus        73 ~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           73 RIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            49999999999999999998764

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.57  E-value=0.0056  Score=54.59  Aligned_cols=23  Identities=39%  Similarity=0.489  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|||||||++.|.+..
T Consensus        27 i~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           27 ILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            48999999999999999998753

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.57  E-value=0.0073  Score=47.02  Aligned_cols=21  Identities=14%  Similarity=0.336  Sum_probs=19.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .|+|+|.+|+||||+.+.|..
T Consensus         7 ~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            7 NLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999999954

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=95.57  E-value=0.0056  Score=50.07  Aligned_cols=23  Identities=13%  Similarity=0.180  Sum_probs=20.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|+|||||+..+.+..
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            58999999999999999997654

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=95.55  E-value=0.0057  Score=53.61  Aligned_cols=23  Identities=13%  Similarity=0.254  Sum_probs=20.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      -.++++|++|||||||++.|.+-
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl   52 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTA   52 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhcC
Confidence            35999999999999999999764

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.53  E-value=0.0058  Score=47.86  Aligned_cols=21  Identities=14%  Similarity=0.249  Sum_probs=19.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .|+|+|.+|+||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            399999999999999999964

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.53  E-value=0.007  Score=49.29  Aligned_cols=22  Identities=18%  Similarity=0.434  Sum_probs=20.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHh
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~   45 (259)
                      ...|+|+|.+||||||+.+.|.
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4569999999999999999996

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=95.49  E-value=0.006  Score=49.46  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=20.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++++|++|+|||||++.+.+.
T Consensus        75 gvll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           75 GVLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCcChHHHHHHHHHHH
Confidence            3999999999999999999764

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.46  E-value=0.0066  Score=54.92  Aligned_cols=23  Identities=22%  Similarity=0.382  Sum_probs=20.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|+|||||++.|.+..
T Consensus       105 i~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          105 VLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            59999999999999999998754

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=95.45  E-value=0.0069  Score=54.60  Aligned_cols=23  Identities=26%  Similarity=0.450  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|+|||||++.|.+-.
T Consensus       371 ~~~ivG~sGsGKSTLl~~l~g~~  393 (582)
T 3b60_A          371 TVALVGRSGSGKSTIASLITRFY  393 (582)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhhcc
Confidence            59999999999999999997653

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=95.43  E-value=0.026  Score=45.63  Aligned_cols=64  Identities=17%  Similarity=0.262  Sum_probs=45.2

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEE-EEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFV-VALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pii-vv~NK~D~~  159 (259)
                      +++|+|||+..... ........+|.+|+|+.+.......-...+..+...+.+++ +|+|++|..
T Consensus       193 D~VIIDtpp~~~~~-d~~~l~~~aD~vilVv~~~~~~~~~~~~~~~~l~~~~~~~~GvVlN~~~~~  257 (271)
T 3bfv_A          193 NFVIIDTPPVNTVT-DAQLFSKFTGNVVYVVNSENNNKDEVKKGKELIEATGAKLLGVVLNRMPKD  257 (271)
T ss_dssp             SEEEEECCCTTTCS-HHHHHHHHHCEEEEEEETTSCCHHHHHHHHHHHHTTTCEEEEEEEEEECC-
T ss_pred             CEEEEeCCCCchHH-HHHHHHHHCCEEEEEEeCCCCcHHHHHHHHHHHHhCCCCEEEEEEeCCcCC
Confidence            49999999854321 22234467899999999866544444556677777788876 899999964

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=95.42  E-value=0.0073  Score=48.25  Aligned_cols=23  Identities=26%  Similarity=0.287  Sum_probs=20.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+++|++|+||||+++.+.+.
T Consensus        46 ~~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           46 KGVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            45999999999999999999654

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.41  E-value=0.008  Score=46.55  Aligned_cols=23  Identities=17%  Similarity=0.320  Sum_probs=20.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+++|.+|+||||+.+.|...
T Consensus        26 ~~i~~~G~~GsGKsT~~~~l~~~   48 (211)
T 1m7g_A           26 LTIWLTGLSASGKSTLAVELEHQ   48 (211)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999998643

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=95.39  E-value=0.0069  Score=47.06  Aligned_cols=25  Identities=24%  Similarity=0.421  Sum_probs=20.3

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      |++..|+++|.+|+||||+.+.|..
T Consensus         1 m~~~~i~i~G~~gsGkst~~~~l~~   25 (219)
T 2h92_A            1 MKAINIALDGPAAAGKSTIAKRVAS   25 (219)
T ss_dssp             --CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHH
Confidence            3445699999999999999998854

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.38  E-value=0.0079  Score=46.08  Aligned_cols=24  Identities=25%  Similarity=0.534  Sum_probs=20.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...|+++|.+||||||+.+.|...
T Consensus        12 ~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           12 HMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            456999999999999999999654

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=95.36  E-value=0.0083  Score=50.81  Aligned_cols=23  Identities=22%  Similarity=0.408  Sum_probs=20.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      .+.++|+|++|||||||+++++.
T Consensus        23 ~g~~~i~G~NGaGKTTll~ai~~   45 (365)
T 3qf7_A           23 SGITVVEGPNGAGKSSLFEAISF   45 (365)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            34688999999999999999863

>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=95.36  E-value=0.065  Score=47.47  Aligned_cols=23  Identities=17%  Similarity=0.206  Sum_probs=20.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +.+++.|++|+||||+++.+...
T Consensus        78 ~~lLL~GppGtGKTtla~~la~~  100 (516)
T 1sxj_A           78 RAAMLYGPPGIGKTTAAHLVAQE  100 (516)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999999654

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=95.34  E-value=0.0082  Score=45.98  Aligned_cols=23  Identities=22%  Similarity=0.315  Sum_probs=20.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..+++.|++|+|||+|+..+...
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~   77 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANE   77 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            56999999999999999999754

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=95.32  E-value=0.0091  Score=47.02  Aligned_cols=23  Identities=26%  Similarity=0.332  Sum_probs=20.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+|+|.+|+||||+.+.|...
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La~~   39 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLAKN   39 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999999643

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.32  E-value=0.0076  Score=54.53  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=20.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|+|||||++.|.|..
T Consensus       119 ~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          119 VVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            59999999999999999998754

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=95.28  E-value=0.0077  Score=54.30  Aligned_cols=23  Identities=26%  Similarity=0.463  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|+|||||++.|.+-.
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          371 TVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            59999999999999999998753

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.26  E-value=0.0078  Score=54.46  Aligned_cols=23  Identities=35%  Similarity=0.497  Sum_probs=20.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|+|||||++.|.+-.
T Consensus       383 ~~~ivG~sGsGKSTll~~l~g~~  405 (598)
T 3qf4_B          383 KVALVGPTGSGKTTIVNLLMRFY  405 (598)
T ss_dssp             EEEEECCTTSSTTHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            59999999999999999997653

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=95.23  E-value=0.0091  Score=51.83  Aligned_cols=23  Identities=17%  Similarity=0.289  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|+|||||++.|.+..
T Consensus       159 ~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          159 RMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            49999999999999999998764

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=95.22  E-value=0.0091  Score=46.20  Aligned_cols=21  Identities=24%  Similarity=0.262  Sum_probs=19.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .++++|++|+|||||+..+.+
T Consensus        22 ~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           22 LTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999987

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=95.20  E-value=0.0094  Score=46.91  Aligned_cols=22  Identities=41%  Similarity=0.525  Sum_probs=20.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++++|++|+|||||+..+++.
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            5999999999999999999874

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.20  E-value=0.0089  Score=53.31  Aligned_cols=23  Identities=30%  Similarity=0.333  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|+|||||++.|.+-.
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998753

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli}

Probab=95.18  E-value=0.048  Score=44.42  Aligned_cols=64  Identities=20%  Similarity=0.181  Sum_probs=45.7

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCE-EEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPF-VVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pi-ivv~NK~D~~  159 (259)
                      +++|+|||+..... ........+|.+|+|+.+.......-...+..+...+.++ -+|+|++|..
T Consensus       203 D~VIIDtpp~~~~~-da~~l~~~aD~vllVv~~~~~~~~~~~~~~~~l~~~g~~~~GvVlN~v~~~  267 (286)
T 3la6_A          203 DLVLIDTPPILAVT-DAAIVGRHVGTTLMVARYAVNTLKEVETSLSRFEQNGIPVKGVILNSIFRR  267 (286)
T ss_dssp             SEEEEECCCTTTCT-HHHHHTTTCSEEEEEEETTTSBHHHHHHHHHHHHHTTCCCCEEEEEEECCC
T ss_pred             CEEEEcCCCCcchH-HHHHHHHHCCeEEEEEeCCCCcHHHHHHHHHHHHhCCCCEEEEEEcCcccc
Confidence            49999999854332 2334567899999999986644444455677777777664 4889999964

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=95.18  E-value=0.0071  Score=45.24  Aligned_cols=24  Identities=29%  Similarity=0.350  Sum_probs=20.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...+++.|++|+|||+++..+...
T Consensus        43 ~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           43 KNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             SCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHH
Confidence            456999999999999999999654

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=95.18  E-value=0.0069  Score=54.58  Aligned_cols=23  Identities=22%  Similarity=0.416  Sum_probs=20.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|+|||||++.|.+-.
T Consensus       369 ~~~ivG~sGsGKSTll~~l~g~~  391 (578)
T 4a82_A          369 TVAFVGMSGGGKSTLINLIPRFY  391 (578)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            59999999999999999997653

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.17  E-value=0.0071  Score=49.50  Aligned_cols=23  Identities=17%  Similarity=0.406  Sum_probs=17.4

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ...|+|.|.+||||||+.+.|..
T Consensus         5 ~~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            5 HPIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             SCEEEEESCC---CCTHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            45699999999999999999864

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=95.17  E-value=0.01  Score=46.44  Aligned_cols=24  Identities=17%  Similarity=0.383  Sum_probs=20.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...+++.|++|+||||++..+...
T Consensus        52 ~~~~ll~G~~G~GKT~la~~l~~~   75 (242)
T 3bos_A           52 VQAIYLWGPVKSGRTHLIHAACAR   75 (242)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            456999999999999999999654

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=95.09  E-value=0.065  Score=43.93  Aligned_cols=64  Identities=19%  Similarity=0.139  Sum_probs=46.5

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEE-EEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFV-VALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pii-vv~NK~D~~  159 (259)
                      +++|+|||+..... ........+|.+|+|+.............+..+...+.+++ +|+|++|..
T Consensus       215 D~VIIDtpp~~~~~-d~~~l~~~ad~vilV~~~~~~~~~~~~~~~~~l~~~~~~~~GvVlN~~~~~  279 (299)
T 3cio_A          215 DLVIVDTPPMLAVS-DAAVVGRSVGTSLLVARFGLNTAKEVSLSMQRLEQAGVNIKGAILNGVIKR  279 (299)
T ss_dssp             SEEEEECCCTTTCT-HHHHHGGGCSEEEEEEETTTSCTTHHHHHHHHHHHTTCCCCCEEEEECCCC
T ss_pred             CEEEEcCCCCchhH-HHHHHHHHCCEEEEEEcCCCChHHHHHHHHHHHHhCCCCeEEEEEeCCccC
Confidence            49999999954322 22234578999999999876655556667777777777655 789999964

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=95.08  E-value=0.012  Score=46.42  Aligned_cols=23  Identities=22%  Similarity=0.445  Sum_probs=20.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+|.|.+||||||+++.|...
T Consensus        27 ~~i~i~G~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           27 AFITFEGPEGSGKTTVINEVYHR   49 (229)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            45999999999999999999754

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=95.08  E-value=0.01  Score=50.47  Aligned_cols=21  Identities=29%  Similarity=0.374  Sum_probs=19.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .++++|++|+|||||++.|.+
T Consensus       171 ~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          171 YWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            599999999999999999975

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.07  E-value=0.012  Score=46.46  Aligned_cols=24  Identities=13%  Similarity=0.383  Sum_probs=20.7

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      +...|+++|.+|+||||+.+.|.+
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            344699999999999999999864

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.05  E-value=0.011  Score=52.84  Aligned_cols=23  Identities=22%  Similarity=0.429  Sum_probs=20.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|+|||||++.|.+..
T Consensus       314 ~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          314 VIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998764

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=95.02  E-value=0.034  Score=42.13  Aligned_cols=40  Identities=15%  Similarity=0.156  Sum_probs=27.3

Q ss_pred             CeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccc
Q psy6316         119 DIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDR  158 (259)
Q Consensus       119 d~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~  158 (259)
                      +.-++++|--........+.+..+...++++++.+...|-
T Consensus        76 ~~dvviIDE~Q~~~~~~~~~l~~l~~~~~~Vi~~Gl~~~f  115 (184)
T 2orw_A           76 DTRGVFIDEVQFFNPSLFEVVKDLLDRGIDVFCAGLDLTH  115 (184)
T ss_dssp             TEEEEEECCGGGSCTTHHHHHHHHHHTTCEEEEEEESBCT
T ss_pred             CCCEEEEECcccCCHHHHHHHHHHHHCCCCEEEEeecccc
Confidence            4568888865555444555666565668998888887773

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.01  E-value=0.0087  Score=54.02  Aligned_cols=22  Identities=32%  Similarity=0.684  Sum_probs=20.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++++|++|+|||||++.|.+-
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~  392 (587)
T 3qf4_A          371 LVAVLGETGSGKSTLMNLIPRL  392 (587)
T ss_dssp             EEEEECSSSSSHHHHHHTTTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5999999999999999999765

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.01  E-value=0.011  Score=53.49  Aligned_cols=23  Identities=22%  Similarity=0.429  Sum_probs=20.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|+|||||++.|.+..
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999998753

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=94.97  E-value=0.012  Score=48.13  Aligned_cols=22  Identities=18%  Similarity=0.326  Sum_probs=19.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..|+++|.+|+||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3599999999999999999975

>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=94.92  E-value=0.084  Score=43.34  Aligned_cols=22  Identities=18%  Similarity=0.303  Sum_probs=19.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..|++.|++|+|||++++.+..
T Consensus        39 ~~vll~G~~GtGKT~la~~i~~   60 (324)
T 1hqc_A           39 EHLLLFGPPGLGKTTLAHVIAH   60 (324)
T ss_dssp             CCCEEECCTTCCCHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            4599999999999999999954

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=94.91  E-value=0.011  Score=47.45  Aligned_cols=25  Identities=20%  Similarity=0.498  Sum_probs=21.4

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +...|+|.|.+|+||||+++.|...
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~   47 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQL   47 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHh
Confidence            3456999999999999999999654

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=94.87  E-value=0.015  Score=44.80  Aligned_cols=24  Identities=25%  Similarity=0.574  Sum_probs=20.8

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHh
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~   45 (259)
                      +.+...+|+|+.|+||||++.+|.
T Consensus        21 f~~~~~~I~G~NgsGKStil~ai~   44 (203)
T 3qks_A           21 FKEGINLIIGQNGSGKSSLLDAIL   44 (203)
T ss_dssp             CCSEEEEEECCTTSSHHHHHHHHH
T ss_pred             eCCCeEEEEcCCCCCHHHHHHHHH
Confidence            445678999999999999999985

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.79  E-value=0.013  Score=52.95  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=20.2

Q ss_pred             EEEEeeCCCChhHHHhHHhccc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ++++|+.|+|||||++.|.+-.
T Consensus       381 v~iiG~NGsGKSTLlk~l~Gl~  402 (608)
T 3j16_B          381 LVMMGENGTGKTTLIKLLAGAL  402 (608)
T ss_dssp             EEEESCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCC
Confidence            7999999999999999998764

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.76  E-value=0.017  Score=45.60  Aligned_cols=24  Identities=21%  Similarity=0.441  Sum_probs=20.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +..|++.|..|+||||+++.|...
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHH
Confidence            346999999999999999999654

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=94.76  E-value=0.015  Score=47.07  Aligned_cols=22  Identities=14%  Similarity=0.199  Sum_probs=19.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..++++|++|+|||||+..+++
T Consensus        31 ~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           31 TVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            4699999999999999999975

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=94.75  E-value=0.016  Score=45.14  Aligned_cols=26  Identities=27%  Similarity=0.299  Sum_probs=21.9

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+...|+|.|.+|+||||+++.|...
T Consensus         4 m~g~~i~~eG~~gsGKsT~~~~l~~~   29 (213)
T 4edh_A            4 MTGLFVTLEGPEGAGKSTNRDYLAER   29 (213)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHHHH
Confidence            66677999999999999999999643

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=94.75  E-value=0.016  Score=44.49  Aligned_cols=23  Identities=22%  Similarity=0.224  Sum_probs=20.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .-|+|+|++|+|||||...|...
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            34999999999999999999754

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=94.70  E-value=0.015  Score=45.77  Aligned_cols=24  Identities=25%  Similarity=0.427  Sum_probs=20.3

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      -||   ++++|.+||||||+...|...
T Consensus         8 ~~~---~~~~G~pGsGKsT~a~~L~~~   31 (230)
T 3gmt_A            8 HMR---LILLGAPGAGKGTQANFIKEK   31 (230)
T ss_dssp             -CE---EEEECCTTSCHHHHHHHHHHH
T ss_pred             ccc---eeeECCCCCCHHHHHHHHHHH
Confidence            366   999999999999999999643

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=94.69  E-value=0.016  Score=41.93  Aligned_cols=22  Identities=9%  Similarity=0.157  Sum_probs=19.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..|.+.|++|+|||+++..+..
T Consensus        28 ~~vll~G~~GtGKt~lA~~i~~   49 (143)
T 3co5_A           28 SPVFLTGEAGSPFETVARYFHK   49 (143)
T ss_dssp             SCEEEEEETTCCHHHHHGGGCC
T ss_pred             CcEEEECCCCccHHHHHHHHHH
Confidence            3499999999999999999853

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=94.68  E-value=0.013  Score=49.09  Aligned_cols=23  Identities=22%  Similarity=0.183  Sum_probs=20.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +++++.|++|+||||+++.+.+.
T Consensus        37 ~~~ll~Gp~G~GKTtl~~~la~~   59 (354)
T 1sxj_E           37 PHLLLYGPNGTGKKTRCMALLES   59 (354)
T ss_dssp             CCEEEECSTTSSHHHHHHTHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            34999999999999999999774

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=94.63  E-value=0.019  Score=45.49  Aligned_cols=27  Identities=22%  Similarity=0.341  Sum_probs=22.1

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .|+...|+|.|.+|+||||+++.|...
T Consensus        24 ~~~~~~i~~eG~~GsGKsT~~~~l~~~   50 (236)
T 3lv8_A           24 AMNAKFIVIEGLEGAGKSTAIQVVVET   50 (236)
T ss_dssp             --CCCEEEEEESTTSCHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            466677999999999999999999644

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=94.62  E-value=0.015  Score=47.32  Aligned_cols=24  Identities=21%  Similarity=0.250  Sum_probs=20.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...+++.|++|+|||++++++.+.
T Consensus        54 ~~~vll~Gp~GtGKT~la~~la~~   77 (297)
T 3b9p_A           54 AKGLLLFGPPGNGKTLLARAVATE   77 (297)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHH
Confidence            346999999999999999999653

>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=94.62  E-value=0.24  Score=41.42  Aligned_cols=22  Identities=27%  Similarity=0.256  Sum_probs=19.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .+++.|++|+||||++..+...
T Consensus        40 ~~ll~G~~G~GKT~la~~la~~   61 (373)
T 1jr3_A           40 AYLFSGTRGVGKTSIARLLAKG   61 (373)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999999654

>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=94.62  E-value=0.016  Score=46.11  Aligned_cols=24  Identities=21%  Similarity=0.223  Sum_probs=20.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +..|++.|++|+|||++++.+...
T Consensus        39 ~~~vll~G~~GtGKT~la~~la~~   62 (262)
T 2qz4_A           39 PKGALLLGPPGCGKTLLAKAVATE   62 (262)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            356999999999999999999653

>1e69_A Chromosome segregation SMC protein; structural maintenance of chromosomes, coiled coil; 3.1A {Thermotoga maritima} SCOP: c.37.1.12

Probab=94.58  E-value=0.017  Score=47.85  Aligned_cols=24  Identities=21%  Similarity=0.592  Sum_probs=21.2

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHh
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~   45 (259)
                      +.+...+|+|+.|+|||||+.+|.
T Consensus        22 ~~~g~~~i~G~NGsGKS~ll~ai~   45 (322)
T 1e69_A           22 FSDRVTAIVGPNGSGKSNIIDAIK   45 (322)
T ss_dssp             CCSSEEEEECCTTTCSTHHHHHHH
T ss_pred             cCCCcEEEECCCCCcHHHHHHHHH
Confidence            445579999999999999999996

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=94.56  E-value=0.016  Score=41.95  Aligned_cols=23  Identities=22%  Similarity=0.202  Sum_probs=20.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|.+.|++|+|||++...+...
T Consensus        25 ~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A           25 IAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             SCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CCEEEECCCCCCHHHHHHHHHHh
Confidence            34999999999999999999643

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=94.54  E-value=0.014  Score=45.12  Aligned_cols=21  Identities=19%  Similarity=0.203  Sum_probs=18.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .+++.|+||+||||++.+|..
T Consensus        60 ~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           60 CLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             EEEEESCGGGCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999888864

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=94.53  E-value=0.017  Score=46.74  Aligned_cols=24  Identities=21%  Similarity=0.250  Sum_probs=20.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...+++.|++|+|||++++++...
T Consensus        51 ~~~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           51 PKGILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             CSEEEEESSSSSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            345999999999999999999654

>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=94.53  E-value=0.013  Score=57.83  Aligned_cols=22  Identities=23%  Similarity=0.459  Sum_probs=19.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +|+++|++|+|||||++.|.+-
T Consensus      1107 ~vaIVG~SGsGKSTL~~lL~rl 1128 (1321)
T 4f4c_A         1107 TLALVGPSGCGKSTVVALLERF 1128 (1321)
T ss_dssp             EEEEECSTTSSTTSHHHHHTTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            5999999999999999999654

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=94.51  E-value=0.0067  Score=52.12  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=19.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHh
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~   45 (259)
                      +..++++|++|+|||||+++|.
T Consensus        60 ~G~~~lvG~NGaGKStLl~aI~   81 (415)
T 4aby_A           60 GGFCAFTGETGAGKSIIVDALG   81 (415)
T ss_dssp             SSEEEEEESHHHHHHHHTHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHH
Confidence            4579999999999999998884

>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=94.51  E-value=0.018  Score=44.75  Aligned_cols=22  Identities=27%  Similarity=0.256  Sum_probs=19.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .+++.|++|+||||++..+...
T Consensus        47 ~~ll~G~~G~GKT~l~~~~~~~   68 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLLAKG   68 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999654

>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=94.50  E-value=0.016  Score=44.48  Aligned_cols=23  Identities=30%  Similarity=0.244  Sum_probs=20.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +.+++.|++|+|||+++..+...
T Consensus        39 ~~~ll~G~~G~GKT~l~~~l~~~   61 (226)
T 2chg_A           39 PHLLFSGPPGTGKTATAIALARD   61 (226)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            35999999999999999999643

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=94.50  E-value=0.0023  Score=50.51  Aligned_cols=23  Identities=13%  Similarity=0.238  Sum_probs=20.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++|+|++|||||||+++|.+..
T Consensus        29 ~~~i~GpnGsGKSTll~~i~g~~   51 (227)
T 1qhl_A           29 VTTLSGGNGAGKSTTMAAFVTAL   51 (227)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            47899999999999999997654

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.48  E-value=0.021  Score=47.63  Aligned_cols=23  Identities=22%  Similarity=0.452  Sum_probs=20.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +.|+|+|++|+|||||...|...
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999999754

>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=94.44  E-value=0.019  Score=47.14  Aligned_cols=23  Identities=22%  Similarity=0.215  Sum_probs=20.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|++.|++|+|||+|++++.+.
T Consensus        50 ~~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           50 KGVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCcCHHHHHHHHHHH
Confidence            35999999999999999999754

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=94.44  E-value=0.018  Score=48.56  Aligned_cols=23  Identities=39%  Similarity=0.407  Sum_probs=20.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++|.|++|+||||+++.+.+..
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~   68 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELY   68 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            69999999999999999997553

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=94.44  E-value=0.043  Score=43.58  Aligned_cols=64  Identities=16%  Similarity=0.081  Sum_probs=42.8

Q ss_pred             CCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCC---------CCEEEEEeccccc
Q psy6316          94 PGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKK---------TPFVVALNKIDRL  159 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~---------~piivv~NK~D~~  159 (259)
                      .+++|+|||+...  ......+..+|.+|+|++++..........+..+...+         ..+.+|+|+.|..
T Consensus       114 yD~viiD~p~~~~--~~~~~~l~~ad~vi~v~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v~N~~~~~  186 (260)
T 3q9l_A          114 FEFIVCDSPAGIE--TGALMALYFADEAIITTNPEVSSVRDSDRILGILASKSRRAENGEEPIKEHLLLTRYNPG  186 (260)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHHTCSEEEEEECSSHHHHHHHHHHHHHHTTSSHHHHTTCSCCEEEEEEEEECHH
T ss_pred             CCEEEEcCCCCCC--HHHHHHHHhCCEEEEEecCChhHHHHHHHHHHHHHHhccccccccCCcceEEEEecCCcc
Confidence            4599999998543  35566778999999999975422222233445554433         4567899999854

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=94.41  E-value=0.065  Score=41.88  Aligned_cols=63  Identities=19%  Similarity=0.135  Sum_probs=43.2

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~  159 (259)
                      +++|+|||+...  ......+..+|.+++|+.++..........+..+...+.+ .-+|+|+.+..
T Consensus       113 D~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~~~~~~~~~~~~~~~l~~~~~~~~~vv~N~~~~~  176 (237)
T 1g3q_A          113 DFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPEISCLTDTMKVGIVLKKAGLAILGFVLNRYGRS  176 (237)
T ss_dssp             SEEEEECCSSSS--HHHHHHHTTCSEEEEEECSCHHHHHHHHHHHHHHHHTTCEEEEEEEEEETSC
T ss_pred             CEEEEECCCCcC--HHHHHHHHHCCeEEEEecCCcccHHHHHHHHHHHHhCCCceEEEEEecCCcc
Confidence            599999998543  4455677899999999987542222234455666665654 45889999964

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=94.41  E-value=0.021  Score=46.70  Aligned_cols=23  Identities=22%  Similarity=0.251  Sum_probs=19.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..+++.|+||+|||+|+.++...
T Consensus        37 ~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           37 LILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            35778899999999999999643

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=94.37  E-value=0.013  Score=52.43  Aligned_cols=23  Identities=22%  Similarity=0.260  Sum_probs=20.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+++|.+|||||||++.|.+.
T Consensus       370 ~iI~LiG~sGSGKSTLar~La~~  392 (552)
T 3cr8_A          370 FTVFFTGLSGAGKSTLARALAAR  392 (552)
T ss_dssp             EEEEEEESSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCChHHHHHHHHHHh
Confidence            46999999999999999999765

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=94.37  E-value=0.017  Score=48.19  Aligned_cols=23  Identities=30%  Similarity=0.351  Sum_probs=20.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +++++.|++|+||||+++.+.+.
T Consensus        47 ~~~ll~Gp~G~GKTtla~~la~~   69 (340)
T 1sxj_C           47 PHLLFYGPPGTGKTSTIVALARE   69 (340)
T ss_dssp             CCEEEECSSSSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            34999999999999999999765

>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell division, cell cycle; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.10

Probab=94.36  E-value=0.044  Score=43.68  Aligned_cols=63  Identities=17%  Similarity=0.192  Sum_probs=42.2

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~  159 (259)
                      +++|+|||+...  ......+..+|.+|+|+.++..........+..+...+.+ +-+|+|++|..
T Consensus       112 D~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~~~~~~~~~~~~~~~l~~~~~~~~~vv~N~~~~~  175 (263)
T 1hyq_A          112 DILLLDAPAGLE--RSAVIAIAAAQELLLVVNPEISSITDGLKTKIVAERLGTKVLGVVVNRITTL  175 (263)
T ss_dssp             SEEEEECCSSSS--HHHHHHHHHSSEEEEEECSSHHHHHHHHHHHHHHHHHTCEEEEEEEEEECTT
T ss_pred             CEEEEeCCCCCC--hHHHHHHHHCCEEEEEeCCChhHHHHHHHHHHHHHhcCCCeeEEEEccCCcc
Confidence            599999998543  4455667889999999987542222233455555555544 45899999964

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.34  E-value=0.021  Score=47.39  Aligned_cols=23  Identities=22%  Similarity=0.391  Sum_probs=20.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+|+|++|+|||||...|...
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~   28 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADA   28 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999999654

>3qkt_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATP binding, DNA bindi MRE11, replication; HET: DNA ANP; 1.90A {Pyrococcus furiosus} PDB: 3qku_A* 1ii8_A 3qks_B* 3qkr_B* 1ii8_B

Probab=94.31  E-value=0.023  Score=47.49  Aligned_cols=25  Identities=24%  Similarity=0.525  Sum_probs=20.9

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      +.+...+|+|+.|+||||++.+++.
T Consensus        21 f~~~~~~i~G~NGsGKS~lleAi~~   45 (339)
T 3qkt_A           21 FKEGINLIIGQNGSGKSSLLDAILV   45 (339)
T ss_dssp             CCSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHH
Confidence            3456689999999999999999853

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=94.27  E-value=0.026  Score=43.90  Aligned_cols=26  Identities=27%  Similarity=0.367  Sum_probs=21.3

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+...|+|.|.+|+||||.++.|...
T Consensus         1 m~g~~i~~eG~~gsGKsT~~~~l~~~   26 (213)
T 4tmk_A            1 MRSKYIVIEGLEGAGKTTARNVVVET   26 (213)
T ss_dssp             -CCCEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34456999999999999999999644

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=94.23  E-value=0.022  Score=54.12  Aligned_cols=24  Identities=17%  Similarity=0.290  Sum_probs=21.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhcccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      .++++|+.|+|||||++.|.+..+
T Consensus       463 ~v~LiGpNGsGKSTLLk~LagG~i  486 (986)
T 2iw3_A          463 RYGICGPNGCGKSTLMRAIANGQV  486 (986)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHTCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCc
Confidence            489999999999999999986543

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.20  E-value=0.023  Score=47.39  Aligned_cols=23  Identities=17%  Similarity=0.447  Sum_probs=20.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+|+|++|+|||||...|...
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~   30 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKK   30 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHHH
Confidence            46999999999999999999653

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=94.17  E-value=0.026  Score=42.28  Aligned_cols=21  Identities=24%  Similarity=0.355  Sum_probs=19.3

Q ss_pred             EEEEeeCCCChhHHHhHHhcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~   47 (259)
                      |++.|++|+||||+.-.|...
T Consensus        19 vli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           19 VLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             EEEEESSSSSHHHHHHHHHHT
T ss_pred             EEEEcCCCCCHHHHHHHHHHc
Confidence            999999999999999999754

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.16  E-value=0.027  Score=44.28  Aligned_cols=22  Identities=27%  Similarity=0.318  Sum_probs=18.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++++|++|+|||||+..++..
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~~   46 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLWN   46 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999998777543

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=94.14  E-value=0.03  Score=49.42  Aligned_cols=25  Identities=12%  Similarity=0.206  Sum_probs=21.8

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +.++++|+|.+|+|||++++.|+..
T Consensus       166 ~~pHlLIaG~TGSGKSt~L~~li~s  190 (512)
T 2ius_A          166 KMPHLLVAGTTGSGASVGVNAMILS  190 (512)
T ss_dssp             GSCSEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCceEEEECCCCCCHHHHHHHHHHH
Confidence            3478999999999999999998653

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=94.10  E-value=0.023  Score=47.79  Aligned_cols=24  Identities=21%  Similarity=0.326  Sum_probs=20.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...++|.|++|+|||||++.+.+.
T Consensus        45 ~~~vli~G~~G~GKTtl~~~l~~~   68 (386)
T 2qby_A           45 PNNIFIYGLTGTGKTAVVKFVLSK   68 (386)
T ss_dssp             CCCEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            346999999999999999999754

---

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	259
d2c78a3	204	c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N	9e-20
d2bv3a2	276	c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-t	8e-19
d1g7sa2	128	b.43.3.1 (A:460-587) Initiation factor IF2/eIF5b,	1e-18
d1yrba1	244	c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB09	2e-18
d1g7sa4	227	c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-	4e-18
d1d2ea3	196	c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu),	7e-17
d1n0ua2	341	c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-	5e-16
d1jnya3	224	c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N	2e-14
d1f60a3	239	c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N	3e-13
d1zunb3	222	c.37.1.8 (B:16-237) Sulfate adenylate transferase	4e-13
d2qn6a3	205	c.37.1.8 (A:2-206) Initiation factor eIF2 gamma su	2e-09
d2dy1a2	267	c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-t	2e-08
d1r5ba3	245	c.37.1.8 (A:215-459) Eukaryotic peptide chain rele	3e-07
d1kk1a3	195	c.37.1.8 (A:6-200) Initiation factor eIF2 gamma su	1e-06
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	4e-06
d1mkya2	186	c.37.1.8 (A:173-358) Probable GTPase Der, N-termin	2e-05
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	2e-05
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	6e-05
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	7e-05
d2cxxa1	184	c.37.1.8 (A:2-185) GTP-binding protein engB {Pyroc	1e-04
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	1e-04
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	1e-04
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	2e-04
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	4e-04
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	0.002
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	0.003
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	0.003

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]} Length = 204

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

 Score = 82.3 bits (203), Expect = 9e-20
 Identities = 42/191 (21%), Positives = 64/191 (33%), Gaps = 44/191 (23%)

Query: 27  VCVLGHVDTGKTKILDKL-----------------RRTNVQDGEAGGITQQIGATNVPAD 69
           V  +GHVD GKT +   L                       +  A GIT           
Sbjct: 6   VGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETA 65

Query: 70  AIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMH 129
               +                        +D PGH  +      G++  D AILVV    
Sbjct: 66  KRHYS-----------------------HVDCPGHADYIKNMITGAAQMDGAILVVSAAD 102

Query: 130 GLEPQTIESINILKSKKTPFVV-ALNKIDRLYNWNTMNR--RDVRDIIKSQE-SSVQTHK 185
           G  PQT E I + +    P++V  +NK+D + +   ++    +VRD++   E    +   
Sbjct: 103 GPMPQTREHILLARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPV 162

Query: 186 TVESARKGQEI 196
              SA    E 
Sbjct: 163 IRGSALLALEQ 173

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]} Length = 276

class: 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]

 Score = 81.3 bits (200), Expect = 8e-19
 Identities = 30/156 (19%), Positives = 59/156 (37%), Gaps = 5/156 (3%)

Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVG 86
           + +  H+D GKT   +++     +  + G + +     +                     
Sbjct: 9   IGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFW 68

Query: 87  GPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKK 146
               + I     ID PGH  F+    R   + D AI+V D   G+EPQ+       +  K
Sbjct: 69  KDHRINI-----IDAPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYK 123

Query: 147 TPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
            P +   NK+D+      +  R +++ + ++   +Q
Sbjct: 124 VPRIAFANKMDKTGADLWLVIRTMQERLGARPVVMQ 159

>d1g7sa2 b.43.3.1 (A:460-587) Initiation factor IF2/eIF5b, domains 2 and 4 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Length = 128

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Initiation factor IF2/eIF5b, domains 2 and 4
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

 Score = 77.1 bits (190), Expect = 1e-18
 Identities = 17/85 (20%), Positives = 35/85 (41%), Gaps = 7/85 (8%)

Query: 174 IKSQESSVQTH-KTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDA 232
                 S+Q   + ++SA +GQ++ + I+        ++G+   E D L   I       
Sbjct: 45  TVGTVESMQDKGENLKSASRGQKVAMAIKDA------VYGKTIHEGDTLYVDIPENHYHI 98

Query: 233 CKDYFRDDLQKTDWQLMVDLKKVFQ 257
            K+    DL   +  LM  + ++ +
Sbjct: 99  LKEQLSGDLTDEELDLMDKIAEIKR 123

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]} Length = 244

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]

 Score = 80.0 bits (196), Expect = 2e-18
 Identities = 30/199 (15%), Positives = 57/199 (28%), Gaps = 35/199 (17%)

Query: 26  IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADA---IRENTKHVRGPG 82
           IV  +G   +GKT +  +  R    + +   +    G   +P +    +RE         
Sbjct: 2   IVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVNLDTGVKELPYEPSIDVREFVTVEEIMR 61

Query: 83  GEVGGPGPLEIPGLLI----------------------IDTPGHESFSNLRNRGSSLCD- 119
              G  G +      +                      IDTPG          G  L + 
Sbjct: 62  EGYGPNGAIVESYDRLMEKFNEYLNKILRLEKENDYVLIDTPGQMETFLFHEFGVRLMEN 121

Query: 120 ----IAILVVDIMHGLEPQTIESINILKSK-----KTPFVVALNKIDRLYNWNTMNRRDV 170
               + + + D     +P     +               + ALNK+D L        R  
Sbjct: 122 LPYPLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSEEEKERHRKY 181

Query: 171 RDIIKSQESSVQTHKTVES 189
            + I    + ++   +++ 
Sbjct: 182 FEDIDYLTARLKLDPSMQG 200

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Length = 227

class: 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]

 Score = 78.6 bits (192), Expect = 4e-18
 Identities = 83/211 (39%), Positives = 111/211 (52%), Gaps = 8/211 (3%)

Query: 22  MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           +R+ IV VLGHVD GKT +LD +R + V   EAGGITQ IGAT +P D I          
Sbjct: 3   IRSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFL-- 60

Query: 82  GGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
                      +PGL  IDTPGHE+F+ LR RG +L D+AIL+VDI  G +PQT E++NI
Sbjct: 61  ---KKFSIRETLPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNI 117

Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESAR-KGQEICIKI 200
           L+  +TPFVVA NKIDR++ W     R   +    Q+  VQ     +     G+      
Sbjct: 118 LRMYRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLDTKVYELVGKLHEEGF 177

Query: 201 EPIPGEAPKMFGRHFDENDFLVSKISRQSID 231
           E    +    F      +   +S I+ + I 
Sbjct: 178 ESERFDRVTDFASQV--SIIPISAITGEGIP 206

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]} Length = 196

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

 Score = 74.3 bits (182), Expect = 7e-17
 Identities = 38/189 (20%), Positives = 60/189 (31%), Gaps = 43/189 (22%)

Query: 27  VCVLGHVDTGKTKILDKLRRT----------------NVQDGEAGGITQQIGATNVPADA 70
           V  +GHVD GKT +   + +                 N  +  A GIT           A
Sbjct: 6   VGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAA 65

Query: 71  IRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG 130
                                        D PGH  +      G++  D  ILVV    G
Sbjct: 66  RHYA-----------------------HTDCPGHADYVKNMITGTAPLDGCILVVAANDG 102

Query: 131 LEPQTIESINILKS-KKTPFVVALNKIDRLYNWNTMNR--RDVRDIIKSQESSVQTHKTV 187
             PQT E + + +       VV +NK D + +   +     ++R+++       +    +
Sbjct: 103 PMPQTREHLLLARQIGVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPII 162

Query: 188 E-SARKGQE 195
             SA    E
Sbjct: 163 VGSALCALE 171

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 341

class: 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]

 Score = 74.4 bits (182), Expect = 5e-16
 Identities = 39/180 (21%), Positives = 77/180 (42%), Gaps = 25/180 (13%)

Query: 9   REKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTN--VQDGEAG----------- 55
            +++    +    +R   + V+ HVD GK+ + D L +    +   +AG           
Sbjct: 4   VDQMRSLMDKVTNVRN--MSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDE 61

Query: 56  ---GITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRN 112
              GIT +  A ++ ++   E+ K ++                + +ID+PGH  FS+   
Sbjct: 62  QERGITIKSTAISLYSEMSDEDVKEIKQKTDGNS-------FLINLIDSPGHVDFSSEVT 114

Query: 113 RGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRD 172
               + D A++VVD + G+  QT   +     ++   VV +NK+DR      +++ D+  
Sbjct: 115 AALRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPVVVINKVDRALLELQVSKEDLYQ 174

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]} Length = 224

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

 Score = 68.7 bits (167), Expect = 2e-14
 Identities = 38/152 (25%), Positives = 57/152 (37%), Gaps = 24/152 (15%)

Query: 27  VCVLGHVDTGKTKILDKL------------RRTNVQDGEAGGITQQIGATNVPADAIREN 74
           + V+GHVD GK+ ++ +L            +       + G  +++           RE 
Sbjct: 6   LIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERER 65

Query: 75  TKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG---- 130
              +                   IID PGH  F      G+S  D AILVV    G    
Sbjct: 66  GVTINLTFMRFETKKYFFT----IIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEA 121

Query: 131 ---LEPQTIESINILKSKKTPF-VVALNKIDR 158
              +E QT E I + K+      +VA+NK+D 
Sbjct: 122 GMSVEGQTREHIILAKTMGLDQLIVAVNKMDL 153

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 239

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 65.0 bits (158), Expect = 3e-13
 Identities = 41/198 (20%), Positives = 68/198 (34%), Gaps = 20/198 (10%)

Query: 27  VCVLGHVDTGKTKILDKL-----RRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGP 81
           V V+GHVD+GK+     L             +      ++G  +     + +  K  R  
Sbjct: 9   VVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERER 68

Query: 82  GGEV-GGPGPLEIPG--LLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG-------L 131
           G  +       E P   + +ID PGH  F      G+S  D AIL++    G        
Sbjct: 69  GITIDIALWKFETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISK 128

Query: 132 EPQTIESINILKSKKTP-FVVALNKIDRLYN----WNTMNRRDVRDIIKSQESSVQTHKT 186
           + QT E   +  +      +VA+NK+D +      +  + +     I K   +       
Sbjct: 129 DGQTREHALLAFTLGVRQLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFV 188

Query: 187 VESARKGQEICIKIEPIP 204
             S   G  +       P
Sbjct: 189 PISGWNGDNMIEATTNAP 206

>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]} Length = 222

class: 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]

 Score = 64.5 bits (156), Expect = 4e-13
 Identities = 42/199 (21%), Positives = 69/199 (34%), Gaps = 27/199 (13%)

Query: 27  VCVLGHVDTGKTKILDKL----------------RRTNVQDGEAGGITQQIGATNVPADA 70
               G+VD GK+ ++ +L                R +         +   +    + A+ 
Sbjct: 12  FLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAER 71

Query: 71  IRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG 130
            +  T  V                  +I DTPGHE ++     G+S CD+AI++VD  +G
Sbjct: 72  EQGITIDVAYRYFST------AKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYG 125

Query: 131 LEPQTIESINILKSKKTPFVVALNKIDRLYNWNTM-NRRDVRDIIKSQESSVQTHKTVE- 188
           ++ QT     I        +V       L  ++         D +K  E       T+  
Sbjct: 126 VQTQTRRHSYIASLLGIKHIVVAINKMDLNGFDERVFESIKADYLKFAEGIAFKPTTMAF 185

Query: 189 ---SARKGQEICIKIEPIP 204
              SA KG  +  K E  P
Sbjct: 186 VPMSALKGDNVVNKSERSP 204

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]} Length = 205

class: 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]

 Score = 53.4 bits (127), Expect = 2e-09
 Identities = 38/190 (20%), Positives = 58/190 (30%), Gaps = 14/190 (7%)

Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDG----------EAGGITQQIGATNVPADAIRENTK 76
           + V+GHVD GKT ++  +                  + G     IG            T+
Sbjct: 11  IGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTE 70

Query: 77  HVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI 136
                 G    P  L    +  ID PGHE        G++L D AILVV           
Sbjct: 71  PSCKSCGSDDEPKFLRR--ISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQT 128

Query: 137 ES--INILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQ 194
               + +        ++  NK+D +     +++            +        SA    
Sbjct: 129 REHFVALGIIGVKNLIIVQNKVDVVSKEEALSQYRQIKQFTKGTWAENVPIIPVSALHKI 188

Query: 195 EICIKIEPIP 204
            I   IE I 
Sbjct: 189 NIDSLIEGIE 198

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]} Length = 267

class: 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]

 Score = 51.8 bits (123), Expect = 2e-08
 Identities = 25/144 (17%), Positives = 53/144 (36%), Gaps = 7/144 (4%)

Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADA-IRENTKHVRGPGGEV 85
           V ++GH  +GKT + + L          G + +    T+   +A +   T          
Sbjct: 5   VALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVA---- 60

Query: 86  GGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSK 145
             P       + ++D PG+  F           D A++ V    G++  T  +  + +  
Sbjct: 61  --PLLFRGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGTERAWTVAERL 118

Query: 146 KTPFVVALNKIDRLYNWNTMNRRD 169
             P +V + K+D+  ++  +    
Sbjct: 119 GLPRMVVVTKLDKGGDYYALLEDL 142

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 245

class: 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]

 Score = 47.9 bits (113), Expect = 3e-07
 Identities = 37/219 (16%), Positives = 79/219 (36%), Gaps = 25/219 (11%)

Query: 10  EKIEENPEDENFMRAAI-VCVLGHVDTGKTKILDKLRR-----TNVQDGEAGGITQQIGA 63
            ++++    + + +  + +  +GHVD GK+ +   +             +     ++ G 
Sbjct: 9   NEVDQELLKDMYGKEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGK 68

Query: 64  TNVPADAIRENTKHVRGPGGEVGGPGPLE---IPGLLIIDTPGHESFSNLRNRGSSLCDI 120
            +       ++T   R  G  V               ++D PGH+ +      G+S  DI
Sbjct: 69  ESWYLSWALDSTSEEREKGKTVEVGRAYFETEHRRFSLLDAPGHKGYVTNMINGASQADI 128

Query: 121 AILVVDIMHGLEP-------QTIESINILKSKKTPF-VVALNKIDR-LYNWNTMNRRDVR 171
            +LV+    G          QT E   + +++     VV +NK+D     W+    ++  
Sbjct: 129 GVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQWSEERYKECV 188

Query: 172 DIIKSQESSVQTHKTVE-------SARKGQEICIKIEPI 203
           D +      V  + +         SA  GQ +  +++  
Sbjct: 189 DKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVDSS 227

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]} Length = 195

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

 Score = 45.7 bits (107), Expect = 1e-06
 Identities = 42/175 (24%), Positives = 64/175 (36%), Gaps = 5/175 (2%)

Query: 27  VCVLGHVDTGKTKILDKLRRT---NVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGG 83
           + ++GHVD GKT +   L         +    GIT +IG  +          ++   P  
Sbjct: 8   IGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVC 67

Query: 84  EVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIM-HGLEPQTIESINIL 142
              G     +  +  ID PGHE+       G+SL D AILV+        PQT E +  L
Sbjct: 68  PYCGHETEFVRRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMAL 127

Query: 143 KSKKTP-FVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEI 196
           +       ++A NKI+ +     +              +        SA  G  I
Sbjct: 128 QIIGQKNIIIAQNKIELVDKEKALENYRQIKEFIEGTVAENAPIIPISALHGANI 182

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 43.6 bits (102), Expect = 4e-06
 Identities = 30/171 (17%), Positives = 52/171 (30%), Gaps = 25/171 (14%)

Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVG 86
           + ++G    GK+ +L +             +  +   + +    I    K V   G +V 
Sbjct: 5   ILLIGDSGVGKSCLLVRF------------VEDKFNPSFITTIGIDFKIKTVDINGKKVK 52

Query: 87  GPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKK 146
                    L I DT G E F  +           ILV DI      +T  +I       
Sbjct: 53  ---------LQIWDTAGQERFRTITTAYYRGAMGIILVYDITD---ERTFTNIKQWFKTV 100

Query: 147 TPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVE-SARKGQEI 196
                   ++  + N + M  R V        +       +E SA+    +
Sbjct: 101 NEHANDEAQLLLVGNKSDMETRVVTADQGEALAKELGIPFIESSAKNDDNV 151

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

 Score = 42.0 bits (97), Expect = 2e-05
 Identities = 24/182 (13%), Positives = 55/182 (30%), Gaps = 15/182 (8%)

Query: 16  PEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENT 75
           PE  + ++ AIV   G  + GK+ + + +                + +          + 
Sbjct: 3   PEITDAIKVAIV---GRPNVGKSTLFNAILNKER----------ALVSPIPGTTRDPVDD 49

Query: 76  KHVRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT 135
           +        V            +      +  +          D+ ++V+D   G+  Q 
Sbjct: 50  EVFIDGRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQD 109

Query: 136 IESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVE-SARKGQ 194
                +++ +    VV  NK D + +           + + +   +     +  SA KG 
Sbjct: 110 QRMAGLMERRGRASVVVFNKWDLVVHREKRYDEF-TKLFREKLYFIDYSPLIFTSADKGW 168

Query: 195 EI 196
            I
Sbjct: 169 NI 170

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 41.7 bits (97), Expect = 2e-05
 Identities = 18/103 (17%), Positives = 29/103 (28%), Gaps = 21/103 (20%)

Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVG 86
           + ++G    GKT +L +             I                  + +   G  + 
Sbjct: 9   LLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDF------------KIRTIELDGKRIK 56

Query: 87  GPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMH 129
                    L I DT G E F  +           +LV DI +
Sbjct: 57  ---------LQIWDTAGQERFRTITTAYYRGAMGIMLVYDITN 90

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.2 bits (93), Expect = 6e-05
 Identities = 26/174 (14%), Positives = 51/174 (29%), Gaps = 30/174 (17%)

Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVG 86
           V ++G    GK+ +L +  R          I  +    ++  D                 
Sbjct: 7   VVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDG---------------- 50

Query: 87  GPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIM----HGLEPQTIESINIL 142
                +     I DT G E +  + +        A+LV DI     +    + ++ +   
Sbjct: 51  -----KTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDH 105

Query: 143 KSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEI 196
                  ++  NK D  +              K+  S ++T     SA     +
Sbjct: 106 ADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIET-----SALDSTNV 154

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.2 bits (93), Expect = 7e-05
 Identities = 35/182 (19%), Positives = 59/182 (32%), Gaps = 31/182 (17%)

Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVG 86
           + ++G+   GKT ++ +  +     G+   I                  K V   G +V 
Sbjct: 8   IVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDF------------MIKTVEINGEKVK 55

Query: 87  GPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLE----PQTIESINIL 142
                    L I DT G E F ++        +  IL  DI         P+ +  I   
Sbjct: 56  ---------LQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQY 106

Query: 143 KSKKTPFVVALNKIDRLYNWNTMNRRDVRDI----IKSQESSVQTHKTVESARKGQEICI 198
            S K   V+  NKID         +R         +   E+S +    VE      ++  
Sbjct: 107 ASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLF--LDLAC 164

Query: 199 KI 200
           ++
Sbjct: 165 RL 166

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

 Score = 39.7 bits (91), Expect = 1e-04
 Identities = 28/172 (16%), Positives = 58/172 (33%), Gaps = 2/172 (1%)

Query: 25  AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGE 84
           A +   G  + GK+ ++ +L    V+ G+  G+T++I       +    +        G 
Sbjct: 1   ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKII-EIEWKNHKIIDMPGFGFMMGL 59

Query: 85  VGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKS 144
                      ++       ++               I+      G  P  +E    L+ 
Sbjct: 60  PKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE 119

Query: 145 KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEI 196
              P +VA+NK+D++ N        + +  +   S +       SA+ G  I
Sbjct: 120 LDIPTIVAVNKLDKIKNVQ-EVINFLAEKFEVPLSEIDKVFIPISAKFGDNI 170

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.5 bits (91), Expect = 1e-04
 Identities = 28/172 (16%), Positives = 51/172 (29%), Gaps = 29/172 (16%)

Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVG 86
             V+G+  TGK+ +L +      +D     I  + G+  +                    
Sbjct: 8   FLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGG---------------- 51

Query: 87  GPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSK- 145
                +   L I DT G E F ++          A+LV DI        + +        
Sbjct: 52  -----KYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARML 106

Query: 146 --KTPFVVALNKIDRLYNWNTMNRRDVRDIIKS-----QESSVQTHKTVESA 190
             +   ++       L     +   +     +       E+S  T + VE A
Sbjct: 107 ASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEA 158

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.4 bits (91), Expect = 1e-04
 Identities = 21/110 (19%), Positives = 32/110 (29%), Gaps = 21/110 (19%)

Query: 18  DENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKH 77
           DE+ +    + ++G    GK+ +L +          A  I        +  D  +     
Sbjct: 1   DEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAK--- 57

Query: 78  VRGPGGEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDI 127
                             L I DT G E F  L           ILV D+
Sbjct: 58  ------------------LAIWDTAGQERFRTLTPSYYRGAQGVILVYDV 89

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 39.1 bits (90), Expect = 2e-04
 Identities = 18/103 (17%), Positives = 29/103 (28%), Gaps = 21/103 (20%)

Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVG 86
           + ++G+   GKT  L +                      V    I    K +      + 
Sbjct: 8   ILIIGNSSVGKTSFLFRY------------ADDSFTPAFVSTVGIDFKVKTIYRNDKRIK 55

Query: 87  GPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMH 129
                    L I DT G E +  +           IL+ DI +
Sbjct: 56  ---------LQIWDTAGQERYRTITTAYYRGAMGFILMYDITN 89

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.5 bits (88), Expect = 4e-04
 Identities = 24/157 (15%), Positives = 44/157 (28%), Gaps = 33/157 (21%)

Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVG 86
           V  +G  D+GKT +  +L     +D +   IT       V  +     T           
Sbjct: 3   VLFVGLCDSGKTLLFVRLLTGQYRDTQT-SITDSSAIYKVNNNRGNSLT----------- 50

Query: 87  GPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEP--------QTIES 138
                     LI           L +R  S     + VVD                 +  
Sbjct: 51  ----------LIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLI 100

Query: 139 INILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK 175
            ++        ++A NK D        + + ++  ++
Sbjct: 101 DSMALKNSPSLLIACNKQDIA---MAKSAKLIQQQLE 134

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]} Length = 400

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.3 bits (83), Expect = 0.002
 Identities = 28/161 (17%), Positives = 45/161 (27%), Gaps = 30/161 (18%)

Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVG 86
           V V G   +GK+  ++ LR    ++  A   T  +  T         N  +V        
Sbjct: 59  VAVTGETGSGKSSFINTLRGIGNEEEGAAK-TGVVEVTMERHPYKHPNIPNVV------- 110

Query: 87  GPGPLEIPGLLIIDTPGHESFSN-----LRNRGSSLCDIAILVVDIMHGLEPQTIESINI 141
                        D PG  S +      L        D  I++       +   I+    
Sbjct: 111 -----------FWDLPGIGSTNFPPDTYLEKMKFYEYDFFIIISA--TRFKKNDIDIAKA 157

Query: 142 LKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQ 182
           +   K  F     K+D        N  D       +E  +Q
Sbjct: 158 ISMMKKEFYFVRTKVDSDIT----NEADGEPQTFDKEKVLQ 194

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 209

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 35.8 bits (81), Expect = 0.003
 Identities = 22/222 (9%), Positives = 52/222 (23%), Gaps = 17/222 (7%)

Query: 23  RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPG 82
               + + G  ++GKT +L  L                    +              G G
Sbjct: 2   YQPSIIIAGPQNSGKTSLLTLLT-----TDSVRPTVVSQEPLSA---------ADYDGSG 47

Query: 83  GEVGGPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL 142
             +            + D     +             +    +          +      
Sbjct: 48  VTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESS 107

Query: 143 KSKKTPFVVALNKIDRLYNWNTMNRRDV--RDIIKSQESSVQTHKTVE-SARKGQEICIK 199
                  ++A NK +          +D    +I K  E   ++   VE    +       
Sbjct: 108 CENGIDILIACNKSELFTARPPSKIKDALESEIQKVIERRKKSLNEVERKINEEDYAENT 167

Query: 200 IEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRDDL 241
           ++ +       F             I+++ I   +++  + L
Sbjct: 168 LDVLQSTDGFKFANLEASVVAFEGSINKRKISQWREWIDEKL 209

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 35.2 bits (80), Expect = 0.003
 Identities = 18/103 (17%), Positives = 31/103 (30%), Gaps = 21/103 (20%)

Query: 27  VCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVG 86
           + ++G+   GK+ +L +                      +    +    K V   G  V 
Sbjct: 9   LLLIGNSGVGKSCLLLRF------------SDDTYTNDYISTIGVDFKIKTVELDGKTVK 56

Query: 87  GPGPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMH 129
                    L I DT G E F  + +         I+V D+  
Sbjct: 57  ---------LQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTD 90

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	259
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.94
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.93
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.92
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.91
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.91
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.91
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.91
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.91
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.91
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.91
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.91
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.9
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.9
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.9
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.9
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.9
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.9
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.89
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.89
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.89
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.89
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.89
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.89
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.89
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.89
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.89
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.89
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.89
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.89
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.89
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.88
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.88
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.88
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.88
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.88
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.88
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.88
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.88
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.88
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.88
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.88
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.88
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.88
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.88
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.87
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.87
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.87
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.87
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.87
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.87
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.86
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.86
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.86
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.86
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.86
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.86
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.85
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.85
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.84
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.84
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.83
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.83
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.83
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.83
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.83
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.82
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.81
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.81
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.79
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.78
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.78
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.78
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.78
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.75
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.74
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.71
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.69
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.68
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.68
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.65
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.64
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.53
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.5
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.5
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	99.27
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	99.23
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	99.23
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	99.21
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	99.17
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	98.93
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	98.93
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.83
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.7
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.56
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.52
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.52
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.49
d1okkd2	207	GTPase domain of the signal recognition particle r	98.49
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	98.47
d1ls1a2	207	GTPase domain of the signal sequence recognition p	98.44
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.37
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.01
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.85
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	97.81
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.61
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.56
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	97.54
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	97.53
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.45
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.36
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.35
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.33
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.31
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	97.3
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.13
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.12
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.08
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.08
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.05
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.04
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	97.03
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.02
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.99
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.97
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.97
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.95
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.94
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.93
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.9
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.89
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.89
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.88
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.88
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.87
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.86
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.86
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.85
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.84
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.82
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.81
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.81
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.8
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.8
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.8
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.79
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.77
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.76
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.75
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.74
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.73
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.72
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.71
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.66
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.66
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.65
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.64
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.63
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.61
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.6
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.59
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.59
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.59
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.58
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.53
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.51
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.47
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.46
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.45
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.42
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.38
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.29
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.25
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.25
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.25
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.24
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.2
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.13
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.08
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.94
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.93
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.92
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	95.88
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	95.85
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.84
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	95.7
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	95.65
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.63
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	95.49
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	95.49
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	95.46
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.37
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	95.37
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.28
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	95.26
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	95.21
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.08
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	95.06
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.02
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	94.99
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.9
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.74
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	94.65
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	94.62
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.54
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.36
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.34
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.3
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	94.25
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	94.19
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	94.09
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	94.05
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	93.99
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	93.95
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	93.91
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	93.79
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	93.78
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	93.72
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	93.71
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	93.7
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	93.64
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	93.45
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	93.4
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	93.39
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	93.17
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	93.02
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	92.99
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	92.87
d1tuea_	205	Replication protein E1 helicase domain {Human papi	92.86
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	92.83
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	92.72
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	92.49
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	92.42
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	92.28
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	92.26
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	92.06
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	91.97
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	91.89
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	91.75
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	91.63
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	91.31
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	91.28
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	90.77
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	90.46
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	90.28
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	89.97
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	89.92
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	89.85
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	89.78
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	89.66
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	88.36
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	88.17
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	87.81
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	87.12
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	86.71
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	86.12
d1xpua3	289	Transcription termination factor Rho, ATPase domai	86.0
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	84.94
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	84.04
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	82.33
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	82.25
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	80.08

>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=99.94  E-value=6.6e-28  Score=191.74  Aligned_cols=136  Identities=54%  Similarity=0.858  Sum_probs=94.8

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      .|.|.|+|+|++|||||||+|+|++........+......+....+.+.........     ...........+++|+||
T Consensus         3 ~r~p~IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~iDt   77 (227)
T d1g7sa4           3 IRSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDF-----LKKFSIRETLPGLFFIDT   77 (227)
T ss_dssp             ECCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGG-----GGGCGGGGTCCEEEEECC
T ss_pred             CCCCEEEEEeCCCccHHHHHHHHHhhcchheecCceeeecccccccccccccccccc-----ccceeecccccccccccc
Confidence            456779999999999999999998765433332222222222211111110000000     000001222334999999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcc
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNW  162 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~  162 (259)
                      |||.+|...+..++..+|++|+|+|+.++...++.+.+..+...++|+|+++||+|+...+
T Consensus        78 PGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~p~iivlNK~D~~~~~  138 (227)
T d1g7sa4          78 PGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYRTPFVVAANKIDRIHGW  138 (227)
T ss_dssp             CTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHTTCCEEEEEECGGGSTTC
T ss_pred             cceecccccchhcccccceEEEEEecccCcccchhHHHHHhhcCCCeEEEEEECccCCCch
Confidence            9999999888889999999999999999999999999999999999999999999998654

>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=99.93  E-value=7.5e-27  Score=179.02  Aligned_cols=166  Identities=22%  Similarity=0.258  Sum_probs=109.2

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcc-eeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEE
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGI-TQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLII   99 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li   99 (259)
                      +||..+|+++|++|||||||+|+|++........... ....+.+ .....     ...           ......+.++
T Consensus         2 ~~k~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~-~~~~~-----~~~-----------~~~~~~~~~~   64 (179)
T d1wb1a4           2 DFKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGIT-IDIGF-----SAF-----------KLENYRITLV   64 (179)
T ss_dssp             CCEEEEEEEEECTTSSHHHHHHHHHTTC---------------------CC-----CEE-----------EETTEEEEEC
T ss_pred             CCCCEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeee-ccccc-----ccc-----------ccCCcccccc
Confidence            3566789999999999999999998654321111000 0000100 00000     000           1112238999


Q ss_pred             eCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHH-Hhhhh
Q psy6316         100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDI-IKSQE  178 (259)
Q Consensus       100 DtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~-~~~~~  178 (259)
                      |+||+.+|...+...+..+|++++|+|++.+...++.+.+..+...++|+++|+||+|+...+.........+. ++...
T Consensus        65 d~~g~~~~~~~~~~~l~~~d~~ilv~d~~~g~~~~~~~~~~~~~~~~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~  144 (179)
T d1wb1a4          65 DAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHFNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTH  144 (179)
T ss_dssp             CCSSHHHHHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHHTTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSS
T ss_pred             ccccccccccchhhhhhhccccccccccccccchhhhhhhhhhhhcCCcceeccccccccCHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999999999999999999999999853211111111121 12222


Q ss_pred             ccccccccccccccCcceeEEeecC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .....+++++||++|+|+++++..+
T Consensus       145 ~~~~~~iv~iSA~~g~gi~eL~~~I  169 (179)
T d1wb1a4         145 NLKNSSIIPISAKTGFGVDELKNLI  169 (179)
T ss_dssp             SGGGCCEEECCTTTCTTHHHHHHHH
T ss_pred             cCCCCeEEEEEccCCcCHHHHHHHH
Confidence            2224578899999999998754433

>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=99.92  E-value=2.7e-25  Score=170.11  Aligned_cols=161  Identities=17%  Similarity=0.200  Sum_probs=105.7

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCC
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTP  102 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp  102 (259)
                      .++.|+|+|++|||||||+|+|++.+...      ......++.........                .....+.+||||
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~~~~~------~~~~~~tt~~~~~~~~~----------------~~~~~~~~~Dtp   61 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGVKVAP------ISPRPQTTRKRLRGILT----------------EGRRQIVFVDTP   61 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSCCSC------CCSSSCCCCSCEEEEEE----------------ETTEEEEEEECC
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCCCcee------ecccCCcccccccceee----------------eeeeeeeecccc
Confidence            35689999999999999999999876421      11111111111110000                111139999999


Q ss_pred             CCcc--------hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhC--CCCEEEEEecccccCcccccchhhHHH
Q psy6316         103 GHES--------FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSK--KTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       103 G~~~--------~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~--~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      |+..        +......++..||++|+|+|++++....+..++..++..  ++|+++|+||+|+...     .++..+
T Consensus        62 G~~~~~~~~~~~~~~~~~~~~~~ad~il~v~D~~~~~~~~~~~i~~~l~~~~~~~piilv~NK~Dl~~~-----~~~~~~  136 (178)
T d1wf3a1          62 GLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDAAKY-----PEEAMK  136 (178)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSCEEEEEECGGGCSS-----HHHHHH
T ss_pred             cccccccccchhcccccccccccccceeeeechhhhhcccccchhhheeccccchhhhhhhcccccccC-----HHHHHH
Confidence            9533        233344567899999999999998888777777777653  6899999999999742     223333


Q ss_pred             HHhhhhccccccccccccccCcceeEEeecCCC---CCCcccc
Q psy6316         173 IIKSQESSVQTHKTVESARKGQEICIKIEPIPG---EAPKMFG  212 (259)
Q Consensus       173 ~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i~~---~~~~~~~  212 (259)
                      .+.....  ...++++||++|.|++++++.+..   +.+++|+
T Consensus       137 ~~~~~~~--~~~~~~iSA~~~~gi~~L~~~i~~~lpe~p~~~p  177 (178)
T d1wf3a1         137 AYHELLP--EAEPRMLSALDERQVAELKADLLALMPEGPFFYP  177 (178)
T ss_dssp             HHHHTST--TSEEEECCTTCHHHHHHHHHHHHTTCCBCCCSSC
T ss_pred             HHHhhcc--cCceEEEecCCCCCHHHHHHHHHHhCCCCCCCCC
Confidence            3333322  246678999999999987766644   4445543

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.91  E-value=7.9e-26  Score=171.31  Aligned_cols=158  Identities=22%  Similarity=0.195  Sum_probs=113.6

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEe
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIID  100 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liD  100 (259)
                      .||..+|+++|.+|||||||+++|....+...+.++.................                     .+.+||
T Consensus         1 ~~k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~---------------------~~~i~d   59 (167)
T d1z0ja1           1 ALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELH---------------------KFLIWD   59 (167)
T ss_dssp             SEEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEE---------------------EEEEEE
T ss_pred             CCceeEEEEECCCCcCHHHHHHHHHhCCCCccccccccccccccccccccccc---------------------ceeeee
Confidence            36677799999999999999999999888776655554443322222111111                     178999


Q ss_pred             CCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHH-HHHHH---hCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         101 TPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIES-INILK---SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       101 tpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~-l~~~~---~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      |+|++.+...+..+++.+|++++|+|.++..+...... +....   ..+.|+++|+||+|+... .    .......+.
T Consensus        60 ~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~-~----~v~~~~~~~  134 (167)
T d1z0ja1          60 TAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV-R----EVMERDAKD  134 (167)
T ss_dssp             ECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGG-C----CSCHHHHHH
T ss_pred             cCCchhhhHHHHHHHhhccceEEEeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhccc-c----chhHHHHHH
Confidence            99999999999999999999999999987655555443 22332   246899999999998632 1    122233445


Q ss_pred             hhccccccccccccccCcceeEEeecCC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      +....++.++++||++|.|+++++..+.
T Consensus       135 ~~~~~~~~~~e~SAk~~~nV~e~f~~l~  162 (167)
T d1z0ja1         135 YADSIHAIFVETSAKNAININELFIEIS  162 (167)
T ss_dssp             HHHHTTCEEEECBTTTTBSHHHHHHHHH
T ss_pred             HHHHcCCEEEEEecCCCCCHHHHHHHHH
Confidence            5556678889999999999998766543

>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=99.91  E-value=1.7e-25  Score=173.76  Aligned_cols=176  Identities=26%  Similarity=0.271  Sum_probs=107.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCC---CCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGE---AGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      .+|+++|+.++|||||+|+|++.......   .++++...+........................+........++|+||
T Consensus         6 inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDt   85 (195)
T d1kk1a3           6 VNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDA   85 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEEEC
T ss_pred             EEEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeEeeecc
Confidence            36999999999999999999874322111   111222222211111111100000000000000000111123899999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCC-CHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGL-EPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~-~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      |||.+|...+...+..+|++++|+|+.++. ..+..+++..+...++| +++++||+|+....   ........+..+..
T Consensus        86 PGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~~~~iiv~inK~D~~d~~---~~~~~~~~~~~~~~  162 (195)
T d1kk1a3          86 PGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELVDKE---KALENYRQIKEFIE  162 (195)
T ss_dssp             SSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCHH---HHHHHHHHHHHHHT
T ss_pred             chhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhcCccceeeeecccchhhH---HHHHHHHHHHHHhc
Confidence            999999999999999999999999999985 55678888888888776 77889999997421   11122223333333


Q ss_pred             cc---cccccccccccCcceeEEeecC
Q psy6316         180 SV---QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~---~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..   .++++++||++|+|++++++.+
T Consensus       163 ~~~~~~~~iIpiSA~~G~ni~~Ll~~I  189 (195)
T d1kk1a3         163 GTVAENAPIIPISALHGANIDVLVKAI  189 (195)
T ss_dssp             TSTTTTCCEEECBTTTTBSHHHHHHHH
T ss_pred             cccCCCCeEEEEECCCCCCHHHHHHHH
Confidence            22   3567899999999998755443

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.91  E-value=3e-25  Score=168.41  Aligned_cols=152  Identities=14%  Similarity=0.126  Sum_probs=105.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+++|.+..+.....++.+.+...........     .+                .+.+|||||++
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~----------------~l~~wDt~G~e   65 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDK-----RI----------------KLQIWDTAGQE   65 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTE-----EE----------------EEEEEEECCSG
T ss_pred             EEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecc-----eE----------------EEEEEECCCch
Confidence            4999999999999999999988876655544443332222211111     11                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH---hCCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK---SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~---~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+..++..+++.+|++|+|+|+++..+..... ++....   ....|+++++||+|+.... ....+    ..+.+...+
T Consensus        66 ~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~-~v~~~----~~~~~~~~~  140 (169)
T d3raba_          66 RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDER-VVSSE----RGRQLADHL  140 (169)
T ss_dssp             GGHHHHHTTTTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGC-CSCHH----HHHHHHHHH
T ss_pred             hhHHHHHHHHhcCCEEEEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeeccccccc-ccchh----hhHHHHHHc
Confidence            99999999999999999999998754443332 333232   2457889999999986421 11222    233444555


Q ss_pred             cccccccccccCcceeEEeecC
Q psy6316         182 QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +++++++||++|.|+++++..+
T Consensus       141 ~~~~~e~Sak~g~gv~e~f~~l  162 (169)
T d3raba_         141 GFEFFEASAKDNINVKQTFERL  162 (169)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHH
T ss_pred             CCEEEEecCCCCcCHHHHHHHH
Confidence            6789999999999998865443

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.91  E-value=4.1e-25  Score=167.96  Aligned_cols=150  Identities=19%  Similarity=0.193  Sum_probs=107.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+++|++..+...+..+.+.++...+.......     +                .+.+|||||+
T Consensus         6 ~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~-----~----------------~l~i~Dt~G~   64 (171)
T d2ew1a1           6 FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEK-----V----------------KLQIWDTAGQ   64 (171)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEE-----E----------------EEEEEEECCS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEE-----E----------------EEEEEECCCc
Confidence            359999999999999999999988876665555544433322221111     1                1899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      +.+..++..+++.+|++++|+|.++..+.... .++..+..   ...|+++|+||+|+....     ....+..+.+...
T Consensus        65 e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~-----~v~~~~~~~~~~~  139 (171)
T d2ew1a1          65 ERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERR-----EVSQQRAEEFSEA  139 (171)
T ss_dssp             GGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC-----SSCHHHHHHHHHH
T ss_pred             hhhHHHHHHHHhccceEEEeeecccchhhhhhhhhhhhhcccccccccEEEEEeeccccccc-----chhhhHHHHHHHh
Confidence            99999999999999999999999875444332 24443332   457899999999986321     1112234445555


Q ss_pred             ccccccccccccCcceeEEe
Q psy6316         181 VQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l  200 (259)
                      .+++++++||++|.|+++++
T Consensus       140 ~~~~~~~~SAktg~gV~e~f  159 (171)
T d2ew1a1         140 QDMYYLETSAKESDNVEKLF  159 (171)
T ss_dssp             HTCCEEECCTTTCTTHHHHH
T ss_pred             CCCEEEEEccCCCCCHHHHH
Confidence            66788999999999998754

>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=99.91  E-value=5.9e-25  Score=171.92  Aligned_cols=106  Identities=28%  Similarity=0.245  Sum_probs=82.0

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCC-CHHHHHHHHHHHhCCC-CEEEEEecccccCcccccchhhHHH
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGL-EPQTIESINILKSKKT-PFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~-~~~~~~~l~~~~~~~~-piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      .++++|||||.+|...+...+..+|++|+|+|+.++. ..++.+++..+...++ |+|+++||+|+.....   ......
T Consensus        87 ~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~~i~~iIV~vNK~Dl~~~~~---~~~~~~  163 (205)
T d2qn6a3          87 RISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDVVSKEE---ALSQYR  163 (205)
T ss_dssp             EEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECGGGSCHHH---HHHHHH
T ss_pred             EEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHcCCceeeeccccCCCccchH---HHHHHH
Confidence            4899999999999999999999999999999999986 7788889999988886 7888999999984321   112222


Q ss_pred             HHhhhhcc---ccccccccccccCcceeEEeecC
Q psy6316         173 IIKSQESS---VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       173 ~~~~~~~~---~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+......   ..++++++||++|.|++++++.+
T Consensus       164 ~~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i  197 (205)
T d2qn6a3         164 QIKQFTKGTWAENVPIIPVSALHKINIDSLIEGI  197 (205)
T ss_dssp             HHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHH
T ss_pred             HHHHHhccccCCCCeEEEEeCCCCCChHHHHHHH
Confidence            23332222   24678899999999997755444

>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=99.91  E-value=1.4e-25  Score=169.39  Aligned_cols=152  Identities=14%  Similarity=0.176  Sum_probs=108.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+++|.+..+...+.++++.............     .+                .+.+|||+|+
T Consensus         3 iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~-----~~----------------~~~i~d~~g~   61 (164)
T d1z2aa1           3 IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDE-----DV----------------RLMLWDTAGQ   61 (164)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTE-----EE----------------EEEEECCTTG
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCc-----ee----------------eeeeeccCCc
Confidence            35999999999999999999988776655555443332222111111     11                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh--CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS--KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~--~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      ..+..++..+++.+|++++|+|+++..+..... ++..+.+  .+.|+++|+||+|+... .....    +..+.+...+
T Consensus        62 ~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~iilVgnK~Dl~~~-~~v~~----~~~~~~~~~~  136 (164)
T d1z2aa1          62 EEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLLDD-SCIKN----EEAEGLAKRL  136 (164)
T ss_dssp             GGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCCEEEEEECGGGGGG-CSSCH----HHHHHHHHHH
T ss_pred             cchhhhhhhhhccCceEEEEEeccchhhhhhcccccccccccCCCceEEEeeccCCcccc-eeeee----hhhHHHHHHc
Confidence            998888888999999999999998865554433 4455544  47899999999998642 11122    2234445556


Q ss_pred             cccccccccccCcceeEEeec
Q psy6316         182 QTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      +++++++||++|.|++++++.
T Consensus       137 ~~~~~e~Sak~g~~v~e~f~~  157 (164)
T d1z2aa1         137 KLRFYRTSVKEDLNVSEVFKY  157 (164)
T ss_dssp             TCEEEECBTTTTBSSHHHHHH
T ss_pred             CCEEEEeccCCCcCHHHHHHH
Confidence            788899999999999886543

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.91  E-value=7.4e-25  Score=170.82  Aligned_cols=164  Identities=23%  Similarity=0.182  Sum_probs=103.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      -||+++|++++|||||+++|+...-.....+....  +.+.......+.+...+..    ...+..+....++|+|||||
T Consensus         4 ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~--~~~~d~~~eE~~rgiTi~~----~~~~~~~~~~~i~iiDtPGh   77 (204)
T d2c78a3           4 VNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKD--YGDIDKAPEERARGITINT----AHVEYETAKRHYSHVDCPGH   77 (204)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCC--HHHHSCSHHHHHHTCCCSC----EEEEEECSSCEEEEEECCCS
T ss_pred             eEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhh--hhhcccchHHhcCCeEEEe----eEEEEEeCCeEEEEEeCCCc
Confidence            46999999999999999999643111111111110  0000000000000000000    00011233445999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHHHHHhhhhccc--
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV--  181 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~--  181 (259)
                      .+|...+...++.+|++|+|+|+.++...++.+++..+...++| +++++||+|+....  ...+++...+.......  
T Consensus        78 ~df~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~~~~~~~gi~~iiv~iNK~D~~~~~--~~~~~~~~~i~~~l~~~~~  155 (204)
T d2c78a3          78 ADYIKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDP--ELLDLVEMEVRDLLNQYEF  155 (204)
T ss_dssp             GGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHTTCCCEEEEEECGGGCCCH--HHHHHHHHHHHHHHHHTTS
T ss_pred             hhhHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEEecccCCCH--HHHHHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999999999999999987 67789999987421  12333444444433322  


Q ss_pred             ---cccccccccccCcce
Q psy6316         182 ---QTHKTVESARKGQEI  196 (259)
Q Consensus       182 ---~~~~i~~Sa~~g~gv  196 (259)
                         ..++++.||..|.+.
T Consensus       156 ~~~~i~~i~~sa~~~~~~  173 (204)
T d2c78a3         156 PGDEVPVIRGSALLALEQ  173 (204)
T ss_dssp             CTTTSCEEECCHHHHHHH
T ss_pred             Ccccceeeeeechhhhhh
Confidence               345567888766443

>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=99.91  E-value=2e-24  Score=167.03  Aligned_cols=145  Identities=26%  Similarity=0.242  Sum_probs=101.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCC----------------CCCCcceeeccccccCccccccccccccCCCCCCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQD----------------GEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGP   88 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (259)
                      .||+++|+.++|||||+++|++.....                ...++++.+.+...                       
T Consensus         4 ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~-----------------------   60 (196)
T d1d2ea3           4 VNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVE-----------------------   60 (196)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEE-----------------------
T ss_pred             cEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEE-----------------------
Confidence            469999999999999999997531110                00111111111000                       


Q ss_pred             CCCCCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCC-CEEEEEecccccCcccccch
Q psy6316          89 GPLEIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKT-PFVVALNKIDRLYNWNTMNR  167 (259)
Q Consensus        89 ~~~~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~-piivv~NK~D~~~~~~~~~~  167 (259)
                      ..+..+.++++|||||.+|...+.+.+..+|++|+|+|+.++...|+.+++..+...+. |+|+++||+|+....  ...
T Consensus        61 ~~~~~~~~~~iDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~QT~~~~~~a~~~~~~~iIv~iNK~D~~~~~--~~~  138 (196)
T d1d2ea3          61 YSTAARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNKADAVQDS--EMV  138 (196)
T ss_dssp             EECSSCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCCEEEEEECGGGCSCH--HHH
T ss_pred             EEeceeeEEeecCcchHHHHHHHHHHHhhcCeEEEEEEcCCCCchhHHHHHHHHHHhcCCcEEEEEecccccccH--HHH
Confidence            01223349999999999999999999999999999999999999999999999998775 688899999987421  122


Q ss_pred             hhHHHHHhhhhccc-----cccccccccccCc
Q psy6316         168 RDVRDIIKSQESSV-----QTHKTVESARKGQ  194 (259)
Q Consensus       168 ~~~~~~~~~~~~~~-----~~~~i~~Sa~~g~  194 (259)
                      +.+...++.+....     ..+++++||++|.
T Consensus       139 ~~i~~~i~~~l~~~~~~~~~~pii~iSa~~g~  170 (196)
T d1d2ea3         139 ELVELEIRELLTEFGYKGEETPIIVGSALCAL  170 (196)
T ss_dssp             HHHHHHHHHHHHHTTSCTTTSCEEECCHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCEEEEEEccccc
Confidence            33333444433322     3567899999873

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=99.90  E-value=1.1e-23  Score=165.81  Aligned_cols=105  Identities=28%  Similarity=0.346  Sum_probs=85.1

Q ss_pred             CCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC-EEEEEecccccCcccccchhhHH
Q psy6316          93 IPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTP-FVVALNKIDRLYNWNTMNRRDVR  171 (259)
Q Consensus        93 ~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~~~~~~~~~  171 (259)
                      .+++.|+|||||.+|...+...+..+|++++|+|+..+...++.+++..+...++| +|+++||+|+.. ++........
T Consensus        88 ~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~~~~~~~~gv~~iiv~vNK~D~~~-~~~~~~~~~~  166 (222)
T d1zunb3          88 KRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSYIASLLGIKHIVVAINKMDLNG-FDERVFESIK  166 (222)
T ss_dssp             SEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEEECTTTTT-SCHHHHHHHH
T ss_pred             ceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHHHHHHHHcCCCEEEEEEEcccccc-ccceehhhhH
Confidence            33599999999999999999999999999999999999999999999999999976 788999999974 2332334444


Q ss_pred             HHHhhhhccc-----cccccccccccCcceeE
Q psy6316         172 DIIKSQESSV-----QTHKTVESARKGQEICI  198 (259)
Q Consensus       172 ~~~~~~~~~~-----~~~~i~~Sa~~g~gv~~  198 (259)
                      ..+..+....     .++++|+||++|.|+..
T Consensus       167 ~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~~  198 (222)
T d1zunb3         167 ADYLKFAEGIAFKPTTMAFVPMSALKGDNVVN  198 (222)
T ss_dssp             HHHHHHHHTTTCCCSEEEEEECCTTTCTTTSS
T ss_pred             HHHhhhhHhhccCCCceEEEEEEcccCccCCc
Confidence            4444444333     34678999999999966

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.90  E-value=6.4e-25  Score=165.71  Aligned_cols=154  Identities=16%  Similarity=0.148  Sum_probs=111.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|||||||++++.+.++...+.++++.............     .+                .+.+||++|++
T Consensus         2 Kv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~----------------~~~i~d~~g~~   60 (164)
T d1yzqa1           2 KLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDR-----TI----------------RLQLWDTAGQE   60 (164)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSC-----EE----------------EEEEEEECCSG
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCC-----ce----------------eeeecccCCcc
Confidence            5999999999999999999988876665555443333222221111     01                18999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+...+..++..+|++++|+|.++..+..... ++..+..   .+.|+++|+||+|+....     ....+....+....
T Consensus        61 ~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~-----~~~~~~~~~~~~~~  135 (164)
T d1yzqa1          61 RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKR-----QVSIEEGERKAKEL  135 (164)
T ss_dssp             GGGGGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGC-----CSCHHHHHHHHHHT
T ss_pred             hhccchHHHhhccceEEEeeccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhh-----hhhHHHHHHHHHHc
Confidence            99999999999999999999998865554433 4443332   468999999999986421     22233444555556


Q ss_pred             cccccccccccCcceeEEeecCCC
Q psy6316         182 QTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      +++++++||++|.|+++++..+.+
T Consensus       136 ~~~~~e~SAk~g~~v~e~f~~i~~  159 (164)
T d1yzqa1         136 NVMFIETSAKAGYNVKQLFRRVAA  159 (164)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHH
T ss_pred             CCEEEEecCCCCcCHHHHHHHHHH
Confidence            778899999999999987766543

>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=99.90  E-value=1.1e-24  Score=164.90  Aligned_cols=155  Identities=20%  Similarity=0.169  Sum_probs=109.7

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ||..+|+++|.+|||||||++++++..+...+.++++...... .....     ..+                .+.+||+
T Consensus         1 mk~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~-~~~~~-----~~~----------------~l~~~d~   58 (167)
T d1kaoa_           1 MREYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYRKE-IEVDS-----SPS----------------VLEILDT   58 (167)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEE-EEETT-----EEE----------------EEEEEEC
T ss_pred             CceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeeeeeee-eecCc-----ceE----------------eeccccC
Confidence            5677799999999999999999999887766555544222111 11110     011                1899999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      +|+..+...+..+++.+|++++|+|+++..+..... ++..+..    .+.|+++|+||+|+.... ...    ....+.
T Consensus        59 ~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~-~~~----~~~~~~  133 (167)
T d1kaoa_          59 AGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESER-EVS----SSEGRA  133 (167)
T ss_dssp             CCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGC-CSC----HHHHHH
T ss_pred             CCccccccchHHHhhcccceeeeeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcc-cch----HHHHHH
Confidence            999999999999999999999999998865555433 3333322    468999999999986431 111    223344


Q ss_pred             hhccccccccccccccCcceeEEeecC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +...++.+++++||++|.|+++++..+
T Consensus       134 ~~~~~~~~~~e~Sak~g~~i~e~f~~i  160 (167)
T d1kaoa_         134 LAEEWGCPFMETSAKSKTMVDELFAEI  160 (167)
T ss_dssp             HHHHHTSCEEEECTTCHHHHHHHHHHH
T ss_pred             HHHHcCCeEEEECCCCCcCHHHHHHHH
Confidence            445556788999999999998865443

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.90  E-value=1.4e-24  Score=164.17  Aligned_cols=153  Identities=16%  Similarity=0.158  Sum_probs=108.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||++++++..+...+..+....+.......+...     +                .+.+|||||+
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~----------------~l~i~D~~g~   63 (166)
T d1z0fa1           5 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQK-----I----------------KLQIWDTAGQ   63 (166)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEE-----E----------------EEEEEECTTG
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEE-----E----------------EEEEeccCCc
Confidence            359999999999999999999988776655544444332222221111     1                1899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH---hCCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK---SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~---~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      +.+...+..+++.+|++++|+|.++..+..... ++..+.   ....|+++++||+|+... ....    .+....+...
T Consensus        64 ~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~-~~~~----~~~~~~~~~~  138 (166)
T d1z0fa1          64 ERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQ-RDVT----YEEAKQFAEE  138 (166)
T ss_dssp             GGTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG-CCSC----HHHHHHHHHH
T ss_pred             hhHHHHHHHHhcCCcEEEEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhh-cccH----HHHHHHHHHH
Confidence            999999999999999999999998754443322 333333   246789999999998642 1112    2234444555


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+++++++||++|.|+++++..+
T Consensus       139 ~~~~~~e~Saktg~~v~e~f~~i  161 (166)
T d1z0fa1         139 NGLLFLEASAKTGENVEDAFLEA  161 (166)
T ss_dssp             TTCEEEECCTTTCTTHHHHHHHH
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHH
Confidence            56788999999999998865443

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.90  E-value=2.5e-24  Score=164.01  Aligned_cols=150  Identities=19%  Similarity=0.152  Sum_probs=106.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|||||||++++.+..+...+.++...............     ..                .+.+|||||++
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~-----~~----------------~~~i~D~~G~~   65 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGK-----YV----------------KLQIWDTAGQE   65 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTE-----EE----------------EEEEEEECCSG
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCc-----ce----------------eEEEEECCCch
Confidence            4999999999999999999988877666555544433222211111     11                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH---hCCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK---SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~---~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+..++..+++.+|++++|+|.++..+..... ++..+.   ..+.|+++|+||+|+... .    .........+....
T Consensus        66 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~-~----~~~~~~~~~~~~~~  140 (174)
T d2bmea1          66 RFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDAD-R----EVTFLEASRFAQEN  140 (174)
T ss_dssp             GGHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGG-C----CSCHHHHHHHHHHT
T ss_pred             hhhhhHHHHhhhCCEEEEEEecccchhHHHHhhhhcccccccCCceEEEEEEecccccch-h----chhhhHHHHHHHhC
Confidence            99999999999999999999998755444433 233222   246899999999998632 1    12222334444555


Q ss_pred             cccccccccccCcceeEEee
Q psy6316         182 QTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      +++++++||++|.|+++++.
T Consensus       141 ~~~~~e~Sak~~~gi~e~f~  160 (174)
T d2bmea1         141 ELMFLETSALTGENVEEAFV  160 (174)
T ss_dssp             TCEEEECCTTTCTTHHHHHH
T ss_pred             CCEEEEeeCCCCcCHHHHHH
Confidence            78889999999999987543

>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=99.90  E-value=1.5e-24  Score=164.33  Aligned_cols=150  Identities=13%  Similarity=0.079  Sum_probs=93.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||++++.+..+.... ++....+. .....+     ...+                .+.+|||||+
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~~~~-~~~~~~~~-~~i~~~-----~~~~----------------~l~i~D~~g~   58 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDGPEA-EAAGHTYD-RSIVVD-----GEEA----------------SLMVYDIWEQ   58 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC----------CEEEE-EEEEET-----TEEE----------------EEEEEECC--
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccCCcC-Ceeeeeec-ceeecc-----cccc----------------ceeeeecccc
Confidence            35999999999999999999887653321 11111111 000000     0111                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      +.+..++..+++.+|++++|+|+++..+..... ++..+..    .++|+++|+||+|+.... .    ......+.+..
T Consensus        59 e~~~~~~~~~~~~~d~~ilv~d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~-~----v~~~~~~~~~~  133 (168)
T d2gjsa1          59 DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSR-E----VSVDEGRACAV  133 (168)
T ss_dssp             -----CHHHHHTSCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGC-C----SCHHHHHHHHH
T ss_pred             cccceecccchhhhhhhceeccccccccccccccccchhhcccccccceEEEeecccchhhhc-c----hhHHHHHHHHH
Confidence            999999999999999999999998865555543 4444432    357999999999986421 1    11233444555


Q ss_pred             cccccccccccccCcceeEEeec
Q psy6316         180 SVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      .++++++++||++|.|+++++..
T Consensus       134 ~~~~~~~e~Sak~~~~v~~~f~~  156 (168)
T d2gjsa1         134 VFDCKFIETSAALHHNVQALFEG  156 (168)
T ss_dssp             HHTSEEEECBTTTTBSHHHHHHH
T ss_pred             hcCCEEEEEeCCCCcCHHHHHHH
Confidence            66788899999999999875543

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=2.3e-24  Score=163.60  Aligned_cols=153  Identities=18%  Similarity=0.151  Sum_probs=110.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+++|.+..+...+.++.+.............     .+                .+.+|||||++
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~-----~~----------------~~~~~d~~g~~   66 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDT-----TV----------------KFEIWDTAGQE   66 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTE-----EE----------------EEEEEEECCSG
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccce-----EE----------------EEEeccCCCch
Confidence            4999999999999999999998887766665554443222221111     11                18999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+..++..+++.+|++++|+|.++..+..... ++..+..   .+.|+++|+||+|+... ....    .+..+.+...+
T Consensus        67 ~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~-~~v~----~e~~~~~~~~~  141 (170)
T d1r2qa_          67 RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK-RAVD----FQEAQSYADDN  141 (170)
T ss_dssp             GGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGG-CCSC----HHHHHHHHHHT
T ss_pred             hhhhhHHHHhhCcceEEEEeccchhhHHHHHHHHhhhhhhccCCCceEEeeccccccccc-cccc----HHHHHHHHHhc
Confidence            99999999999999999999998765554433 3333332   36889999999998642 1112    23344445556


Q ss_pred             cccccccccccCcceeEEeecCC
Q psy6316         182 QTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      +++++++||++|.|+++++..+.
T Consensus       142 ~~~~~e~SAk~g~~V~e~f~~l~  164 (170)
T d1r2qa_         142 SLLFMETSAKTSMNVNEIFMAIA  164 (170)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHH
T ss_pred             CCEEEEeeCCCCCCHHHHHHHHH
Confidence            68899999999999998766554

>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=99.89  E-value=1.7e-24  Score=164.44  Aligned_cols=152  Identities=15%  Similarity=0.161  Sum_probs=107.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++++..+...+.++++..+..... .+     ...+                .+.+||++|++
T Consensus         4 Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~~~~~~-~~-----~~~~----------------~l~~~d~~g~~   61 (171)
T d2erxa1           4 RVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVIS-CD-----KSIC----------------TLQITDTTGSH   61 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEEEEEE-ET-----TEEE----------------EEEEEECCSCS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCccCcceeecccccee-ec-----cccc----------------eeccccccccc
Confidence            49999999999999999999988766555554433211110 00     0111                18899999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh-----CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS-----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~-----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      .+...+..+++.+|++++|+|+++..+.... .++..+.+     .+.|+++|+||+|+... ....    .+..+.+..
T Consensus        62 ~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~-~~v~----~~e~~~~~~  136 (171)
T d2erxa1          62 QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPS-REVQ----SSEAEALAR  136 (171)
T ss_dssp             SCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGG-CCSC----HHHHHHHHH
T ss_pred             cccccccccccceeEEEEEeecccccchhcccchhhhhhhhhccCCCCcEEEEeeccccccc-cccc----HHHHHHHHH
Confidence            9999999999999999999999875444432 33333322     46899999999998632 1112    223344555


Q ss_pred             cccccccccccccCcceeEEeecCC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      .++++++++||++|.|+++++..++
T Consensus       137 ~~~~~~~e~Sak~~~~v~e~f~~l~  161 (171)
T d2erxa1         137 TWKCAFMETSAKLNHNVKELFQELL  161 (171)
T ss_dssp             HHTCEEEECBTTTTBSHHHHHHHHH
T ss_pred             HcCCeEEEEcCCCCcCHHHHHHHHH
Confidence            5678889999999999998766554

>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=99.89  E-value=2.6e-24  Score=163.79  Aligned_cols=153  Identities=18%  Similarity=0.139  Sum_probs=107.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||++++++..+...+.++...... .....+     ...+                .+.+|||+|
T Consensus         6 ~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~-~~~~~~-----~~~~----------------~l~~~d~~g   63 (173)
T d2fn4a1           6 THKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVD-----GIPA----------------RLDILDTAG   63 (173)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEET-----TEEE----------------EEEEEECCC
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCccccccccccee-eEeccC-----Ceee----------------eeecccccc
Confidence            345999999999999999999988876655443322111 111111     0111                188999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      ++++...+..+++.+|++++|+|.++..+..... ++..+.    ..+.|+++|+||+|+...     +.......+.+.
T Consensus        64 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~-----~~~~~~~~~~~~  138 (173)
T d2fn4a1          64 QEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQ-----RQVPRSEASAFG  138 (173)
T ss_dssp             TTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGG-----CCSCHHHHHHHH
T ss_pred             ccccccccchhhccceeeeeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhc-----cccchhhhhHHH
Confidence            9999999999999999999999998865555443 333332    246899999999998632     112233345555


Q ss_pred             ccccccccccccccCcceeEEeecC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ...+++++.+||++|.|+++++..+
T Consensus       139 ~~~~~~~~e~Sak~g~gv~e~f~~l  163 (173)
T d2fn4a1         139 ASHHVAYFEASAKLRLNVDEAFEQL  163 (173)
T ss_dssp             HHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             HhcCCEEEEEeCCCCcCHHHHHHHH
Confidence            5567888999999999998865443

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=6.9e-25  Score=166.57  Aligned_cols=151  Identities=15%  Similarity=0.131  Sum_probs=102.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||++++++..+...+.++++.++.........     ..+                .+.+|||||+
T Consensus         4 ~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~-----~~~----------------~l~i~D~~g~   62 (170)
T d1i2ma_           4 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNR-----GPI----------------KFNVWDTAGQ   62 (170)
T ss_dssp             EEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTT-----CCE----------------EEEEEECTTH
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccceecccccccccccc-----ccc----------------cccccccccc
Confidence            3599999999999999999998877665544444333222111111     011                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH--hCCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK--SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~--~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      ..+..++..+++.+|++++|+|+++..+..... ++....  ..+.|+++|+||+|+.....   ..+    ........
T Consensus        63 ~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~---~~~----~~~~~~~~  135 (170)
T d1i2ma_          63 EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRKV---KAK----SIVFHRKK  135 (170)
T ss_dssp             HHHSSCGGGGTTTCCEEEEEEETTSGGGGTTHHHHHHHHHHHHCSCCEEEEEECCCCSCSCC---TTT----SHHHHSSC
T ss_pred             cccceecchhcccccchhhccccccccccchhHHHHHHHhhccCCCceeeecchhhhhhhhh---hhH----HHHHHHHc
Confidence            988888889999999999999999876554433 443333  24799999999999864321   111    22344455


Q ss_pred             cccccccccccCcceeEEeecC
Q psy6316         182 QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +++++++||++|.|+++++..+
T Consensus       136 ~~~~~e~Sak~~~~v~e~f~~l  157 (170)
T d1i2ma_         136 NLQYYDISAKSNYNFEKPFLWL  157 (170)
T ss_dssp             SSEEEEEBTTTTBTTTHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHH
Confidence            7788999999999998866544

>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=99.89  E-value=3.4e-24  Score=162.19  Aligned_cols=153  Identities=23%  Similarity=0.195  Sum_probs=103.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||++++++..+...+.++................     .                .+.+||++|+
T Consensus         4 fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~-----~----------------~~~~~d~~g~   62 (167)
T d1z08a1           4 FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKR-----V----------------NLAIWDTAGQ   62 (167)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCE-----E----------------EEEEEECCCC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCcc-----c----------------eeeeeccCCc
Confidence            359999999999999999999988876665555444333222221111     1                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH---hCCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK---SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~---~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      ..+..++..+++.+|++++|+|+++..+..... ++....   ....|+++++||+|+... ....    .+..+.+...
T Consensus        63 ~~~~~~~~~~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~-~~v~----~~e~~~~a~~  137 (167)
T d1z08a1          63 ERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE-RHVS----IQEAESYAES  137 (167)
T ss_dssp             -------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGG-CCSC----HHHHHHHHHH
T ss_pred             ceecccchhhccCCceeEEEEeCCchhHHHhhhhhhhhcccccccccceeeeccccccccc-cccc----hHHHHHHHHH
Confidence            999999999999999999999998866655543 333332   346788999999998742 1122    2334445555


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+++++++||++|.|+++++..+
T Consensus       138 ~~~~~~e~Sak~~~~v~e~F~~l  160 (167)
T d1z08a1         138 VGAKHYHTSAKQNKGIEELFLDL  160 (167)
T ss_dssp             TTCEEEEEBTTTTBSHHHHHHHH
T ss_pred             cCCeEEEEecCCCcCHHHHHHHH
Confidence            67888999999999998865443

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=4.9e-24  Score=161.15  Aligned_cols=154  Identities=19%  Similarity=0.140  Sum_probs=110.0

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      |+..+|+++|++|||||||+++|++..+...+.++.+..+.......      ...+                .+.+||+
T Consensus         1 m~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~------~~~~----------------~l~~~d~   58 (166)
T d1ctqa_           1 MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVID------GETC----------------LLDILDT   58 (166)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEEEEET------TEEE----------------EEEEEEE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeeccceeee------ceee----------------eeeeeec
Confidence            34456999999999999999999998876665555554332211111      0111                1899999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      +|++.+...+..+++.++++++|+|+++..+..... ++..+..    .++|+++|+||+|+...      ....+..+.
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~iiv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~------~~~~~~~~~  132 (166)
T d1ctqa_          59 AGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAAR------TVESRQAQD  132 (166)
T ss_dssp             CCCGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSCC------CSCHHHHHH
T ss_pred             cCccccccchhhhhhcccccceeecccccccHHHHHHHHHHHHHhcCCCCCeEEEEecccccccc------cccHHHHHH
Confidence            999999999999999999999999998765544433 4444432    46899999999998632      112233445


Q ss_pred             hhccccccccccccccCcceeEEeecC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +....+++++++||++|+|+++++..+
T Consensus       133 ~~~~~~~~~~e~Sak~g~gi~e~f~~i  159 (166)
T d1ctqa_         133 LARSYGIPYIETSAKTRQGVEDAFYTL  159 (166)
T ss_dssp             HHHHHTCCEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHhCCeEEEEcCCCCcCHHHHHHHH
Confidence            555667888999999999998865443

>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=99.89  E-value=5.3e-24  Score=161.30  Aligned_cols=152  Identities=14%  Similarity=0.122  Sum_probs=105.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+++++...+...+.++.+..+.... ..+.     ..+                .+.+||++|+
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~~~~~-~~~~-----~~~----------------~l~i~d~~g~   62 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKV-VLDG-----EEV----------------QIDILDTAGQ   62 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEE-EETT-----EEE----------------EEEEEECCC-
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCCCcccCCcccccccccc-cccc-----ccc----------------cccccccccc
Confidence            34999999999999999999988877666655544332111 1110     011                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      .++..++..+++.+|++++|+|.++..+..... ++..+..    .+.|+++|+||+|+... .....    +..+.+..
T Consensus        63 ~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~-~~v~~----~~~~~~~~  137 (168)
T d1u8za_          63 EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDK-RQVSV----EEAKNRAD  137 (168)
T ss_dssp             --CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGG-CCSCH----HHHHHHHH
T ss_pred             cchhhhhhhcccccceeEEEeeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEecccccccc-ccccH----HHHHHHHH
Confidence            999999999999999999999998865555433 4444432    46899999999998632 12222    33444555


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .++++++++||++|.|+++++..+
T Consensus       138 ~~~~~~~e~Sak~g~gv~e~f~~l  161 (168)
T d1u8za_         138 QWNVNYVETSAKTRANVDKVFFDL  161 (168)
T ss_dssp             HHTCEEEECCTTTCTTHHHHHHHH
T ss_pred             HcCCeEEEEcCCCCcCHHHHHHHH
Confidence            566888999999999998865443

>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=99.89  E-value=8e-24  Score=160.10  Aligned_cols=156  Identities=17%  Similarity=0.149  Sum_probs=110.7

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      ||..+|+++|.+|+|||||++++....+...+.++++........ ..     ...+                .+.+||+
T Consensus         1 mr~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~~~~~~-~~-----~~~~----------------~~~~~d~   58 (167)
T d1c1ya_           1 MREYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVE-VD-----CQQC----------------MLEILDT   58 (167)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEEEE-SS-----SCEE----------------EEEEEEE
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccccceeEE-ee-----eeEE----------------Eeccccc
Confidence            667789999999999999999999998877666655544321111 10     0111                2999999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      +|+..+...+..+++.+|++++|+|+++..+..... ++..+.+    .+.|+++|+||+|+... .....++.....++
T Consensus        59 ~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~-~~~~~~~~~~~~~~  137 (167)
T d1c1ya_          59 AGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDE-RVVGKEQGQNLARQ  137 (167)
T ss_dssp             CSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGG-CCSCHHHHHHHHHH
T ss_pred             cCcccccccccccccccceeEEeeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcccc-cccchhHHHHHHHH
Confidence            999999999999999999999999999866655543 4444332    46899999999998743 22222222222222


Q ss_pred             hhccccccccccccccCcceeEEeecC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .   .+++++++||++|.|+++++..+
T Consensus       138 ~---~~~~~~e~Sak~g~gv~e~F~~l  161 (167)
T d1c1ya_         138 W---CNCAFLESSAKSKINVNEIFYDL  161 (167)
T ss_dssp             T---TSCEEEECBTTTTBSHHHHHHHH
T ss_pred             h---CCCEEEEEcCCCCcCHHHHHHHH
Confidence            2   35788899999999998865443

>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=99.89  E-value=2.5e-24  Score=162.94  Aligned_cols=153  Identities=18%  Similarity=0.153  Sum_probs=108.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++|++..+...+.+++...+.. ....+.     ..+                .+.+|||+|
T Consensus         4 ~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~~~-~~~~~~-----~~~----------------~l~i~d~~g   61 (167)
T d1xtqa1           4 SRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTK-LITVNG-----QEY----------------HLQLVDTAG   61 (167)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEEEE-EEEETT-----EEE----------------EEEEEECCC
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceecccce-EEecCc-----EEE----------------Eeeeccccc
Confidence            4569999999999999999999888766655555443311 111110     111                189999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      .+.+..++..++..+|++++|+|+++..+..... ++..+.    ..+.|+++|+||+|+... .....    +..+++.
T Consensus        62 ~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~-r~v~~----~~~~~~a  136 (167)
T d1xtqa1          62 QDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHME-RVISY----EEGKALA  136 (167)
T ss_dssp             CCTTCCCCGGGTSSCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGG-CCSCH----HHHHHHH
T ss_pred             ccccccccchhhhhhhhhhhhcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccccc-cchhH----HHHHHHH
Confidence            9998888888999999999999999876665543 333332    346899999999998642 11122    2334455


Q ss_pred             ccccccccccccccCcceeEEeecC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..++++++++||++|.|+++++..+
T Consensus       137 ~~~~~~~~e~Sak~~~~v~~~f~~l  161 (167)
T d1xtqa1         137 ESWNAAFLESSAKENQTAVDVFRRI  161 (167)
T ss_dssp             HHHTCEEEECCTTCHHHHHHHHHHH
T ss_pred             HHcCCEEEEEecCCCCCHHHHHHHH
Confidence            5667788999999999998866544

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=99.89  E-value=1.1e-23  Score=158.83  Aligned_cols=151  Identities=14%  Similarity=0.149  Sum_probs=105.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|+|||||+++|.+..+...+.++++........         ..+                .+.+||+||+.
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~~~~~---------~~~----------------~~~i~D~~G~~   58 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKITK---------GNV----------------TIKLWDIGGQP   58 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEE---------TTE----------------EEEEEEECCSH
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCcccccceeeeeeeee---------eeE----------------EEEEeeccccc
Confidence            49999999999999999999888765554443322211110         011                29999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHh-hhhc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK-SQES  179 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~-~~~~  179 (259)
                      .+...+..++..+|++++|+|+++..+..... ++..+.    ..++|+++|+||+|+....   ...++.+.+. ....
T Consensus        59 ~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~---~~~~i~~~~~~~~~~  135 (164)
T d1zd9a1          59 RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGAL---DEKELIEKMNLSAIQ  135 (164)
T ss_dssp             HHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCC---CHHHHHHHTTGGGCC
T ss_pred             cccccccccccccchhhcccccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchhh---hHHHHHHHHHHHHHH
Confidence            99999999999999999999998765544322 333332    2468999999999986432   2233333332 2233


Q ss_pred             cccccccccccccCcceeEEeecCC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                      ..+++++++||++|.|+++.++.+.
T Consensus       136 ~~~~~~~e~Sa~~g~gv~e~~~~l~  160 (164)
T d1zd9a1         136 DREICCYSISCKEKDNIDITLQWLI  160 (164)
T ss_dssp             SSCEEEEECCTTTCTTHHHHHHHHH
T ss_pred             hCCCEEEEEeCcCCcCHHHHHHHHH
Confidence            4467788999999999988665543

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.89  E-value=1.3e-23  Score=160.10  Aligned_cols=153  Identities=20%  Similarity=0.247  Sum_probs=92.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|||||||+++|++..+...+.++.+...........    .                .....+.+|||||++
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~----~----------------~~~~~~~~~d~~g~~   63 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVD----G----------------DKVATMQVWDTAGQE   63 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCS----S----------------SCCEEEEEECCC---
T ss_pred             EEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeec----C----------------cccccceeeccCCch
Confidence            49999999999999999999887765543333222211111100    0                011128899999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh-------CCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS-------KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~-------~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      .+...+..+++.+|++++|+|+++..+.... .++..+..       .++|+++++||+|+.........++.    +++
T Consensus        64 ~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~----~~~  139 (175)
T d1ky3a_          64 RFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSA----QEL  139 (175)
T ss_dssp             -------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHH----HHH
T ss_pred             hhhhHHHHHhhccceEEEEeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHH----HHH
Confidence            9999999999999999999999876554433 34444432       36899999999998743222222222    223


Q ss_pred             hccc-cccccccccccCcceeEEeec
Q psy6316         178 ESSV-QTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       178 ~~~~-~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      .... ..+++++||++|.|+++++..
T Consensus       140 ~~~~~~~~~~e~SA~~g~gv~e~f~~  165 (175)
T d1ky3a_         140 AKSLGDIPLFLTSAKNAINVDTAFEE  165 (175)
T ss_dssp             HHHTTSCCEEEEBTTTTBSHHHHHHH
T ss_pred             HHHcCCCeEEEEeCCCCcCHHHHHHH
Confidence            3333 367789999999999885543

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=99.89  E-value=2.3e-23  Score=158.79  Aligned_cols=151  Identities=18%  Similarity=0.159  Sum_probs=103.4

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|++|||||||+|+|.+..+..     .....+.+.....     ...+                .+.+||+||
T Consensus        16 ~~kI~vvG~~~vGKSsLi~~l~~~~~~~-----~~~~~~~~~~~i~-----~~~~----------------~~~i~d~~g   69 (176)
T d1fzqa_          16 EVRILLLGLDNAGKTTLLKQLASEDISH-----ITPTQGFNIKSVQ-----SQGF----------------KLNVWDIGG   69 (176)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCCSCCEE-----EEEETTEEEEEEE-----ETTE----------------EEEEEECSS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcCCCCc-----ceeeeeeeEEEec-----cCCe----------------eEeEeeccc
Confidence            3559999999999999999998876531     1111121111110     0111                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhh-h
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS-Q  177 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~-~  177 (259)
                      ++.+...+..++..+|++++|+|+++..+..+.. ++..+.    ..++|+++++||+|+....   ....+.+.+.. .
T Consensus        70 ~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~---~~~~~~~~~~~~~  146 (176)
T d1fzqa_          70 QRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAA---PASEIAEGLNLHT  146 (176)
T ss_dssp             CGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCC---CHHHHHHHTTGGG
T ss_pred             cccchhHHHHHhhccceeEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEeccccccc---cHHHHHHHHHHHH
Confidence            9999999999999999999999998866655432 333332    2468999999999997432   22333333332 2


Q ss_pred             hccccccccccccccCcceeEEeecC
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .....+.++++||++|+|++++++++
T Consensus       147 ~~~~~~~~~~~SA~tg~gv~e~~~~l  172 (176)
T d1fzqa_         147 IRDRVWQIQSCSALTGEGVQDGMNWV  172 (176)
T ss_dssp             CCSSCEEEEECCTTTCTTHHHHHHHH
T ss_pred             HHhcCCEEEEEeCCCCCCHHHHHHHH
Confidence            23345678899999999998866544

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.89  E-value=5.5e-24  Score=164.96  Aligned_cols=153  Identities=17%  Similarity=0.151  Sum_probs=106.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+|+|.+|||||||+++|++..+...+.++.+............     ..+                .+.+|||||+
T Consensus         7 ~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~-----~~~----------------~l~i~Dt~G~   65 (194)
T d2bcgy1           7 FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDG-----KTV----------------KLQIWDTAGQ   65 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETT-----EEE----------------EEEEECCTTT
T ss_pred             EEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEee-----EEE----------------EEEEEECCCc
Confidence            4599999999999999999998877665555544333221111111     111                1999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHH---HhCCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINIL---KSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~---~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      +.+..++..+++.+|++|+|+|+++..+..... ++..+   .....|+++|+||+|+... .....    +........
T Consensus        66 e~~~~~~~~~~~~a~~~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~-~~~~~----~~~~~~~~~  140 (194)
T d2bcgy1          66 ERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDK-RVVEY----DVAKEFADA  140 (194)
T ss_dssp             TTTTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTT-CCSCH----HHHHHHHHH
T ss_pred             hhhHHHHHHHhccCCEEEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccccc-cchhH----HHHhhhhhc
Confidence            999999999999999999999998765554433 22222   2346899999999998743 11122    222333444


Q ss_pred             ccccccccccccCcceeEEeecC
Q psy6316         181 VQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+..++++||++|.|+++++..+
T Consensus       141 ~~~~~~e~SAk~g~gi~e~f~~l  163 (194)
T d2bcgy1         141 NKMPFLETSALDSTNVEDAFLTM  163 (194)
T ss_dssp             TTCCEEECCTTTCTTHHHHHHHH
T ss_pred             cCcceEEEecCcCccHHHHHHHH
Confidence            56788999999999998865544

>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=99.88  E-value=3.3e-23  Score=159.26  Aligned_cols=159  Identities=18%  Similarity=0.254  Sum_probs=104.6

Q ss_pred             CCCcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCC
Q psy6316          16 PEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPG   95 (259)
Q Consensus        16 ~~~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (259)
                      |+..+.+|   |+++|++|||||||+|+|++.+..      +......++.......     .           ......
T Consensus         3 p~~~~~~k---V~iiG~~~~GKSTLin~l~~~~~~------~~~~~~~t~~~~~~~~-----~-----------~~~~~~   57 (186)
T d1mkya2           3 PEITDAIK---VAIVGRPNVGKSTLFNAILNKERA------LVSPIPGTTRDPVDDE-----V-----------FIDGRK   57 (186)
T ss_dssp             CCCCSCEE---EEEECSTTSSHHHHHHHHHTSTTE------EECCCC------CCEE-----E-----------EETTEE
T ss_pred             CCCCCCCE---EEEECCCCCCHHHHHHHHHCCCcc------eeecccccccccceee-----e-----------ccCCce
Confidence            34444566   999999999999999999987642      1111111111111000     0           011112


Q ss_pred             eEEEeCCCCc------------chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCccc
Q psy6316          96 LLIIDTPGHE------------SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWN  163 (259)
Q Consensus        96 ~~liDtpG~~------------~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~  163 (259)
                      +.++|+||..            .........++.+|++++|+|+..+...+...++..+...+.|+|+|+||+|+.....
T Consensus        58 ~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dvii~v~d~~~~~~~~~~~~~~~~~~~~~~~i~v~nK~D~~~~~~  137 (186)
T d1mkya2          58 YVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQRMAGLMERRGRASVVVFNKWDLVVHRE  137 (186)
T ss_dssp             EEESSCSCC-----------CCSCCHHHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEEEEEECGGGSTTGG
T ss_pred             eeeeccCCccccccccccccccchhHHHHHHHhcCCEEEEeecccccchhhHHHHHHHHHHcCCceeeeccchhhhcchh
Confidence            7888888843            2334455667889999999999999999999999999999999999999999875432


Q ss_pred             ccchhhHHHHHhhhhcccc-ccccccccccCcceeEEe
Q psy6316         164 TMNRRDVRDIIKSQESSVQ-THKTVESARKGQEICIKI  200 (259)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~~-~~~i~~Sa~~g~gv~~~l  200 (259)
                      . ..+++.+.+.+.....+ .+++++||++|.|+++++
T Consensus       138 ~-~~~~~~~~~~~~~~~~~~~~i~~vSa~~g~gv~~L~  174 (186)
T d1mkya2         138 K-RYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMI  174 (186)
T ss_dssp             G-CHHHHHHHHHHHCGGGTTSCEEECBTTTTBSHHHHH
T ss_pred             h-hhhhHHHHHHHHhcccCCCeEEEEeCCCCCCHHHHH
Confidence            1 23344444444433333 367789999999987643

>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=99.88  E-value=2.6e-23  Score=159.46  Aligned_cols=143  Identities=24%  Similarity=0.324  Sum_probs=94.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      .|+++|.+|||||||+|+|++.++....       ...+|....                    .+.+.++.+|||||..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~~~-------~~g~T~~~~--------------------~~~~~~~~ivDtpG~~   54 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRRGK-------RPGVTRKII--------------------EIEWKNHKIIDMPGFG   54 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSS-------STTCTTSCE--------------------EEEETTEEEEECCCBS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeC-------CCCEeeccc--------------------ccccccceecccCCce
Confidence            5999999999999999999987653211       111111111                    1112238999999941


Q ss_pred             c---------------hHHHHHhhccCCCeEEEEEeCCC-----------CCCHHHHHHHHHHHhCCCCEEEEEeccccc
Q psy6316         106 S---------------FSNLRNRGSSLCDIAILVVDIMH-----------GLEPQTIESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus       106 ~---------------~~~~~~~~~~~ad~~i~v~d~~~-----------~~~~~~~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      .               +.......++.+|++++|+|++.           +....+.+++..+...++|+++|+||+|+.
T Consensus        55 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~~~~p~iiv~NK~D~~  134 (184)
T d2cxxa1          55 FMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKI  134 (184)
T ss_dssp             CCTTSCHHHHHHHHHHHHHHHHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGC
T ss_pred             eccccccccccccchhhhhhhhhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHHcCCCEEEEEeeeehh
Confidence            1               11223345678999999999863           355567778888888999999999999987


Q ss_pred             CcccccchhhHHHHH----hhhhccccccccccccccCcceeEEe
Q psy6316         160 YNWNTMNRRDVRDII----KSQESSVQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       160 ~~~~~~~~~~~~~~~----~~~~~~~~~~~i~~Sa~~g~gv~~~l  200 (259)
                      ..     .+.....+    ..........++++||++|.|+++++
T Consensus       135 ~~-----~~~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~L~  174 (184)
T d2cxxa1         135 KN-----VQEVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLK  174 (184)
T ss_dssp             SC-----HHHHHHHHHHHHTCCGGGHHHHEEECCTTTCTTHHHHH
T ss_pred             hh-----HHHHHHHHHHHhcccccccCCeEEEEECCCCCCHHHHH
Confidence            42     22222222    22222233456789999999997644

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.88  E-value=2.1e-24  Score=166.22  Aligned_cols=161  Identities=18%  Similarity=0.128  Sum_probs=104.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+++|++..+...+.++.+..+.......+..........           .....+.+|||||++
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~-----------~~~~~~~i~dt~G~e   75 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGK-----------AFKVHLQLWDTAGQE   75 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CC-----------EEEEEEEEEEEESHH
T ss_pred             EEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccc-----------cceEEeccccCCcch
Confidence            499999999999999999998877555444433333222111111100000000           000128999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      .|..++..+++.+|++|+|+|+++..+..... ++..+..    ...|+++|+||+|+... ....    .+...++...
T Consensus        76 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~-~~v~----~~e~~~~~~~  150 (186)
T d2f7sa1          76 RFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQ-REVN----ERQARELADK  150 (186)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGG-CCSC----HHHHHHHHHH
T ss_pred             hhHHHHHHHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhh-hcch----HHHHHHHHHH
Confidence            99999999999999999999998754444433 2222222    24678999999998642 1112    2233445555


Q ss_pred             ccccccccccccCcceeEEeec
Q psy6316         181 VQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ++++++++||++|.|+++++..
T Consensus       151 ~~~~~~e~Sak~~~~i~e~f~~  172 (186)
T d2f7sa1         151 YGIPYFETSAATGQNVEKAVET  172 (186)
T ss_dssp             TTCCEEEEBTTTTBTHHHHHHH
T ss_pred             cCCEEEEEeCCCCCCHHHHHHH
Confidence            6788999999999999875543

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.88  E-value=2.1e-23  Score=166.04  Aligned_cols=109  Identities=22%  Similarity=0.215  Sum_probs=84.5

Q ss_pred             CCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCC-------CCHHHHHHHHHHHhCCCC-EEEEEecccccCccc
Q psy6316          92 EIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHG-------LEPQTIESINILKSKKTP-FVVALNKIDRLYNWN  163 (259)
Q Consensus        92 ~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~-------~~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~~~  163 (259)
                      ..++++|+|||||.+|...+.+.+..+|++|+|+|+..+       ...|..+++..++..++| +|+++||+|+... +
T Consensus        82 ~~~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~~gv~~iiv~iNKmD~~~~-d  160 (239)
T d1f60a3          82 PKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDSVKW-D  160 (239)
T ss_dssp             SSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTCCEEEEEEECGGGGTT-C
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHHHHHHHcCCCeEEEEEECCCCCCC-C
Confidence            334599999999999999999999999999999999875       456889999999999987 7889999998743 2


Q ss_pred             ccchhhHHHHHhhhhccc-----cccccccccccCcceeEEee
Q psy6316         164 TMNRRDVRDIIKSQESSV-----QTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~-----~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      .....++...+..+....     ...++++||..|.|+.+...
T Consensus       161 ~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~~s~  203 (239)
T d1f60a3         161 ESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEATT  203 (239)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBCCS
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCcceeccc
Confidence            223344444555544333     34567899999999877443

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.88  E-value=1.7e-23  Score=158.74  Aligned_cols=158  Identities=20%  Similarity=0.188  Sum_probs=112.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++.+..+...+.++.+..+.........     ..+                .+.+|||+|++
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~-----~~~----------------~l~i~d~~g~~   63 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINE-----HTV----------------KFEIWDTAGQE   63 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETT-----EEE----------------EEEEEEECCSG
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCccccccccceeecccccccc-----ccc----------------cccccccCCch
Confidence            499999999999999999999988776666555443222221111     111                29999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHH-HHHH---hCCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESI-NILK---SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l-~~~~---~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+...+..++..+|++++|+|.++..+......+ ....   ....|+++++||+|+......  +.......+.+....
T Consensus        64 ~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~--~~v~~~~~~~~~~~~  141 (170)
T d1ek0a_          64 RFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGE--RKVAREEGEKLAEEK  141 (170)
T ss_dssp             GGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCC--CCSCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHhccceEEEEEeCCcccchhhhhhhhhhhccccccccceeeeecccccccccch--hhhhHHHHHHHHHHc
Confidence            9999999999999999999999986555554432 2222   235789999999998643211  111222334455556


Q ss_pred             cccccccccccCcceeEEeecCCCC
Q psy6316         182 QTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      +++++++||++|.|+++++..+.+.
T Consensus       142 ~~~~~e~Sak~g~gV~e~F~~i~~~  166 (170)
T d1ek0a_         142 GLLFFETSAKTGENVNDVFLGIGEK  166 (170)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHTT
T ss_pred             CCEEEEecCCCCcCHHHHHHHHHHH
Confidence            7889999999999999977766544

>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=99.88  E-value=6.2e-23  Score=155.71  Aligned_cols=148  Identities=18%  Similarity=0.212  Sum_probs=95.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      .|+++|++|||||||+|+|++.....     .....+.+.......      +.           .....+.++|+||..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~-----~~~~~~~t~~~~~~~------~~-----------~~~~~~~~~d~~g~~   59 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAI-----VEDEEGVTRDPVQDT------VE-----------WYGKTFKLVDTCGVF   59 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-------------------CCSEEE------EE-----------ETTEEEEEEECTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcce-----ecccCceeecccccc------cc-----------cccccccccccccee
Confidence            59999999999999999998765421     111111111111110      00           011128999999932


Q ss_pred             c---------hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         106 S---------FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       106 ~---------~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      .         +......++..+|++++++|++.+....+..++..++..++|+++|+||+|+...       ...+...+
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~ad~i~~~~~~~~~~~~~~~~~~~~l~~~~~pviiv~NK~Dl~~~-------~~~~~~~~  132 (171)
T d1mkya1          60 DNPQDIISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRKSTVDTILVANKAENLRE-------FEREVKPE  132 (171)
T ss_dssp             SSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTTCCCHHHHHHHHHHHHHTCCEEEEEESCCSHHH-------HHHHTHHH
T ss_pred             eeeccccccccccccccccccCcEEEEeecccccccccccccccccccccccccccchhhhhhhh-------hhhHHHHH
Confidence            1         2233445568999999999999999988888888899999999999999999732       11222222


Q ss_pred             hhccccccccccccccCcceeEEeec
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ........++++||++|.|++++++.
T Consensus       133 ~~~~~~~~~i~iSAk~g~gid~L~~~  158 (171)
T d1mkya1         133 LYSLGFGEPIPVSAEHNINLDTMLET  158 (171)
T ss_dssp             HGGGSSCSCEECBTTTTBSHHHHHHH
T ss_pred             HHhcCCCCeEEEecCCCCCHHHHHHH
Confidence            33333457789999999999874433

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=99.88  E-value=1.6e-23  Score=158.07  Aligned_cols=149  Identities=21%  Similarity=0.195  Sum_probs=99.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|||||||+++|.+..+..     ...+.+.......     ....                .+.+|||||+
T Consensus         3 ~ki~ivG~~~~GKTsLi~~l~~~~~~~-----~~~t~~~~~~~~~-----~~~~----------------~~~~~D~~G~   56 (165)
T d1ksha_           3 LRLLMLGLDNAGKTTILKKFNGEDVDT-----ISPTLGFNIKTLE-----HRGF----------------KLNIWDVGGQ   56 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTCCCSS-----CCCCSSEEEEEEE-----ETTE----------------EEEEEEECCS
T ss_pred             EEEEEECCCCCCHHHHHHHHcCCCCCc-----ccceEeeeeeecc-----cccc----------------ceeeeecCcc
Confidence            349999999999999999998766532     1222221111111     0111                2999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHH----HhCCCCEEEEEecccccCcccccchhhHHHHHh-hhh
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINIL----KSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK-SQE  178 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~----~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~-~~~  178 (259)
                      +.+...+..++..+|++++|+|+++.....+ ...+...    ...+.|+++|+||+|+....   ...+....+. ...
T Consensus        57 ~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~---~~~~~~~~~~~~~~  133 (165)
T d1ksha_          57 KSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGAL---SCNAIQEALELDSI  133 (165)
T ss_dssp             HHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC---CHHHHHHHTTGGGC
T ss_pred             hhhhhHHHhhhhhhhcceeeeecccchhHHHHHHhhhhhhhhcccCCCceEEEEecccccccc---CHHHHHHHHHhhhh
Confidence            9998888899999999999999987655443 2333322    23568999999999986321   2223332222 122


Q ss_pred             ccccccccccccccCcceeEEeec
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ...+++++++||++|+|+.+.+++
T Consensus       134 ~~~~~~~~~~Sa~~g~gv~e~~~~  157 (165)
T d1ksha_         134 RSHHWRIQGCSAVTGEDLLPGIDW  157 (165)
T ss_dssp             CSSCEEEEECCTTTCTTHHHHHHH
T ss_pred             hcCCCEEEEEECCCCCCHHHHHHH
Confidence            333567889999999999875543

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.88  E-value=9.4e-24  Score=161.26  Aligned_cols=154  Identities=19%  Similarity=0.171  Sum_probs=108.9

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEE
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLII   99 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li   99 (259)
                      +.+|   |+++|.+|+|||||+++|.+..+........+..............     .                .+.+|
T Consensus         6 ~~iK---i~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~----------------~~~i~   61 (177)
T d1x3sa1           6 TTLK---ILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNK-----A----------------KLAIW   61 (177)
T ss_dssp             EEEE---EEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEE-----E----------------EEEEE
T ss_pred             ceeE---EEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccc-----c----------------EEEEE
Confidence            4555   9999999999999999999988766655555443332222211111     1                19999


Q ss_pred             eCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316         100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus       100 DtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      ||||++++..++..++..+|++++|+|+++..+... ..++..+..    ...|++++.||.|....      .......
T Consensus        62 Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~~------~v~~~~~  135 (177)
T d1x3sa1          62 DTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENR------EVDRNEG  135 (177)
T ss_dssp             EECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSC------CSCHHHH
T ss_pred             ECCCchhhHHHHHHHHhcCCEEEEEEECCCccccccchhhhhhhcccccccceeeEEEeeccccccc------cccHHHH
Confidence            999999999989999999999999999987544433 334455443    34788999999997632      1122233


Q ss_pred             hhhhccccccccccccccCcceeEEeecC
Q psy6316         175 KSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       175 ~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+....++.++.+||++|.|+++++..+
T Consensus       136 ~~~~~~~~~~~~e~Sa~tg~gv~e~f~~l  164 (177)
T d1x3sa1         136 LKFARKHSMLFIEASAKTCDGVQCAFEEL  164 (177)
T ss_dssp             HHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHHHCCCEEEEEeCCCCCCHHHHHHHH
Confidence            34455566788999999999998866544

>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=99.88  E-value=4.9e-23  Score=159.60  Aligned_cols=167  Identities=14%  Similarity=0.136  Sum_probs=105.2

Q ss_pred             hhhhhhhhhhcCCCCcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCC
Q psy6316           4 VFNKRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGG   83 (259)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (259)
                      .|..+..+-++.|...    .++|+++|++|||||||+|+|++.+...     .......++.......     .     
T Consensus         7 ~~~~~~~~~~~~p~~~----~~~I~lvG~~n~GKSTLin~L~g~~~~~-----~~~~~~~~t~~~~~~~-----~-----   67 (195)
T d1svia_           7 EIVISAVKPEQYPEGG----LPEIALAGRSNVGKSSFINSLINRKNLA-----RTSSKPGKTQTLNFYI-----I-----   67 (195)
T ss_dssp             EEEEEESSGGGSCCSC----CCEEEEEEBTTSSHHHHHHHHHTC------------------CCEEEEE-----E-----
T ss_pred             EEEEecCChhHCCCCC----CCEEEEECCCCCCHHHHHHHhcCCCceE-----Eeecccceeeeccccc-----c-----
Confidence            3444445555555433    4569999999999999999999765321     1111111111110000     0     


Q ss_pred             CCCCCCCCCCCCeEEEeCCCCc-------------chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEE
Q psy6316          84 EVGGPGPLEIPGLLIIDTPGHE-------------SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFV  150 (259)
Q Consensus        84 ~~~~~~~~~~~~~~liDtpG~~-------------~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pii  150 (259)
                               ...+.++|++|..             .+...+...+..+|++++|+|++++...++.+++..++..++|++
T Consensus        68 ---------~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~viD~~~~~~~~~~~~~~~l~~~~~pii  138 (195)
T d1svia_          68 ---------NDELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVI  138 (195)
T ss_dssp             ---------TTTEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCCEE
T ss_pred             ---------cccceEEEEEeeccccccccccchhhhHHhhhhccccchhhhhhhhhccccccccccccccccccccCcce
Confidence                     0027788888821             112223345567899999999999999999999999999999999


Q ss_pred             EEEecccccCcccccchhhHHHHHhhhh-ccccccccccccccCcceeEEee
Q psy6316         151 VALNKIDRLYNWNTMNRRDVRDIIKSQE-SSVQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       151 vv~NK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      +|+||+|+....   ...+..+.+.+.. .....+++++||++|+|+++++.
T Consensus       139 vv~NK~D~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~SA~~~~gi~el~~  187 (195)
T d1svia_         139 VIATKADKIPKG---KWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWG  187 (195)
T ss_dssp             EEEECGGGSCGG---GHHHHHHHHHHHHTCCTTSEEEECCTTTCTTHHHHHH
T ss_pred             echhhccccCHH---HHHHHHHHHHHHhcccCCCCEEEEeCCCCCCHHHHHH
Confidence            999999987321   2333333333332 23345678999999999988543

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.88  E-value=2.7e-24  Score=163.67  Aligned_cols=152  Identities=17%  Similarity=0.116  Sum_probs=78.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+++|++..+...+.++++..+.......+..     .+                .+.+|||||+
T Consensus         7 ~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~-----~~----------------~l~i~D~~G~   65 (173)
T d2fu5c1           7 FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGK-----RI----------------KLQIWDTAGQ   65 (173)
T ss_dssp             EEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTE-----EE----------------EEEEEEC---
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCE-----EE----------------EEEEEECCCc
Confidence            35999999999999999999988775554444444333322221111     11                1889999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH---hCCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK---SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~---~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      +.+..++..+++.+|++|+|+|+++..+..... ++..+.   ..+.|+++|+||+|+.... ...    ..........
T Consensus        66 e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~-~~~----~~~~~~~~~~  140 (173)
T d2fu5c1          66 ERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKR-QVS----KERGEKLALD  140 (173)
T ss_dssp             ------CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCC-CSC----HHHHHHHHHH
T ss_pred             hhhHHHHHHhccCCCEEEEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhc-ccH----HHHHHHHHHh
Confidence            999999999999999999999998765544433 233333   3468999999999987431 111    2223334445


Q ss_pred             ccccccccccccCcceeEEeec
Q psy6316         181 VQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      .+++++++||++|+|+++++..
T Consensus       141 ~~~~~~e~Sa~~g~gv~e~f~~  162 (173)
T d2fu5c1         141 YGIKFMETSAKANINVENAFFT  162 (173)
T ss_dssp             HTCEEEECCC---CCHHHHHHH
T ss_pred             cCCEEEEEeCCCCCCHHHHHHH
Confidence            5688899999999999875543

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.88  E-value=7.9e-24  Score=161.38  Aligned_cols=151  Identities=17%  Similarity=0.179  Sum_probs=102.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|||||||++++.+..+...+..+.+..........+..     .+                .+.+|||||++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~----------------~~~i~d~~g~e   64 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGK-----TI----------------KAQIWDTAGQE   64 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTE-----EE----------------EEEEEECSSGG
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCE-----EE----------------EEEecccCCcH
Confidence            4999999999999999999988876555444433332222211110     11                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHH-HHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQT-IESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~-~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .|...+...++.+|++|+|+|.++..+... ..++..+..   .+.|+++|+||+|+... ....    ...........
T Consensus        65 ~~~~~~~~~~~~~~~~i~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~-~~~~----~~~~~~~~~~~  139 (175)
T d2f9la1          65 RYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL-RAVP----TDEARAFAEKN  139 (175)
T ss_dssp             GTTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG-CCSC----HHHHHHHHHHT
T ss_pred             HHHHHHHHHhhccCeEEEEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeeccccc-ccch----HHHHHHhhccc
Confidence            999888899999999999999987544433 234444433   45899999999998642 1111    12222333344


Q ss_pred             cccccccccccCcceeEEeec
Q psy6316         182 QTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      +.+++++||++|.|+++++..
T Consensus       140 ~~~~~e~Sa~~g~~i~e~f~~  160 (175)
T d2f9la1         140 NLSFIETSALDSTNVEEAFKN  160 (175)
T ss_dssp             TCEEEECCTTTCTTHHHHHHH
T ss_pred             CceEEEEecCCCcCHHHHHHH
Confidence            578899999999999875443

>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=99.88  E-value=1.6e-23  Score=158.82  Aligned_cols=153  Identities=16%  Similarity=0.176  Sum_probs=108.2

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEE
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLII   99 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li   99 (259)
                      |++|   |+++|.+|+|||||++++++..+.+.+.++.+..+... ...     ....+                .+.+|
T Consensus         3 pt~K---i~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~-~~~-----~~~~~----------------~~~i~   57 (169)
T d1x1ra1           3 PTYK---LVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSYLKH-TEI-----DNQWA----------------ILDVL   57 (169)
T ss_dssp             CEEE---EEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEEEEEE-EEE-----TTEEE----------------EEEEE
T ss_pred             CcEE---EEEECCCCcCHHHHHHHHHhCCCCcccCcceeeccccc-ccc-----ccccc----------------ccccc
Confidence            4555   99999999999999999999887766655554332111 100     11111                18999


Q ss_pred             eCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316         100 DTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus       100 DtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      |++|++.+...+..+++.+|++++|+|+++..+..... ++..+.    ..+.|+++++||+|+.... ....    +..
T Consensus        58 d~~g~~~~~~~~~~~~~~~~~~llv~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~-~v~~----e~~  132 (169)
T d1x1ra1          58 DTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLR-KVTR----DQG  132 (169)
T ss_dssp             ECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTC-CSCH----HHH
T ss_pred             ccccccccccchhhhhhhccEEEEecccccchhhhccchhhHHHHhhccccCccEEEEecccchhhhc-eeeh----hhH
Confidence            99999999999999999999999999999865554433 434332    3468999999999987431 1122    234


Q ss_pred             hhhhccccccccccccccCc-ceeEEeec
Q psy6316         175 KSQESSVQTHKTVESARKGQ-EICIKIEP  202 (259)
Q Consensus       175 ~~~~~~~~~~~i~~Sa~~g~-gv~~~l~~  202 (259)
                      .++...++++++++||++|. |+++++..
T Consensus       133 ~~~~~~~~~~~~e~Sak~~~~nV~~~F~~  161 (169)
T d1x1ra1         133 KEMATKYNIPYIETSAKDPPLNVDKTFHD  161 (169)
T ss_dssp             HHHHHHHTCCEEEEBCSSSCBSHHHHHHH
T ss_pred             HHHHHHcCCEEEEEcCCCCCcCHHHHHHH
Confidence            45555667889999999886 99875543

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.88  E-value=5.9e-24  Score=160.66  Aligned_cols=150  Identities=17%  Similarity=0.137  Sum_probs=103.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+++|++..+...+.++.+.++.......+...     +                .+.+|||||++
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~-----~----------------~~~i~Dt~G~~   62 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKK-----V----------------KLQIWDTAGQE   62 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCE-----E----------------EEEEECCTTGG
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEE-----E----------------EEEEEECCCch
Confidence            49999999999999999999988766655555544433332221110     1                18899999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHH-HHH---HhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESI-NIL---KSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l-~~~---~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+..++..+++.+|++++|+|.++..+......+ ...   .....|++++.||.|+...      ....+..+.+....
T Consensus        63 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~~------~~~~~~~~~~~~~~  136 (166)
T d1g16a_          63 RFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETR------VVTADQGEALAKEL  136 (166)
T ss_dssp             GTSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTC------CSCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHhcCCEEEEEEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhhhh------hhhHHHHHHHHHhc
Confidence            9998888999999999999999886554443322 222   2235788999999998632      22233445555566


Q ss_pred             cccccccccccCcceeEEeec
Q psy6316         182 QTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      +++++++||++|.|+++++..
T Consensus       137 ~~~~~~~Sa~~~~~v~e~f~~  157 (166)
T d1g16a_         137 GIPFIESSAKNDDNVNEIFFT  157 (166)
T ss_dssp             TCCEEECBTTTTBSHHHHHHH
T ss_pred             CCeEEEECCCCCCCHHHHHHH
Confidence            789999999999999885543

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.88  E-value=6.2e-23  Score=156.63  Aligned_cols=156  Identities=18%  Similarity=0.144  Sum_probs=103.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||++++.+..+...+.++++...... .....     ..+                .+.+||++|+
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~-~~~~~-----~~~----------------~l~i~D~~g~   60 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVAD-IEVDG-----KQV----------------ELALWDTAGL   60 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEE-EEETT-----EEE----------------EEEEEEECCS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeecccc-ccccc-----cce----------------eeeccccCcc
Confidence            4599999999999999999999887766555544222111 11100     011                2999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH--HHHHHHh--CCCCEEEEEecccccCccccc-------chhhHHHH
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE--SINILKS--KKTPFVVALNKIDRLYNWNTM-------NRRDVRDI  173 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~--~l~~~~~--~~~piivv~NK~D~~~~~~~~-------~~~~~~~~  173 (259)
                      +.+...+..+++.+|++++|+|.++..+.....  +...+..  .+.|+++|+||+|+.......       ...-....
T Consensus        61 ~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e  140 (177)
T d1kmqa_          61 EDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEE  140 (177)
T ss_dssp             GGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHH
T ss_pred             chhcccchhhcccchhhhhhcccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhcccccHHH
Confidence            999999999999999999999998865544322  2333333  468999999999997421100       00001112


Q ss_pred             Hhhhhcccc-ccccccccccCcceeEEeec
Q psy6316         174 IKSQESSVQ-THKTVESARKGQEICIKIEP  202 (259)
Q Consensus       174 ~~~~~~~~~-~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      .+.+...++ .+++++||++|.|++++++.
T Consensus       141 ~~~~a~~~~~~~~~E~SAkt~~gi~e~F~~  170 (177)
T d1kmqa_         141 GRDMANRIGAFGYMECSAKTKDGVREVFEM  170 (177)
T ss_dssp             HHHHHHHTTCSEEEECCTTTCTTHHHHHHH
T ss_pred             HHHHHHHcCCcEEEEecCCCCcCHHHHHHH
Confidence            223333333 46789999999999886543

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.87  E-value=7.8e-23  Score=157.20  Aligned_cols=157  Identities=17%  Similarity=0.190  Sum_probs=104.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+++++...+...+.+++....... ...     ....+                .+.+|||+|
T Consensus         9 ~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~~~~~~~-~~~-----~~~~~----------------~l~i~D~~g   66 (185)
T d2atxa1           9 MLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVS-VTV-----GGKQY----------------LLGLYDTAG   66 (185)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCEEEE-EES-----SSCEE----------------EEEEECCCC
T ss_pred             EEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCceeeeeeEE-Eee-----CCceE----------------Eeecccccc
Confidence            45599999999999999999998887665544443221110 000     00011                289999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-H-HHHHHHh--CCCCEEEEEecccccCccccc-------chhhHHH
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-E-SINILKS--KKTPFVVALNKIDRLYNWNTM-------NRRDVRD  172 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~-~l~~~~~--~~~piivv~NK~D~~~~~~~~-------~~~~~~~  172 (259)
                      ++.+...+..+++.+|++++|+|+++..+.... . +...++.  .+.|+++|+||+|+.......       .+.-..+
T Consensus        67 ~e~~~~~~~~~~~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~  146 (185)
T d2atxa1          67 QEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVE  146 (185)
T ss_dssp             SSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHH
T ss_pred             cchhhhhhhhcccccceeeeccccchHHHHHHHHHHHHHHHHhcCCCCCeeEeeeccccccchhhhhhhhhcccccccHH
Confidence            999999999999999999999999886555432 2 3333332  468999999999987421000       0000112


Q ss_pred             HHhhhhcccc-ccccccccccCcceeEEeec
Q psy6316         173 IIKSQESSVQ-THKTVESARKGQEICIKIEP  202 (259)
Q Consensus       173 ~~~~~~~~~~-~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ...++....+ +.++++||++|.|+++++..
T Consensus       147 ~~~~~a~~~~~~~~~E~SAk~~~gv~e~F~~  177 (185)
T d2atxa1         147 QGQKLAKEIGACCYVECSALTQKGLKTVFDE  177 (185)
T ss_dssp             HHHHHHHHHTCSCEEECCTTTCTTHHHHHHH
T ss_pred             HHHHHHHHcCCCEEEEecCCCCcCHHHHHHH
Confidence            2233333333 57788999999999886543

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.87  E-value=8.7e-24  Score=160.85  Aligned_cols=150  Identities=20%  Similarity=0.136  Sum_probs=102.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+|+|.+|||||||++++++..+...+..+..............     ...                .+.+||++|+.
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~----------------~~~i~d~~g~~   63 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDG-----KQI----------------KLQIWDTAGQE   63 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETT-----EEE----------------EEEEECCTTGG
T ss_pred             EEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeee-----eEE----------------EEEeecccCcc
Confidence            599999999999999999998877655433333222211111111     011                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHHhhhhccc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSV  181 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~  181 (259)
                      .+...+..++..+|++++|+|.++..+.... .++..+..   .++|+++|+||+|+.... .    ...+....+....
T Consensus        64 ~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~-~----~~~~~~~~~a~~~  138 (173)
T d2a5ja1          64 SFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRR-D----VKREEGEAFAREH  138 (173)
T ss_dssp             GTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC-C----SCHHHHHHHHHHH
T ss_pred             chhhHHHHHhhccCEEEEEEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhhh-h----hHHHHHHHHHHHc
Confidence            9999899999999999999999886554433 34444433   468999999999986421 1    1222344444555


Q ss_pred             cccccccccccCcceeEEee
Q psy6316         182 QTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       182 ~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      +++++++||++|.|+++++.
T Consensus       139 ~~~~~e~Sa~tg~~V~e~f~  158 (173)
T d2a5ja1         139 GLIFMETSAKTACNVEEAFI  158 (173)
T ss_dssp             TCEEEEECTTTCTTHHHHHH
T ss_pred             CCEEEEecCCCCCCHHHHHH
Confidence            67889999999999987544

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.87  E-value=3.1e-23  Score=157.27  Aligned_cols=153  Identities=17%  Similarity=0.216  Sum_probs=96.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCC-CcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEA-GGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      .+|+++|.+|||||||++++++..+..... .+++.+...........     .+                .+.||||||
T Consensus         7 fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~----------------~l~i~Dt~G   65 (170)
T d2g6ba1           7 FKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGV-----KV----------------KLQMWDTAG   65 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTE-----EE----------------EEEEEECCC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCc-----EE----------------EEEEEECCC
Confidence            349999999999999999998887643332 22222222211111111     01                189999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHH---HhCCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINIL---KSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~---~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ++.+..++..+++.+|++++|+|.++..+..... ++...   .....|+++|.||+|+.... ....+    ....+..
T Consensus        66 ~e~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~-~v~~~----~~~~~~~  140 (170)
T d2g6ba1          66 QERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHER-VVKRE----DGEKLAK  140 (170)
T ss_dssp             C--------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCC-CSCHH----HHHHHHH
T ss_pred             chhhHHHHHHhhcCCceeEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhcc-cccHH----HHHHHHH
Confidence            9999999999999999999999998754444333 22222   22467899999999987431 21222    3334445


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+++++++||++|.|+++++..+
T Consensus       141 ~~~~~~~e~Sak~g~gi~e~f~~l  164 (170)
T d2g6ba1         141 EYGLPFMETSAKTGLNVDLAFTAI  164 (170)
T ss_dssp             HHTCCEEECCTTTCTTHHHHHHHH
T ss_pred             HcCCEEEEEeCCCCcCHHHHHHHH
Confidence            556889999999999998765443

>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=99.87  E-value=5.3e-23  Score=155.72  Aligned_cols=148  Identities=18%  Similarity=0.157  Sum_probs=102.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||++++++..+...+.++++..+......      ....+                .+.+|||+|+.
T Consensus         4 Ki~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~~~~~~------~~~~~----------------~l~i~D~~g~~   61 (168)
T d2atva1           4 KLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQATI------DDEVV----------------SMEILDTAGQE   61 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEE------TTEEE----------------EEEEEECCCCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCccCCceeccccccccc------cccce----------------EEEEeeccccc
Confidence            499999999999999999999988777666665443221111      00111                29999999988


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHH-HHH---H-hCCCCEEEEEecccccCcccccchhhHHHHHhhhhcc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESI-NIL---K-SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESS  180 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l-~~~---~-~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~  180 (259)
                      .+. .+..+++.+|++++|+|+++..+......+ ...   . ..+.|+++|+||+|+... ....    .+..+.+...
T Consensus        62 ~~~-~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~-r~V~----~~e~~~~a~~  135 (168)
T d2atva1          62 DTI-QREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHS-RQVS----TEEGEKLATE  135 (168)
T ss_dssp             CCH-HHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGG-CCSC----HHHHHHHHHH
T ss_pred             ccc-cchhhhcccccceeecccCCccchhhhhhhcccccccccccCcceeeeccchhhhhh-ccCc----HHHHHHHHHH
Confidence            774 556688899999999999986555444322 222   2 246899999999998632 1112    2233444555


Q ss_pred             ccccccccccccCcc-eeEEee
Q psy6316         181 VQTHKTVESARKGQE-ICIKIE  201 (259)
Q Consensus       181 ~~~~~i~~Sa~~g~g-v~~~l~  201 (259)
                      ++++++.+||++|.| +++++.
T Consensus       136 ~~~~~~e~Saktg~gnV~e~F~  157 (168)
T d2atva1         136 LACAFYECSACTGEGNITEIFY  157 (168)
T ss_dssp             HTSEEEECCTTTCTTCHHHHHH
T ss_pred             hCCeEEEEccccCCcCHHHHHH
Confidence            678889999999985 877543

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=99.87  E-value=1.6e-22  Score=153.74  Aligned_cols=150  Identities=16%  Similarity=0.146  Sum_probs=101.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|||||||+++|.+.....     ...+.+.....     ......                .+.+||+||+
T Consensus        13 ~kIvlvG~~~vGKTSli~rl~~~~~~~-----~~~t~~~~~~~-----~~~~~~----------------~~~i~D~~g~   66 (173)
T d1e0sa_          13 MRILMLGLDAAGKTTILYKLKLGQSVT-----TIPTVGFNVET-----VTYKNV----------------KFNVWDVGGQ   66 (173)
T ss_dssp             EEEEEEEETTSSHHHHHHHTTCCCCEE-----EEEETTEEEEE-----EEETTE----------------EEEEEEESCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCC-----ccceeeeeEEE-----eeccce----------------eeEEecCCCc
Confidence            349999999999999999998765421     11111111111     111111                2899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHh-hhh
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIK-SQE  178 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~-~~~  178 (259)
                      ..+...+..+++.+|++++|+|+++..+.... .++.....    .+.|+++++||+|+....   ...++...+. ...
T Consensus        67 ~~~~~~~~~~~~~~~~ii~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~---~~~~i~~~~~~~~~  143 (173)
T d1e0sa_          67 DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAM---KPHEIQEKLGLTRI  143 (173)
T ss_dssp             GGGHHHHGGGTTTCCEEEEEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCC---CHHHHHHHTTGGGC
T ss_pred             chhhhHHHhhhcccceEEEEEecccchhHHHHHHHHHHHhhhcccccceeeeeeecccccccc---cHHHHHHHHHHHHH
Confidence            99999999999999999999999875554433 33333322    468999999999987432   2333444332 233


Q ss_pred             ccccccccccccccCcceeEEeecC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ...++.++++||++|+|+++.++.+
T Consensus       144 ~~~~~~~~e~SA~tg~gv~e~~~~l  168 (173)
T d1e0sa_         144 RDRNWYVQPSCATSGDGLYEGLTWL  168 (173)
T ss_dssp             CSSCEEEEECBTTTTBTHHHHHHHH
T ss_pred             HhCCCEEEEeeCCCCcCHHHHHHHH
Confidence            4446778899999999998866544

>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=99.87  E-value=6.6e-23  Score=155.58  Aligned_cols=152  Identities=15%  Similarity=0.136  Sum_probs=102.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|||||||++++++..+...+.++........ ...+     ...+                .+.+||++|+
T Consensus         6 ~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~-~~~~-----~~~~----------------~~~~~d~~g~   63 (171)
T d2erya1           6 YRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQ-CVID-----DRAA----------------RLDILDTAGQ   63 (171)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCCEEEEEE-EEET-----TEEE----------------EEEEEECC--
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCcccccceeee-eeec-----cccc----------------cccccccccc
Confidence            3599999999999999999998887665544443222111 1111     0111                1899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhhhhc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      ..+...+..+++.+|++++|+|.++..+..... ++..+.    ....|+++|+||+|+... .....    +....+..
T Consensus        64 ~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~-~~v~~----~~~~~~~~  138 (171)
T d2erya1          64 EEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQ-RQVTQ----EEGQQLAR  138 (171)
T ss_dssp             --CCHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTS-CSSCH----HHHHHHHH
T ss_pred             ccccccccccccccceEEEeeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhh-ccchH----HHHHHHHH
Confidence            999999999999999999999998765544433 333322    346899999999998632 22222    23444555


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .++++++++||++|.|+++++..+
T Consensus       139 ~~~~~~~e~Sak~~~~i~e~f~~l  162 (171)
T d2erya1         139 QLKVTYMEASAKIRMNVDQAFHEL  162 (171)
T ss_dssp             HTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             HcCCEEEEEcCCCCcCHHHHHHHH
Confidence            567888999999999998865443

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=1.8e-22  Score=155.86  Aligned_cols=160  Identities=16%  Similarity=0.185  Sum_probs=108.5

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeC
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDT  101 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDt  101 (259)
                      |+..+|+++|.+|+|||||++++++..+...+.++++......... ..     ...                .+.+|||
T Consensus         1 m~~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~~~~~~~~~~-~~-----~~~----------------~l~i~D~   58 (191)
T d2ngra_           1 MQTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMI-GG-----EPY----------------TLGLFDT   58 (191)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEE-TT-----EEE----------------EEEEEEE
T ss_pred             CCceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeecceeEee-CC-----cee----------------eeecccc
Confidence            4556799999999999999999999988766655554333211111 00     011                2899999


Q ss_pred             CCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-H-HHHHHh--CCCCEEEEEecccccCccccc-------chhhH
Q psy6316         102 PGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-S-INILKS--KKTPFVVALNKIDRLYNWNTM-------NRRDV  170 (259)
Q Consensus       102 pG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~-l~~~~~--~~~piivv~NK~D~~~~~~~~-------~~~~~  170 (259)
                      +|+++|...+..+++.+|++++|+|+++..+.+... + ...+..  .+.|+++|+||+|+.......       ...-.
T Consensus        59 ~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~  138 (191)
T d2ngra_          59 AGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPIT  138 (191)
T ss_dssp             CCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCC
T ss_pred             ccchhhhhhhhhcccccceeecccccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccchhhhhhhhccccccc
Confidence            999999999999999999999999999876655543 2 232322  468999999999986421000       00011


Q ss_pred             HHHHhhhhccc-cccccccccccCcceeEEeecC
Q psy6316         171 RDIIKSQESSV-QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       171 ~~~~~~~~~~~-~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      .+..+.+.... ...++++||++|.|+++++..+
T Consensus       139 ~~~~~~~~~~~~~~~~~e~SAk~~~~V~e~f~~l  172 (191)
T d2ngra_         139 PETAEKLARDLKAVKYVECSALTQKGLKNVFDEA  172 (191)
T ss_dssp             HHHHHHHHHHTTCSCEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCeEEEEeCCCCcCHHHHHHHH
Confidence            12222333332 4678899999999999876544

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=1.6e-22  Score=153.88  Aligned_cols=152  Identities=19%  Similarity=0.204  Sum_probs=102.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+|+|.+|||||||++++....+...+..+++..............     .                .+.+||++|.
T Consensus         7 ~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~-----~----------------~~~i~d~~g~   65 (174)
T d1wmsa_           7 FKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHF-----V----------------TMQIWDTAGQ   65 (174)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEE-----E----------------EEEEEECCCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCce-----e----------------eEeeecccCc
Confidence            359999999999999999999888766655554443322222111110     1                1889999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh-------CCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS-------KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~-------~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                      ..+...+..++..+|++++++|.++..+..... ++..+..       .+.|+++|+||+|+..  .....++.....++
T Consensus        66 ~~~~~~~~~~~~~~~~~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~--~~v~~~~~~~~~~~  143 (174)
T d1wmsa_          66 ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE--RQVSTEEAQAWCRD  143 (174)
T ss_dssp             GGGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS--CSSCHHHHHHHHHH
T ss_pred             ceehhhhhhhhhccceEEEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhh--ccCcHHHHHHHHHH
Confidence            999999999999999999999998754444322 3333322       3589999999999853  12223333332222


Q ss_pred             hhccccccccccccccCcceeEEeec
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                         ...++++++||++|.|+++++..
T Consensus       144 ---~~~~~~~e~Sak~~~gI~e~f~~  166 (174)
T d1wmsa_         144 ---NGDYPYFETSAKDATNVAAAFEE  166 (174)
T ss_dssp             ---TTCCCEEECCTTTCTTHHHHHHH
T ss_pred             ---cCCCeEEEEcCCCCcCHHHHHHH
Confidence               23468889999999999886543

>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=99.86  E-value=2e-22  Score=154.14  Aligned_cols=150  Identities=20%  Similarity=0.143  Sum_probs=92.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ++|+++|.+|||||||+|+|++.......      ..+.++...-....                ......+.+|||||.
T Consensus         2 ~~VaivG~~nvGKSTLin~L~~~~~~~~~------~~~~t~~~~~~~~~----------------~~~~~~~~~~DtpG~   59 (180)
T d1udxa2           2 ADVGLVGYPNAGKSSLLAAMTRAHPKIAP------YPFTTLSPNLGVVE----------------VSEEERFTLADIPGI   59 (180)
T ss_dssp             CSEEEECCGGGCHHHHHHHHCSSCCEECC------CTTCSSCCEEEEEE----------------CSSSCEEEEEECCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceec------cCCCceeeeeceee----------------ecCCCeEEEcCCCee
Confidence            35999999999999999999877643211      11111111000000                011113999999993


Q ss_pred             c-------chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHH-----HhCCCCEEEEEecccccCcccccchhhHHH
Q psy6316         105 E-------SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINIL-----KSKKTPFVVALNKIDRLYNWNTMNRRDVRD  172 (259)
Q Consensus       105 ~-------~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~-----~~~~~piivv~NK~D~~~~~~~~~~~~~~~  172 (259)
                      .       .+.......+..+|++++++|+..............+     ...++|+++|+||+|+...      +....
T Consensus        60 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~~------~~~~~  133 (180)
T d1udxa2          60 IEGASEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE------EAVKA  133 (180)
T ss_dssp             CCCGGGSCCSCHHHHHHHTSSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH------HHHHH
T ss_pred             ecCchHHHHHHHHHHHHHHhhhhhhhhcccccccccchhhhhhhhhccccccchhhhhhhhhhhhhhhH------HHHHH
Confidence            3       2333455677899999999998654332222222222     2235899999999999732      22222


Q ss_pred             HHhhhhccccccccccccccCcceeEEeecC
Q psy6316         173 IIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       173 ~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                       +.+.....+.+++++||++|+|++++++.+
T Consensus       134 -~~~~~~~~~~~~~~iSA~tg~gid~L~~~i  163 (180)
T d1udxa2         134 -LADALAREGLAVLPVSALTGAGLPALKEAL  163 (180)
T ss_dssp             -HHHHHHTTTSCEEECCTTTCTTHHHHHHHH
T ss_pred             -HHHHHHhcCCeEEEEEcCCCCCHHHHHHHH
Confidence             333333446788999999999998755443

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=99.86  E-value=1.1e-22  Score=155.91  Aligned_cols=150  Identities=21%  Similarity=0.169  Sum_probs=97.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|||||||+++|.+..+...     ..+.+.....     .....                ..+.+||+||
T Consensus        17 ~~KI~lvG~~~vGKTsLi~~l~~~~~~~~-----~~t~~~~~~~-----~~~~~----------------~~~~i~D~~g   70 (182)
T d1moza_          17 ELRILILGLDGAGKTTILYRLQIGEVVTT-----KPTIGFNVET-----LSYKN----------------LKLNVWDLGG   70 (182)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCCSEEEEE-----CSSTTCCEEE-----EEETT----------------EEEEEEEEC-
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCcc-----ccccceEEEE-----EeeCC----------------EEEEEEeccc
Confidence            44599999999999999999976654211     1111111000     00011                1289999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHh-hh
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIK-SQ  177 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~-~~  177 (259)
                      ++.+...+..++..+|++++|+|+++..+..+. .++.....    .+.|+++|+||+|+....   ..+++.+.+. ..
T Consensus        71 ~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~---~~~~i~~~~~~~~  147 (182)
T d1moza_          71 QTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGAL---SASEVSKELNLVE  147 (182)
T ss_dssp             ---CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCC---CHHHHHHHTTTTT
T ss_pred             ccccchhHHhhhccceeEEEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeecccccc---CHHHHHHHHHHHH
Confidence            999999999999999999999999987766543 34443322    358999999999986321   2344444332 22


Q ss_pred             hccccccccccccccCcceeEEeec
Q psy6316         178 ESSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      ....+++++++||++|+|+++.++.
T Consensus       148 ~~~~~~~~~e~SA~~g~gv~e~~~~  172 (182)
T d1moza_         148 LKDRSWSIVASSAIKGEGITEGLDW  172 (182)
T ss_dssp             CCSSCEEEEEEBGGGTBTHHHHHHH
T ss_pred             HhhCCCEEEEEECCCCCCHHHHHHH
Confidence            3344678889999999999875443

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.86  E-value=2.5e-22  Score=160.44  Aligned_cols=118  Identities=24%  Similarity=0.333  Sum_probs=78.6

Q ss_pred             CCCCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCC-------CHHHHHHHHHHHhCCCC-EEEEEecccccCc-c
Q psy6316          92 EIPGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGL-------EPQTIESINILKSKKTP-FVVALNKIDRLYN-W  162 (259)
Q Consensus        92 ~~~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~-------~~~~~~~l~~~~~~~~p-iivv~NK~D~~~~-~  162 (259)
                      ...++.|+|||||.+|...+...+..+|++++|+|+.++.       ..+..+++..+...++| +++++||+|+... +
T Consensus       100 ~~~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~~i~~iiv~iNKmD~~~~~~  179 (245)
T d1r5ba3         100 EHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQW  179 (245)
T ss_dssp             SSEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTTCSS
T ss_pred             ccceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHcCCCeEEEEEEcCCCCccch
Confidence            3345999999999999999999999999999999998864       34788899999999886 7799999999743 2


Q ss_pred             cccchhhHHHHHhhhhccc-------cccccccccccCcceeEEeecCCCCCCccc
Q psy6316         163 NTMNRRDVRDIIKSQESSV-------QTHKTVESARKGQEICIKIEPIPGEAPKMF  211 (259)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~-------~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~  211 (259)
                      .+...+++.+.+......+       .++++|+||++|+|+.+++...  ..+|+.
T Consensus       180 ~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~s~--~~~wy~  233 (245)
T d1r5ba3         180 SEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVDSS--VCPWYQ  233 (245)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCCTT--TCSSCC
T ss_pred             hHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchhcc--CCCCCC
Confidence            3333444555555443322       3568999999999998876553  345554

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.86  E-value=1e-22  Score=156.30  Aligned_cols=151  Identities=22%  Similarity=0.192  Sum_probs=103.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|||||||+++|++.++...+.++++..............                     ..+.+|||||+.
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~---------------------~~~~~~d~~g~~   62 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRL---------------------VTMQIWDTAGQE   62 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCE---------------------EEEEEEEECSSG
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCce---------------------EEEEeeecCCcc
Confidence            49999999999999999999988766655554433322222111100                     028999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh-------CCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS-------KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~-------~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      .+...+..++..+|++++|+|.++..+.... .++..+..       .++|+++|+||+|+...      +........+
T Consensus        63 ~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~------~~~~~~~~~~  136 (184)
T d1vg8a_          63 RFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENR------QVATKRAQAW  136 (184)
T ss_dssp             GGSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCC------CSCHHHHHHH
T ss_pred             cccccccccccCccEEEEeecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeeccccc------chhHHHHHHH
Confidence            8888888899999999999999774443332 23333322       35799999999998632      1112222222


Q ss_pred             -hccccccccccccccCcceeEEeecC
Q psy6316         178 -ESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       178 -~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                       ......+++++||++|.|+++++..+
T Consensus       137 ~~~~~~~~~~e~Sak~~~gI~e~f~~l  163 (184)
T d1vg8a_         137 CYSKNNIPYFETSAKEAINVEQAFQTI  163 (184)
T ss_dssp             HHHTTSCCEEECBTTTTBSHHHHHHHH
T ss_pred             HHHhcCCeEEEEcCCCCcCHHHHHHHH
Confidence             23346788899999999998865433

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.85  E-value=2.2e-22  Score=151.69  Aligned_cols=151  Identities=17%  Similarity=0.168  Sum_probs=101.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|||||||+++++..++...+..+.+..............                     ..+.+||++|
T Consensus         2 ~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------------~~~~~~~~~~   60 (165)
T d1z06a1           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGER---------------------IKIQLWDTAG   60 (165)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEE---------------------EEEEEEECCC
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccc---------------------eEEEEEeccC
Confidence            4569999999999999999999888766554444333322221111110                     0289999999


Q ss_pred             CcchHH-HHHhhccCCCeEEEEEeCCCCCCHHHH-HHHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         104 HESFSN-LRNRGSSLCDIAILVVDIMHGLEPQTI-ESINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       104 ~~~~~~-~~~~~~~~ad~~i~v~d~~~~~~~~~~-~~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      ...+.. .+..+++.+|++++|+|+++..+.... .++..+.+    .+.|+++|+||+|+... ...    ..+..+.+
T Consensus        61 ~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~-~~v----~~~~~~~~  135 (165)
T d1z06a1          61 QERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSA-IQV----PTDLAQKF  135 (165)
T ss_dssp             SHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGG-CCS----CHHHHHHH
T ss_pred             chhhccccceeeecCCCceEEEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhc-cch----hHHHHHHH
Confidence            776654 356678999999999999886555544 34444433    46899999999998642 111    22334455


Q ss_pred             hccccccccccccccCc---ceeEEe
Q psy6316         178 ESSVQTHKTVESARKGQ---EICIKI  200 (259)
Q Consensus       178 ~~~~~~~~i~~Sa~~g~---gv~~~l  200 (259)
                      ...++++++++||++|.   |+++++
T Consensus       136 ~~~~~~~~~e~SAkt~~~~~~V~e~F  161 (165)
T d1z06a1         136 ADTHSMPLFETSAKNPNDNDHVEAIF  161 (165)
T ss_dssp             HHHTTCCEEECCSSSGGGGSCHHHHH
T ss_pred             HHHCCCEEEEEecccCCcCcCHHHHH
Confidence            56667888999999755   554443

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=4e-22  Score=152.89  Aligned_cols=156  Identities=17%  Similarity=0.159  Sum_probs=103.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|+|||||+++|++..+...+.+++....... .....     ...                .+.+||++|++
T Consensus         7 KivviG~~~vGKTsli~~~~~~~f~~~~~~ti~~~~~~~-~~~~~-----~~~----------------~~~~~d~~g~~   64 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSAN-VMVDG-----KPV----------------NLGLWDTAGQE   64 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEEEEE-EEETT-----EEE----------------EEEEECCCCSG
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCcccccceeeceeee-eeccC-----cce----------------EEEeecccccc
Confidence            499999999999999999999887766555544222211 11110     111                28999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH--HHHHHHh--CCCCEEEEEecccccCccccc-------chhhHHHHH
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE--SINILKS--KKTPFVVALNKIDRLYNWNTM-------NRRDVRDII  174 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~--~l~~~~~--~~~piivv~NK~D~~~~~~~~-------~~~~~~~~~  174 (259)
                      .+...+..+++.+|++++|+|+++..+.....  +...++.  .+.|+++|+||+|+.......       .........
T Consensus        65 ~~~~~~~~~~~~~~~~ilv~d~~~~~sf~~i~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~  144 (183)
T d1mh1a_          65 DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQG  144 (183)
T ss_dssp             GGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHH
T ss_pred             cchhhhhhcccccceeeeeeccchHHHHHHHHHHHHHHHHHhCCCCcEEEEeecccchhhhhhhhhhhhccccchhhHHH
Confidence            99999999999999999999998765555433  3333332  368999999999986421000       000001111


Q ss_pred             hhhhccc-cccccccccccCcceeEEeecC
Q psy6316         175 KSQESSV-QTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       175 ~~~~~~~-~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+.... .+.++++||++|.|++++|..+
T Consensus       145 ~~~a~~~~~~~~~E~SAk~~~~V~e~F~~l  174 (183)
T d1mh1a_         145 LAMAKEIGAVKYLECSALTQRGLKTVFDEA  174 (183)
T ss_dssp             HHHHHHTTCSEEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHHHcCCceEEEcCCCCCcCHHHHHHHH
Confidence            1222222 3678899999999998865544

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=99.84  E-value=4.1e-21  Score=151.72  Aligned_cols=106  Identities=31%  Similarity=0.350  Sum_probs=80.4

Q ss_pred             CCeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCC-------CHHHHHHHHHHHhCCC-CEEEEEecccccCc-ccc
Q psy6316          94 PGLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGL-------EPQTIESINILKSKKT-PFVVALNKIDRLYN-WNT  164 (259)
Q Consensus        94 ~~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~-------~~~~~~~l~~~~~~~~-piivv~NK~D~~~~-~~~  164 (259)
                      ..++|+|||||.+|...+...++.+|++|+|+|+.++.       ..+..+++..+...+. ++|+++||+|+... +..
T Consensus        81 ~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~~~~~iIv~iNK~D~~~~~~~~  160 (224)
T d1jnya3          81 YFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPYDE  160 (224)
T ss_dssp             CEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSSTTCH
T ss_pred             ceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHhCCCceEEEEEcccCCCccccH
Confidence            34999999999999999999999999999999999873       4567778888877776 48889999998753 222


Q ss_pred             cchhhHHHHHhhhhccc-----cccccccccccCcceeEE
Q psy6316         165 MNRRDVRDIIKSQESSV-----QTHKTVESARKGQEICIK  199 (259)
Q Consensus       165 ~~~~~~~~~~~~~~~~~-----~~~~i~~Sa~~g~gv~~~  199 (259)
                      ...+.+...+..+....     ..+++++||..|.|+...
T Consensus       161 ~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~~~  200 (224)
T d1jnya3         161 KRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHK  200 (224)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBC
T ss_pred             HHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCcccc
Confidence            22344444444443322     356689999999999763

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=99.84  E-value=5.3e-21  Score=142.79  Aligned_cols=149  Identities=15%  Similarity=0.068  Sum_probs=101.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|||||||+++|++.++.........     .     .....                .....+.+||+||..
T Consensus         2 kivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~-----~-----~~~~~----------------~~~~~~~~~d~~g~~   55 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKLGEIVTTIPTIGF-----N-----VETVE----------------YKNISFTVWDVGGQD   55 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSC-----C-----EEEEE----------------CSSCEEEEEECCCCG
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCccccceee-----E-----EEEEe----------------eeeEEEEEecCCCcc
Confidence            399999999999999999998776432211110     0     00000                111129999999999


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH----hCCCCEEEEEecccccCcccccchhhHHHH-Hhhhhc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDI-IKSQES  179 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~-~~~~~~  179 (259)
                      .+...+..++..++++++++|.++..+..... ++..+.    ....|+++++||+|+....   ...++... ......
T Consensus        56 ~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~---~~~~i~~~~~~~~~~  132 (160)
T d1r8sa_          56 KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM---NAAEITDKLGLHSLR  132 (160)
T ss_dssp             GGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC---CHHHHHHHTTGGGCS
T ss_pred             cchhhhhhhhccceeEEEEEEecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccc---cHHHHHHHHHHHHHh
Confidence            99999999999999999999998765544432 333332    2357899999999987422   22233322 223444


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..++.++++||++|+|++++++++
T Consensus       133 ~~~~~~~~~SAktg~gi~e~~~~l  156 (160)
T d1r8sa_         133 HRNWYIQATCATSGDGLYEGLDWL  156 (160)
T ss_dssp             SCCEEEEECBTTTTBTHHHHHHHH
T ss_pred             hCCCEEEEeECCCCCCHHHHHHHH
Confidence            556788899999999999876554

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.83  E-value=4.4e-21  Score=154.57  Aligned_cols=145  Identities=22%  Similarity=0.255  Sum_probs=94.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      .+||+++|+.|+|||||+.+|+...-.....+.+..  +.+..+... .+...++.. . ....+..++...++|+||||
T Consensus         6 iRni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~--~~~~~D~~~-~E~~r~~si-~-~~~~~~~~~~~~~n~iDtPG   80 (276)
T d2bv3a2           6 LRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHE--GAATMDFME-QERERGITI-T-AAVTTCFWKDHRINIIDAPG   80 (276)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHHTSSCC----------------------CCCCC-C-CSEEEEEETTEEEEEECCCS
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcCccccccceec--CceEEeccH-HHHhcCCcc-c-cceeeeccCCeEEEEecCCc
Confidence            348999999999999999999633211111111110  111111000 000000000 0 00011234444599999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      |.+|.......++.+|++|+|+|+.++...++...|+++.+.++|.++++||+|....    ...+..+.++..
T Consensus        81 ~~dF~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w~~a~~~~lP~i~fINKmDr~~a----d~~~~l~ei~~~  150 (276)
T d2bv3a2          81 HVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDKTGA----DLWLVIRTMQER  150 (276)
T ss_dssp             SSSCSTTHHHHHHHCCEEEEEEETTTSSCHHHHHHHHHHHTTTCCEEEEEECTTSTTC----CHHHHHHHHHHT
T ss_pred             hhhhHHHHHHHHHhhhheEEeccccCCcchhHHHHHHHHHHcCCCEEEEEeccccccc----ccchhHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999754    334444444443

>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=99.83  E-value=1.8e-21  Score=145.76  Aligned_cols=146  Identities=20%  Similarity=0.264  Sum_probs=94.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|||||||+|+|++.+...      ......++.........                .....+.+|||||..
T Consensus         2 kI~liG~~n~GKSSLin~l~g~~~~~------~~~~~~~~~~~~~~~~~----------------~~~~~~~~~Dt~G~~   59 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNEDRAI------VTDIPGTTRDVISEEIV----------------IRGILFRIVDTAGVR   59 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHHTBCC------CCCSSCCSSCSCCEEEE----------------ETTEEEEEEESSCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcee------eeccccccccceeEEEE----------------eCCeeEEeccccccc
Confidence            49999999999999999999876431      11111111111111101                011128999999932


Q ss_pred             --------ch-HHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhh
Q psy6316         106 --------SF-SNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS  176 (259)
Q Consensus       106 --------~~-~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~  176 (259)
                              .+ .......+..+|++++|+|++++...++......+  ...++++++||+|+....   ..+++..   .
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~ad~ii~v~d~~~~~~~~~~~~~~~~--~~~~~i~~~~k~d~~~~~---~~~~~~~---~  131 (160)
T d1xzpa2          60 SETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKILERI--KNKRYLVVINKVDVVEKI---NEEEIKN---K  131 (160)
T ss_dssp             SSCCTTCCCCCHHHHHHHHHHCSEEEEEEETTSCCCHHHHHHHHHH--TTSSEEEEEEECSSCCCC---CHHHHHH---H
T ss_pred             cCCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCcchhhhhhhhhc--ccccceeeeeeccccchh---hhHHHHH---H
Confidence                    11 13344557889999999999998887776655543  457899999999998432   2222222   2


Q ss_pred             hhccccccccccccccCcceeEEeecC
Q psy6316         177 QESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       177 ~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      +.  ...+++++||++|.|++++++.+
T Consensus       132 ~~--~~~~~~~vSA~~g~gi~~L~~~I  156 (160)
T d1xzpa2         132 LG--TDRHMVKISALKGEGLEKLEESI  156 (160)
T ss_dssp             HT--CSTTEEEEEGGGTCCHHHHHHHH
T ss_pred             hC--CCCcEEEEECCCCCCHHHHHHHH
Confidence            22  24578899999999998865543

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=9.3e-22  Score=149.33  Aligned_cols=150  Identities=12%  Similarity=0.114  Sum_probs=95.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCC-CcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEA-GGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      .+|+++|.+|+|||||++++++........ .+.+.+........+.     ...                .+.+||+||
T Consensus         4 ~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-----~~~----------------~~~~~d~~~   62 (172)
T d2g3ya1           4 YRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDG-----ESA----------------TIILLDMWE   62 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETT-----EEE----------------EEEEECCTT
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCC-----cee----------------eeeeecccc
Confidence            459999999999999999998776532221 1111111111111100     000                178888776


Q ss_pred             ---CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHHh----CCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316         104 ---HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILKS----KKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus       104 ---~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                         ++++  ++..+++.+|++|+|+|+++..+..... ++..+..    .+.|+++|+||+|+... ....    .+..+
T Consensus        63 ~~g~e~~--~~~~~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~-~~v~----~~~~~  135 (172)
T d2g3ya1          63 NKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRC-REVS----VSEGR  135 (172)
T ss_dssp             TTHHHHH--HHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGG-CCSC----HHHHH
T ss_pred             ccccccc--cccccccccceeeeeecccccchhhhhhhhhhhhhhccccCCceEEEEecccccccc-cccc----HHHHH
Confidence               4433  4566789999999999998865554433 3343433    36899999999998642 1112    22234


Q ss_pred             hhhccccccccccccccCcceeEEeec
Q psy6316         176 SQESSVQTHKTVESARKGQEICIKIEP  202 (259)
Q Consensus       176 ~~~~~~~~~~i~~Sa~~g~gv~~~l~~  202 (259)
                      .+...++++++++||++|.|+++++..
T Consensus       136 ~~a~~~~~~~~e~Sak~g~~i~~~f~~  162 (172)
T d2g3ya1         136 ACAVVFDCKFIETSAAVQHNVKELFEG  162 (172)
T ss_dssp             HHHHHHTCEEEECBTTTTBSHHHHHHH
T ss_pred             HHHHHcCCeEEEEeCCCCcCHHHHHHH
Confidence            455556788899999999999885543

>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=99.83  E-value=1.2e-21  Score=146.85  Aligned_cols=144  Identities=21%  Similarity=0.151  Sum_probs=91.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|.+|||||||+|+|++.+.....      ....++......     ...           .....+.++|+||..
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~~~~~~~------~~~~~~~~~~~~-----~~~-----------~~~~~~~~~d~~g~~   60 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGREAAIVT------DIAGTTRDVLRE-----HIH-----------IDGMPLHIIDTAGLR   60 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSCCSCCC------SSTTCCCSCEEE-----EEE-----------ETTEEEEEEECCCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceEee------cccccccceEee-----eee-----------ccCceeeeccccccc
Confidence            4999999999999999999987653111      111111111000     000           111129999999943


Q ss_pred             chH--------HHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHh---CCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316         106 SFS--------NLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKS---KKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus       106 ~~~--------~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~---~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      +..        .....++..+|++++++|+.+.........+.....   .++|+++|+||+|+.....           
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~iilv~NK~Dl~~~~~-----------  129 (161)
T d2gj8a1          61 EASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADITGETL-----------  129 (161)
T ss_dssp             CCSSHHHHHHHHHHHHHHHTCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECHHHHCCCC-----------
T ss_pred             cccccchhHHHHHHHHHHHhccccceeeccccccchhhhhhhhhhhhhcccccceeeccchhhhhhhHH-----------
Confidence            321        223345689999999999988766655555443332   3689999999999874321           


Q ss_pred             hhhhccccccccccccccCcceeEEeecC
Q psy6316         175 KSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       175 ~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                       ........+++++||++|.|+++++.++
T Consensus       130 -~~~~~~~~~~~~iSAk~~~gi~~L~~~l  157 (161)
T d2gj8a1         130 -GMSEVNGHALIRLSARTGEGVDVLRNHL  157 (161)
T ss_dssp             -EEEEETTEEEEECCTTTCTTHHHHHHHH
T ss_pred             -HHHHhCCCcEEEEECCCCCCHHHHHHHH
Confidence             1112335688899999999998765443

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.83  E-value=4.2e-21  Score=146.60  Aligned_cols=155  Identities=16%  Similarity=0.152  Sum_probs=102.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||+++++...+...+.+++......... ..     ...+                .+.+||++|+
T Consensus         3 ~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~~~~~~-~~-----~~~~----------------~~~i~D~~g~   60 (179)
T d1m7ba_           3 CKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFE-ID-----TQRI----------------ELSLWDTSGS   60 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEE-CS-----SCEE----------------EEEEEEECCS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeeccccccc-cc-----ceEE----------------eecccccccc
Confidence            359999999999999999999998876665554433221111 10     0111                2889999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HH-HHHHh--CCCCEEEEEecccccCcccc-------cchhhHHHH
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SI-NILKS--KKTPFVVALNKIDRLYNWNT-------MNRRDVRDI  173 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l-~~~~~--~~~piivv~NK~D~~~~~~~-------~~~~~~~~~  173 (259)
                      +.+...+..+++.+|++++|+|+++..+..... ++ ..+..  .+.|+++|+||+|+......       ....-..+.
T Consensus        61 ~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e  140 (179)
T d1m7ba_          61 PYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQ  140 (179)
T ss_dssp             GGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHH
T ss_pred             ccccccccchhhhhhhhheeeecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccccchhhHHHhhhhcCcchHHH
Confidence            999888889999999999999998866555433 22 32322  47899999999998642100       000011112


Q ss_pred             Hhhhhcccc-ccccccccccCc-ceeEEee
Q psy6316         174 IKSQESSVQ-THKTVESARKGQ-EICIKIE  201 (259)
Q Consensus       174 ~~~~~~~~~-~~~i~~Sa~~g~-gv~~~l~  201 (259)
                      ...+....+ ..++++||++|. |++++++
T Consensus       141 ~~~~a~~~~~~~y~E~SAk~~~n~i~~~F~  170 (179)
T d1m7ba_         141 GANMAKQIGAATYIECSALQSENSVRDIFH  170 (179)
T ss_dssp             HHHHHHHHTCSEEEECBTTTBHHHHHHHHH
T ss_pred             HHHHHHHhCCCeEEEEeCCCCCcCHHHHHH
Confidence            223333333 467889999998 5766443

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=99.82  E-value=6.4e-20  Score=147.39  Aligned_cols=130  Identities=18%  Similarity=0.262  Sum_probs=88.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      +||+++|+.++|||||+.+|+...-.....+.+..  +.+..+... .+...++. +.. ...+..+....++|+|||||
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~--g~~~~D~~~-~E~~r~~t-i~~-~~~~~~~~~~~~n~iDtPGh   77 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEE--GTTTTDYTP-EAKLHRTT-VRT-GVAPLLFRGHRVFLLDAPGY   77 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGG--TCCSSCCSH-HHHHTTSC-CSC-EEEEEEETTEEEEEEECCCS
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHcCCchhhccchh--ccccccchH-HHHHhCCe-EEe-ecccccccccceeEEccCch
Confidence            58999999999999999999633211111111111  111111000 00000000 000 00011233334999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEeccccc
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      .+|.......++.+|++|+|+|+.++...++.+.++.+.+.++|.++++||+|..
T Consensus        78 ~dF~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~~~~~~~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          78 GDFVGEIRGALEAADAALVAVSAEAGVQVGTERAWTVAERLGLPRMVVVTKLDKG  132 (267)
T ss_dssp             GGGHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEECGGGC
T ss_pred             hhhhhhhhhhhcccCceEEEeeccCCccchhHHHHHhhhhccccccccccccccc
Confidence            9999999999999999999999999999999999999999999999999999974

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=1.7e-20  Score=142.66  Aligned_cols=146  Identities=14%  Similarity=0.054  Sum_probs=93.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|+|||||++++++..+..... +....+. .....+     ...+                .+.+|||+|+
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~~f~~~~~-t~~~~~~-~~i~v~-----~~~~----------------~l~i~Dt~g~   62 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTGSYQVLEK-TESEQYK-KEMLVD-----GQTH----------------LVLIREEAGA   62 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHSCCCCCCC-SSCEEEE-EEEEET-----TEEE----------------EEEEEECSSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCCCCcCC-ccceeEE-EEeecC-----ceEE----------------EEEEeecccc
Confidence            349999999999999999999988754322 2221111 001111     0111                2899999998


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH------hCCCCEEEEEecccccCcccccchhhHHHHHhhh
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK------SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ  177 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~------~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~  177 (259)
                      ..+.     +++.+|++|+|+|+++..+..... +...+.      ..+.|+++|+||.|+......   .......+.+
T Consensus        63 ~~~~-----~~~~ad~~ilVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~---~v~~~~~~~~  134 (175)
T d2bmja1          63 PDAK-----FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPR---VVGDARARAL  134 (175)
T ss_dssp             CCHH-----HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCC---CSCHHHHHHH
T ss_pred             cccc-----cccccceeEEEeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhc---chhHHHHHHH
Confidence            8653     578899999999999866555543 333332      234689999999887532211   1111222333


Q ss_pred             -hccccccccccccccCcceeEEee
Q psy6316         178 -ESSVQTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       178 -~~~~~~~~i~~Sa~~g~gv~~~l~  201 (259)
                       ....++.++++||++|.|+++++.
T Consensus       135 ~~~~~~~~~~e~SAk~~~~v~~~F~  159 (175)
T d2bmja1         135 CADMKRCSYYETCATYGLNVDRVFQ  159 (175)
T ss_dssp             HHTSTTEEEEEEBTTTTBTHHHHHH
T ss_pred             HHHhCCCeEEEeCCCCCcCHHHHHH
Confidence             233457888999999999987443

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=99.81  E-value=8.2e-21  Score=145.62  Aligned_cols=149  Identities=16%  Similarity=0.102  Sum_probs=87.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      .|+++|++|||||||+|+|++.+.....      ..+.+...      ........+          ...+++|||||+.
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~~------~~~~T~~~------~~~~~~~~~----------~~~~~~~DtpG~~   60 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIAD------YHFTTLVP------NLGMVETDD----------GRSFVMADLPGLI   60 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESS------TTSSCCCC------CEEEEECSS----------SCEEEEEEHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCceec------CCCceEee------eeceeEecC----------CcEEEEecCCCcc
Confidence            5999999999999999999877643111      11111111      111111001          1138999999942


Q ss_pred             c-------hHHHHHhhccCCCeEEEEEeCCCCC--CHHHHHHH----HHHHh---CCCCEEEEEecccccCcccccchhh
Q psy6316         106 S-------FSNLRNRGSSLCDIAILVVDIMHGL--EPQTIESI----NILKS---KKTPFVVALNKIDRLYNWNTMNRRD  169 (259)
Q Consensus       106 ~-------~~~~~~~~~~~ad~~i~v~d~~~~~--~~~~~~~l----~~~~~---~~~piivv~NK~D~~~~~~~~~~~~  169 (259)
                      .       ........+..++.++++++.....  ...+....    .....   .++|+++|+||+|+...      .+
T Consensus        61 ~~~~~~~~~~~~~l~~~~~~~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~------~~  134 (185)
T d1lnza2          61 EGAHQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEA------AE  134 (185)
T ss_dssp             HHTTCTTTTHHHHHHHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTH------HH
T ss_pred             cCchHHHHHHHHHHHHHHHhhhhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhH------HH
Confidence            1       2223344557789999999876432  22222111    11111   35799999999999742      22


Q ss_pred             HHHHHhhhhccccccccccccccCcceeEEeecC
Q psy6316         170 VRDIIKSQESSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       170 ~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+.+.+.. ..+.+++++||++|.|+++++..+
T Consensus       135 ~~~~~~~~~-~~~~~v~~iSA~~g~Gi~~L~~~i  167 (185)
T d1lnza2         135 NLEAFKEKL-TDDYPVFPISAVTREGLRELLFEV  167 (185)
T ss_dssp             HHHHHHHHC-CSCCCBCCCSSCCSSTTHHHHHHH
T ss_pred             HHHHHHHHh-ccCCcEEEEECCCCCCHHHHHHHH
Confidence            222222222 125688999999999998866555

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=99.79  E-value=1.2e-19  Score=137.85  Aligned_cols=149  Identities=21%  Similarity=0.248  Sum_probs=95.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+|+|.+|||||||+++|.+.++...     ....+.....          ..           .....+.+||++|++
T Consensus        17 kI~vvG~~~~GKSsLi~rl~~~~~~~~-----~~~~~~~~~~----------~~-----------~~~~~~~~~d~~~~~   70 (177)
T d1zj6a1          17 KVIIVGLDNAGKTTILYQFSMNEVVHT-----SPTIGSNVEE----------IV-----------INNTRFLMWDIGGQE   70 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTTSCEEE-----ECCSCSSCEE----------EE-----------ETTEEEEEEECCC--
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCcc-----ccccceeEEE----------Ee-----------ecceEEEEecccccc
Confidence            499999999999999999988765311     0000100000          00           001129999999988


Q ss_pred             chHHHHHhhccCCCeEEEEEeCCCCCCHHHHHH-HHHH----HhCCCCEEEEEecccccCcccccchhhHHHHHhh-hhc
Q psy6316         106 SFSNLRNRGSSLCDIAILVVDIMHGLEPQTIES-INIL----KSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKS-QES  179 (259)
Q Consensus       106 ~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~-l~~~----~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~-~~~  179 (259)
                      .....+...+..++++++++|.++..+...... ....    ...+.|+++|+||+|+....   ...++...+.. ...
T Consensus        71 ~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~---~~~~i~~~~~~~~~~  147 (177)
T d1zj6a1          71 SLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECM---TVAEISQFLKLTSIK  147 (177)
T ss_dssp             --CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCC---CHHHHHHHHTGGGCC
T ss_pred             ccccchhhhhccceeeeeecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccC---cHHHHHHHHHHHhhH
Confidence            888888888999999999999988766544322 2222    22468999999999986432   22333333322 223


Q ss_pred             cccccccccccccCcceeEEeecC
Q psy6316         180 SVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       180 ~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ..+++++++||++|+|+++.++++
T Consensus       148 ~~~~~~~~~Sa~tg~Gi~e~~~~L  171 (177)
T d1zj6a1         148 DHQWHIQACCALTGEGLCQGLEWM  171 (177)
T ss_dssp             SSCEEEEECBTTTTBTHHHHHHHH
T ss_pred             hcCCEEEEEeCCCCCCHHHHHHHH
Confidence            346778899999999998865544

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.78  E-value=2.9e-19  Score=133.50  Aligned_cols=151  Identities=17%  Similarity=0.149  Sum_probs=101.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      ++|+++|++|||||||+|+|.+.++..     ...+.+.+....                     .+....+.+||++|.
T Consensus         1 ~KI~liG~~nvGKSSLln~l~~~~~~~-----~~~t~~~~~~~~---------------------~~~~~~~~~~~~~~~   54 (166)
T d2qtvb1           1 GKLLFLGLDNAGKTTLLHMLKNDRLAT-----LQPTWHPTSEEL---------------------AIGNIKFTTFDLGGH   54 (166)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCCCC-----CCCCCSCEEEEE---------------------CCTTCCEEEEECCCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCe-----eeceeeEeEEEe---------------------ccCCeeEEEEeeccc
Confidence            369999999999999999999887642     111111111110                     111223999999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhhh--
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQ--  177 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~--  177 (259)
                      ..+...+..++..++++++++|.++........ ++....    ..+.|+++++||.|+....   ...++.+.+...  
T Consensus        55 ~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~---~~~~i~~~~~~~~~  131 (166)
T d2qtvb1          55 IQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAV---SEAELRSALGLLNT  131 (166)
T ss_dssp             GGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCC---CHHHHHHHHTCSSC
T ss_pred             hhhhhhHhhhhhheeeeeeeccccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccccC---CHHHHHHHhhhhhh
Confidence            989888999999999999999998754443322 222222    2468899999999987421   233343333221  


Q ss_pred             ------hccccccccccccccCcceeEEeecCC
Q psy6316         178 ------ESSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       178 ------~~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                            .....+.++++||++|+|+++.++.+.
T Consensus       132 ~~~~~~~~~~~~~~~~~SA~tg~Gv~e~~~~l~  164 (166)
T d2qtvb1         132 TGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLS  164 (166)
T ss_dssp             CC---CCSSCCEEEEEEBTTTTBSHHHHHHHHT
T ss_pred             hHHHhhcccCCCEEEEeeCCCCCCHHHHHHHHh
Confidence                  112245678999999999998776553

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.78  E-value=4.4e-19  Score=138.21  Aligned_cols=188  Identities=13%  Similarity=0.145  Sum_probs=93.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      |+|+++|++|||||||+|+|++.++..+           ++........                ......+.+|||||+
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~~~~~~-----------tt~~~~~~~~----------------~~~~~~~~l~D~~g~   56 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTDSVRPT-----------VVSQEPLSAA----------------DYDGSGVTLVDFPGH   56 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSSCCCB-----------CCCSSCEEET----------------TGGGSSCEEEECCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCe-----------EEecceEEEE----------------EeCCeEEEEEecccc
Confidence            6799999999999999999998765321           1111000000                111223999999998


Q ss_pred             cchHHHHHh----hccCCCeEEEEEeCCCCCC--HHHHHH-------HHHHHhCCCCEEEEEecccccCcccccc-hhhH
Q psy6316         105 ESFSNLRNR----GSSLCDIAILVVDIMHGLE--PQTIES-------INILKSKKTPFVVALNKIDRLYNWNTMN-RRDV  170 (259)
Q Consensus       105 ~~~~~~~~~----~~~~ad~~i~v~d~~~~~~--~~~~~~-------l~~~~~~~~piivv~NK~D~~~~~~~~~-~~~~  170 (259)
                      ..+...+..    ....++.+++++|+.....  .....+       +......+.|+++|+||+|+........ .+.+
T Consensus        57 ~~~~~~~~~~~~~~~~~~~~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~l  136 (209)
T d1nrjb_          57 VKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDAL  136 (209)
T ss_dssp             GGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHH
T ss_pred             cchhhHHHHHHHHHhhhccccceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeecccccCcHHHHHHHH
Confidence            876555444    4567799999999875322  222222       2333446799999999999975332111 1111


Q ss_pred             HHHHhhhhccc--cccccccccccCcceeEEeecCCCCCCcccccCCcchhhHHHHhhhhhHHHHHHHHHh
Q psy6316         171 RDIIKSQESSV--QTHKTVESARKGQEICIKIEPIPGEAPKMFGRHFDENDFLVSKISRQSIDACKDYFRD  239 (259)
Q Consensus       171 ~~~~~~~~~~~--~~~~i~~Sa~~g~gv~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~  239 (259)
                      ...+.......  .......++....++...+..+.......+........+....+.+..++.+++|+..
T Consensus       137 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~i~e  207 (209)
T d1nrjb_         137 ESEIQKVIERRKKSLNEVERKINEEDYAENTLDVLQSTDGFKFANLEASVVAFEGSINKRKISQWREWIDE  207 (209)
T ss_dssp             HHHHHHHHHHHHHHHHC--------------CTTC----CCCGGGSSSCEEEEECBTTTTBCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCceeeeccchhhhHHHHHHhhccccccchhhCcCCceEEEEeeccccHHHHHHHHHH
Confidence            11222222211  2233445566666665554443333322222222222233333445667777777654

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.78  E-value=1.7e-19  Score=137.25  Aligned_cols=155  Identities=19%  Similarity=0.260  Sum_probs=97.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      .+.|+|+|.+|||||||+|+|++.+...      ......++.....      ....          .....+..+|+||
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~~~~~------~~~~~~t~~~~~~------~~~~----------~~~~~~~~~~~~~   62 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQKISI------TSRKAQTTRHRIV------GIHT----------EGAYQAIYVDTPG   62 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTCSEEE------CCCCSSCCSSCEE------EEEE----------ETTEEEEEESSSS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCcee------eccCCCceEEEEE------eeee----------cCCceeEeecCCC
Confidence            4679999999999999999999876431      1111111111110      0000          0011277889998


Q ss_pred             CcchHHH-----HH----hhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316         104 HESFSNL-----RN----RGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus       104 ~~~~~~~-----~~----~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      .......     ..    .....+++++++.|... .......+...+.+...|.++++||+|....     ..+.....
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~-~~~~~~~~~~~l~~~~~~~i~v~~k~d~~~~-----~~~~~~~~  136 (179)
T d1egaa1          63 LHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTR-WTPDDEMVLNKLREGKAPVILAVNKVDNVQE-----KADLLPHL  136 (179)
T ss_dssp             CCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEETTC-CCHHHHHHHHHHHSSSSCEEEEEESTTTCCC-----HHHHHHHH
T ss_pred             ceecchhhhhhhhhhccccchhhcceeEEEEecCc-cchhHHHHHHHhhhccCceeeeeeeeeccch-----hhhhhhHh
Confidence            5432211     11    12346788888888754 4455556666777788999999999998753     33344444


Q ss_pred             hhhhcccc-ccccccccccCcceeEEeecCCCC
Q psy6316         175 KSQESSVQ-THKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       175 ~~~~~~~~-~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      +.....++ .+++++||++|+|++++++.+...
T Consensus       137 ~~~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~  169 (179)
T d1egaa1         137 QFLASQMNFLDIVPISAETGLNVDTIAAIVRKH  169 (179)
T ss_dssp             HHHHTTSCCSEEEECCTTTTTTHHHHHHHHHTT
T ss_pred             hhhhhhcCCCCEEEEeCcCCCCHHHHHHHHHHh
Confidence            44444444 477899999999999876666443

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.78  E-value=6.5e-20  Score=152.13  Aligned_cols=81  Identities=27%  Similarity=0.364  Sum_probs=72.6

Q ss_pred             eEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHh
Q psy6316          96 LLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIK  175 (259)
Q Consensus        96 ~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~  175 (259)
                      ++|+|||||.+|......+++.+|++|+|+|+.+|...++.+.++++...++|+++++||+|....+......++...+.
T Consensus        98 inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~~~~~p~i~viNKiDr~~~el~~~~~~~~~~l~  177 (341)
T d1n0ua2          98 INLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPVVVINKVDRALLELQVSKEDLYQTFA  177 (341)
T ss_dssp             EEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHHTTCEEEEEEECHHHHHHTSCCCHHHHHHHHH
T ss_pred             EEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHHHcCCCeEEEEECcccccccHHhhHHHHHHHHc
Confidence            89999999999999999999999999999999999999999999999999999999999999887665555666655554


Q ss_pred             h
Q psy6316         176 S  176 (259)
Q Consensus       176 ~  176 (259)
                      .
T Consensus       178 ~  178 (341)
T d1n0ua2         178 R  178 (341)
T ss_dssp             H
T ss_pred             C
Confidence            3

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=99.75  E-value=1.8e-18  Score=129.80  Aligned_cols=150  Identities=21%  Similarity=0.141  Sum_probs=100.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      .+|+++|.+|||||||++++++..+.....     +.+.......     ...                ..+.+||++|+
T Consensus         6 ~kI~ivG~~~vGKSSLi~~~~~~~~~~~~~-----~~~~~~~~~~-----~~~----------------~~~~~~~~~~~   59 (169)
T d1upta_           6 MRILILGLDGAGKTTILYRLQVGEVVTTIP-----TIGFNVETVT-----YKN----------------LKFQVWDLGGL   59 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSSCCCCCC-----CSSEEEEEEE-----ETT----------------EEEEEEEECCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCcceec-----ccceeeeeec-----cCc----------------eEEEEeecccc
Confidence            349999999999999999999887643211     1111111000     000                12899999999


Q ss_pred             cchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHH----HhCCCCEEEEEecccccCcccccchhhHHHHH-hhhh
Q psy6316         105 ESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINIL----KSKKTPFVVALNKIDRLYNWNTMNRRDVRDII-KSQE  178 (259)
Q Consensus       105 ~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~----~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~-~~~~  178 (259)
                      ..+.......+..++++++++|..+........ .+...    .....|+++++||.|+....   ...++...+ ....
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~---~~~~i~~~~~~~~~  136 (169)
T d1upta_          60 TSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAM---TSSEMANSLGLPAL  136 (169)
T ss_dssp             GGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC---CHHHHHHHHTGGGC
T ss_pred             ccccccchhhhhhhhhhhhhhhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccc---cHHHHHHHHHHHHH
Confidence            998888888999999999999998765554433 22222    22357889999999997432   223333332 2334


Q ss_pred             ccccccccccccccCcceeEEeecC
Q psy6316         179 SSVQTHKTVESARKGQEICIKIEPI  203 (259)
Q Consensus       179 ~~~~~~~i~~Sa~~g~gv~~~l~~i  203 (259)
                      ....++++++||++|+|+++++..+
T Consensus       137 ~~~~~~~~~~SA~~g~gv~e~~~~l  161 (169)
T d1upta_         137 KDRKWQIFKTSATKGTGLDEAMEWL  161 (169)
T ss_dssp             TTSCEEEEECCTTTCTTHHHHHHHH
T ss_pred             hcCCCEEEEEeCCCCCCHHHHHHHH
Confidence            4456788999999999998855443

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=99.74  E-value=1.3e-18  Score=132.89  Aligned_cols=168  Identities=15%  Similarity=0.134  Sum_probs=94.9

Q ss_pred             hhhhhhhhhcCCCCcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCC
Q psy6316           5 FNKRREKIEENPEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGE   84 (259)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (259)
                      |.+++-++++.|+..    .++|+++|.+|||||||+|+|++.+.....     ...+.+.......... ...      
T Consensus         1 ~~~~~~~~~~~p~~~----~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~-----~~~~~~~~~~~~~~~~-~~~------   64 (188)
T d1puia_           1 FVMSAPDIRHLPSDT----GIEVAFAGRSNAGKSSALNTLTNQKSLART-----SKTPGRTQLINLFEVA-DGK------   64 (188)
T ss_dssp             CEEEESSGGGSSCSC----SEEEEEEECTTSSHHHHHTTTCCC------------------CCEEEEEEE-TTE------
T ss_pred             CeeCCCChhHCCCcc----CCEEEEECCCCCCHHHHHHHHhCCCceEee-----cccccceeeccceecc-ccc------
Confidence            455566666776543    567999999999999999999887643211     1111111111100000 000      


Q ss_pred             CCCCCCCCCCCeEEEeCCC------Ccc-----hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEE
Q psy6316          85 VGGPGPLEIPGLLIIDTPG------HES-----FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVAL  153 (259)
Q Consensus        85 ~~~~~~~~~~~~~liDtpG------~~~-----~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~  153 (259)
                                .....++++      ...     ............+.++.+.+...+........+..+.....++++++
T Consensus        65 ----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~  134 (188)
T d1puia_          65 ----------RLVDLPGYGYAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIAVLVLL  134 (188)
T ss_dssp             ----------EEEECCCCC------CCHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCCEEEEE
T ss_pred             ----------ceeeeecccccchhhhhhhhhhhhhhhhhhhhhheeEEEEeecccccchhHHHHHHHHhhhccccccchh
Confidence                      022222222      111     11111222345666777778878888888888899999999999999


Q ss_pred             ecccccCcccccchhhHHHHHhhhhccc--cccccccccccCcceeEEee
Q psy6316         154 NKIDRLYNWNTMNRRDVRDIIKSQESSV--QTHKTVESARKGQEICIKIE  201 (259)
Q Consensus       154 NK~D~~~~~~~~~~~~~~~~~~~~~~~~--~~~~i~~Sa~~g~gv~~~l~  201 (259)
                      ||+|+....   ......+.+++.....  ..+++++||++|.|++++++
T Consensus       135 ~k~D~~~~~---~~~~~~~~~~~~l~~~~~~~~~i~vSA~~g~Gid~L~~  181 (188)
T d1puia_         135 TKADKLASG---ARKAQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQ  181 (188)
T ss_dssp             ECGGGSCHH---HHHHHHHHHHHHHGGGCSCEEEEECBTTTTBSHHHHHH
T ss_pred             hhhhccCHH---HHHHHHHHHHHHHHhhCCCCcEEEEeCCCCCCHHHHHH
Confidence            999998532   1222222233322222  34678999999999987443

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.71  E-value=5e-18  Score=129.30  Aligned_cols=152  Identities=16%  Similarity=0.134  Sum_probs=92.6

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|||||||+++|.+..+....     ...+.+....     .                +.+..+.+||++|
T Consensus        13 ~~kI~lvG~~~vGKTsLl~~l~~~~~~~~~-----~~~~~~~~~~-----~----------------~~~~~~~~~~~~~   66 (186)
T d1f6ba_          13 TGKLVFLGLDNAGKTTLLHMLKDDRLGQHV-----PTLHPTSEEL-----T----------------IAGMTFTTFDLGG   66 (186)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSCC-----------CCCCCSCEEE-----E----------------ETTEEEEEEEECC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCccee-----cccccceeEE-----E----------------ecccccccccccc
Confidence            456999999999999999999887653211     0111111100     0                0011289999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHH-HHHHHH----hCCCCEEEEEecccccCcccccchhhHHHHHhhhh
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIE-SINILK----SKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQE  178 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~-~l~~~~----~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~  178 (259)
                      +..+...+......++++++++|.++........ .+....    ..+.|+++++||.|+....   ...++.+.+....
T Consensus        67 ~~~~~~~~~~~~~~~~~~~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~~---~~~~i~~~~~~~~  143 (186)
T d1f6ba_          67 HIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAI---SEERLREMFGLYG  143 (186)
T ss_dssp             ----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTCC---CHHHHHHHHTCTT
T ss_pred             hhhhhhHHhhhhcccceeeeeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCccccC---CHHHHHHHHhhcc
Confidence            8888888888899999999999988754443322 222222    2468999999999987432   2233333332111


Q ss_pred             -------------ccccccccccccccCcceeEEeecCC
Q psy6316         179 -------------SSVQTHKTVESARKGQEICIKIEPIP  204 (259)
Q Consensus       179 -------------~~~~~~~i~~Sa~~g~gv~~~l~~i~  204 (259)
                                   ...++.++++||++|+|+++.++.+.
T Consensus       144 ~~~~~~~~~~~~~~~~~~~~~~~SA~tg~Gi~e~~~~l~  182 (186)
T d1f6ba_         144 QTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMA  182 (186)
T ss_dssp             TCCCSSCCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHH
T ss_pred             cchhhhhhhHHHhhcCCCEEEEEeCCCCCCHHHHHHHHH
Confidence                         11235678899999999998766543

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.69  E-value=2e-17  Score=140.86  Aligned_cols=115  Identities=19%  Similarity=0.260  Sum_probs=75.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      +.+|+++|.+|+|||||+|+|+|........  .......++....      ....           .....++||||||
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~--~~~g~~~tT~~~~------~~~~-----------~~~~~~~l~DtPG  116 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRGIGNEEEGA--AKTGVVEVTMERH------PYKH-----------PNIPNVVFWDLPG  116 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTCCTTSTTS--CCCCC----CCCE------EEEC-----------SSCTTEEEEECCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCcCCCcc--CCCCCCCCceeee------eeec-----------cCCCeEEEEeCCC
Confidence            4669999999999999999999865432211  1111111111111      1110           1112399999999


Q ss_pred             Ccch-----HHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEeccccc
Q psy6316         104 HESF-----SNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus       104 ~~~~-----~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      ....     .......+..+|+++++.|  ..++..+..++..++..++|+++|+||+|..
T Consensus       117 ~~~~~~~~~~~~~~~~~~~~d~~l~~~~--~~~~~~d~~l~~~l~~~~k~~~~V~nK~D~~  175 (400)
T d1tq4a_         117 IGSTNFPPDTYLEKMKFYEYDFFIIISA--TRFKKNDIDIAKAISMMKKEFYFVRTKVDSD  175 (400)
T ss_dssp             GGGSSCCHHHHHHHTTGGGCSEEEEEES--SCCCHHHHHHHHHHHHTTCEEEEEECCHHHH
T ss_pred             cccccccHHHHHHHhhhhcceEEEEecC--CCCCHHHHHHHHHHHHcCCCEEEEEeCcccc
Confidence            4321     1122234567898888877  4568889999999999999999999999975

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.68  E-value=9.7e-17  Score=124.75  Aligned_cols=113  Identities=27%  Similarity=0.316  Sum_probs=73.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCCc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGHE  105 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~  105 (259)
                      +|+++|++|||||||+|+|++..+.... ++.+...+.....                      ......+.+||+||++
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~~-~t~~~~~~~~~~~----------------------~~~~~~~~~~d~~g~~   58 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDTQ-TSITDSSAIYKVN----------------------NNRGNSLTLIDLPGHE   58 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCBC-CCCSCEEEEEECS----------------------STTCCEEEEEECCCCH
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCccc-CCeeEEEEEEEEe----------------------eeeeeeeeeeeccccc
Confidence            6999999999999999999988764322 1121111111100                      0011129999999998


Q ss_pred             chH-HHHHhhccCCCeEEEEEeCCCCCCH--HHHHHHH-HHH-----hCCCCEEEEEecccccCc
Q psy6316         106 SFS-NLRNRGSSLCDIAILVVDIMHGLEP--QTIESIN-ILK-----SKKTPFVVALNKIDRLYN  161 (259)
Q Consensus       106 ~~~-~~~~~~~~~ad~~i~v~d~~~~~~~--~~~~~l~-~~~-----~~~~piivv~NK~D~~~~  161 (259)
                      .+. ..+..++..+|++++|+|+++....  ...+.+. .+.     ..+.|+++++||+|+...
T Consensus        59 ~~~~~~~~~~~~~~~~~i~v~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a  123 (207)
T d2fh5b1          59 SLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMA  123 (207)
T ss_dssp             HHHHHHHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTC
T ss_pred             cccchhhhhhhhhccccceEEEcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCC
Confidence            875 4567778999999999999763221  1122222 221     235789999999999753

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.68  E-value=3.3e-18  Score=131.51  Aligned_cols=147  Identities=12%  Similarity=0.129  Sum_probs=92.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|..|||||||+++|....+...         +..+..+..     ...                .+.+|||+|
T Consensus         2 e~KivllG~~~vGKTsl~~r~~~~~~~t~---------~~~~~~~~~-----~~~----------------~~~i~D~~G   51 (195)
T d1svsa1           2 EVKLLLLGAGESGKSTIVKQMKIIHEAGT---------GIVETHFTF-----KDL----------------HFKMFDVGG   51 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHSCCC---------SEEEEEEEE-----TTE----------------EEEEEEECC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCCCCCc---------cEEEEEEEe-----eee----------------eeeeecccc
Confidence            34599999999999999999976655311         111111110     111                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCH-----------HHHHHHHH-HH---hCCCCEEEEEecccccCcc------
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEP-----------QTIESINI-LK---SKKTPFVVALNKIDRLYNW------  162 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~-----------~~~~~l~~-~~---~~~~piivv~NK~D~~~~~------  162 (259)
                      ++.+...+..+++.++++++|+|.++..+.           .....+.. +.   ..+.|+++++||+|+....      
T Consensus        52 q~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~~~  131 (195)
T d1svsa1          52 QRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPL  131 (195)
T ss_dssp             SGGGGGGGGGGCTTCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTSCG
T ss_pred             ccccccchhhcccCCceeeeEEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhhhccchHH
Confidence            999999999999999999999998764321           11122222 22   2468999999999974210      


Q ss_pred             --------cccchhh----HHHHHhhhh---ccccccccccccccCcceeEEe
Q psy6316         163 --------NTMNRRD----VRDIIKSQE---SSVQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       163 --------~~~~~~~----~~~~~~~~~---~~~~~~~i~~Sa~~g~gv~~~l  200 (259)
                              ......+    +...+....   ....+.++++||++|.|+++.+
T Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F  184 (195)
T d1svsa1         132 TICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVF  184 (195)
T ss_dssp             GGTCTTCCSCSSHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHH
T ss_pred             HHHhhhhcCcccHHHHHHHHHHHHHHHhcccCCCcceeEEEEeECCHhHHHHH
Confidence                    0001111    111111111   1124556679999999997754

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.65  E-value=1.9e-17  Score=127.82  Aligned_cols=109  Identities=16%  Similarity=0.180  Sum_probs=68.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|||||||++++.   +...+.++++...    ..+..     ..                ..+.+||++|
T Consensus         2 ~iKivllG~~~vGKTsll~r~~---f~~~~~pTiG~~~----~~~~~-----~~----------------~~~~~~D~~g   53 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQMR---IIHGQDPTKGIHE----YDFEI-----KN----------------VPFKMVDVGG   53 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH---HHHSCCCCSSEEE----EEEEE-----TT----------------EEEEEEEECC
T ss_pred             eEEEEEECCCCCCHHHHHHHHh---cCCCCCCeeeeEE----EEEee-----ee----------------eeeeeecccc
Confidence            3469999999999999999993   2223333333211    11111     11                1299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCCH-----------HHHHHHHHHH----hCCCCEEEEEecccccC
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLEP-----------QTIESINILK----SKKTPFVVALNKIDRLY  160 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~-----------~~~~~l~~~~----~~~~piivv~NK~D~~~  160 (259)
                      ++.+...+..+++.++++++++|.++....           .....+..+.    ..+.|+++++||+|+..
T Consensus        54 q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~  125 (200)
T d1zcba2          54 QRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLE  125 (200)
T ss_dssp             -------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHH
T ss_pred             eeeecccccccccccceeEEEEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhh
Confidence            999999999999999999999999875331           1122223222    24789999999999863

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.64  E-value=9.2e-17  Score=123.77  Aligned_cols=150  Identities=15%  Similarity=0.148  Sum_probs=95.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|..|||||||++++....+.  +.++++.    ......                     .....+.+||++|
T Consensus         2 e~Kiv~lG~~~vGKTsll~r~~~~~~~--~~pTiG~----~~~~~~---------------------~~~~~~~~~d~~g   54 (200)
T d2bcjq2           2 ELKLLLLGTGESGKSTFIKQMRIIHGS--GVPTTGI----IEYPFD---------------------LQSVIFRMVDVGG   54 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHTSS--CCCCCSC----EEEEEE---------------------CSSCEEEEEECCC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCC--CCceeeE----EEEEEe---------------------ccceeeeeccccc
Confidence            345999999999999999999877663  2233322    111110                     0111299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCCC-----------HHHHHHH-HHHHh---CCCCEEEEEecccccCcccc----
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGLE-----------PQTIESI-NILKS---KKTPFVVALNKIDRLYNWNT----  164 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~~-----------~~~~~~l-~~~~~---~~~piivv~NK~D~~~~~~~----  164 (259)
                      ++.+...+..+++.++++++++|.++...           ......+ ..+..   .+.|+++++||.|+......    
T Consensus        55 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~~~  134 (200)
T d2bcjq2          55 QRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHL  134 (200)
T ss_dssp             STTGGGGGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTSCH
T ss_pred             cccccccccccccccceeeEeeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhhhcccchHH
Confidence            99999999999999999999999876421           1123333 33332   46899999999998632100    


Q ss_pred             -----------cchhhHHHHHh----hhh--ccccccccccccccCcceeEEe
Q psy6316         165 -----------MNRRDVRDIIK----SQE--SSVQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       165 -----------~~~~~~~~~~~----~~~--~~~~~~~i~~Sa~~g~gv~~~l  200 (259)
                                 .........+.    ...  ....+.++++||++|.|+.+.+
T Consensus       135 ~~~~~~~~~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF  187 (200)
T d2bcjq2         135 VDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVF  187 (200)
T ss_dssp             HHHSTTCCSCSSCHHHHHHHHHHHHHTTCSCTTSCEEEEECCTTCHHHHHHHH
T ss_pred             HHhcccccCCchhHHHHHHHHHHHHHHhcccCCCceEEEEeEEEcCHhHHHHH
Confidence                       00111111111    111  1223556789999999997744

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=99.53  E-value=2e-15  Score=119.77  Aligned_cols=106  Identities=18%  Similarity=0.105  Sum_probs=65.5

Q ss_pred             CeEEEeCCCCcchHHHHHhh-----ccCCCeEEEEEeCCCCCCHHHHHHHHH-----HHhCCCCEEEEEecccccCcccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRG-----SSLCDIAILVVDIMHGLEPQTIESINI-----LKSKKTPFVVALNKIDRLYNWNT  164 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~-----~~~ad~~i~v~d~~~~~~~~~~~~l~~-----~~~~~~piivv~NK~D~~~~~~~  164 (259)
                      .+.++|+||+..+.......     ....+.+++++|+.....++.......     ......|.++++||+|+...+..
T Consensus        96 ~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~~~~~~ivvinK~D~~~~~~~  175 (244)
T d1yrba1          96 DYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSEEEK  175 (244)
T ss_dssp             SEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCHHHH
T ss_pred             ceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHHHhCCCceeeeeccccccHHHH
Confidence            49999999987765443322     134678999999988777766543322     23457899999999999853211


Q ss_pred             cchhhH-------HHHHh--------------hhhc--cccccccccccccCcceeEEe
Q psy6316         165 MNRRDV-------RDIIK--------------SQES--SVQTHKTVESARKGQEICIKI  200 (259)
Q Consensus       165 ~~~~~~-------~~~~~--------------~~~~--~~~~~~i~~Sa~~g~gv~~~l  200 (259)
                      ......       ...+.              ....  ....+++++||++|+|+++++
T Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~  234 (244)
T d1yrba1         176 ERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLE  234 (244)
T ss_dssp             HHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHH
Confidence            110000       00000              0000  124578899999999998744

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=99.50  E-value=1.1e-13  Score=110.62  Aligned_cols=116  Identities=16%  Similarity=0.109  Sum_probs=72.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|.+|+|||||+|.|++.......      ....++.........                .....+.||||||
T Consensus        32 ~l~I~LvG~tg~GKSSliN~ilg~~~~~vs------~~~~~T~~~~~~~~~----------------~~g~~i~viDTPG   89 (257)
T d1h65a_          32 SLTILVMGKGGVGKSSTVNSIIGERVVSIS------PFQSEGPRPVMVSRS----------------RAGFTLNIIDTPG   89 (257)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHTSCCSCCC------SSSCCCSSCEEEEEE----------------ETTEEEEEEECCC
T ss_pred             CcEEEEECCCCCcHHHHHHHHhCCCceeec------CCCCcceeEEEEEEE----------------eccEEEEEEeeec
Confidence            355999999999999999999987754211      111122211111101                1111399999999


Q ss_pred             Ccc-------hHHHHHh--hccCCCeEEEEEeCCC-CCCHHHHHHHHHHHhC-----CCCEEEEEecccccCc
Q psy6316         104 HES-------FSNLRNR--GSSLCDIAILVVDIMH-GLEPQTIESINILKSK-----KTPFVVALNKIDRLYN  161 (259)
Q Consensus       104 ~~~-------~~~~~~~--~~~~ad~~i~v~d~~~-~~~~~~~~~l~~~~~~-----~~piivv~NK~D~~~~  161 (259)
                      ..+       .......  .....|+++||++++. ..+..+...+..+...     -.++++|+||+|....
T Consensus        90 l~~~~~~~~~~~~~i~~~~~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~  162 (257)
T d1h65a_          90 LIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPP  162 (257)
T ss_dssp             SEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCG
T ss_pred             ccCCcchHHHHHHHHHHHHhcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECcccCCc
Confidence            421       1111111  2356799999999865 3677777666665542     3578999999998753

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.50  E-value=4.4e-14  Score=110.65  Aligned_cols=107  Identities=18%  Similarity=0.199  Sum_probs=74.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      ..+|+++|..|||||||++++....+.        .++|.....+.     ...+                .+.+||++|
T Consensus         6 ~~KilllG~~~vGKTsll~~~~~~~~~--------pTiG~~~~~~~-----~~~~----------------~~~~~D~~G   56 (221)
T d1azta2           6 THRLLLLGAGESGKSTIVKQMRILHVV--------LTSGIFETKFQ-----VDKV----------------NFHMFDVGG   56 (221)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHHCC--------CCCSCEEEEEE-----ETTE----------------EEEEEECCC
T ss_pred             cCEEEEECCCCCCHHHHHHHHhcCCcC--------CCCCeEEEEEE-----ECcE----------------EEEEEecCc
Confidence            356999999999999999999755442        12221111110     1111                299999999


Q ss_pred             CcchHHHHHhhccCCCeEEEEEeCCCCC--------CHH---HHHHHHHHHh----CCCCEEEEEeccccc
Q psy6316         104 HESFSNLRNRGSSLCDIAILVVDIMHGL--------EPQ---TIESINILKS----KKTPFVVALNKIDRL  159 (259)
Q Consensus       104 ~~~~~~~~~~~~~~ad~~i~v~d~~~~~--------~~~---~~~~l~~~~~----~~~piivv~NK~D~~  159 (259)
                      +..+...|..+++.++++++|+|.++..        ...   ....+..+..    .++|+++++||+|+.
T Consensus        57 q~~~r~~w~~~~~~~~~ii~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~  127 (221)
T d1azta2          57 QRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLL  127 (221)
T ss_dssp             STTTTTGGGGGCTTCSEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHH
T ss_pred             cceeccchhhhcccccceEEEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhh
Confidence            9999999999999999999999987521        111   1222222222    468999999999997

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.27  E-value=1.5e-11  Score=100.20  Aligned_cols=67  Identities=12%  Similarity=0.192  Sum_probs=46.2

Q ss_pred             CeEEEeCCCCcc-------------hHHHHHhhccCCC-eEEEEEeCCCCCCHHH-HHHHHHHHhCCCCEEEEEeccccc
Q psy6316          95 GLLIIDTPGHES-------------FSNLRNRGSSLCD-IAILVVDIMHGLEPQT-IESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~-------------~~~~~~~~~~~ad-~~i~v~d~~~~~~~~~-~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      .++|+||||...             ...+...++..++ ++++|.+++....... ..+++.+.....++++|+||+|..
T Consensus       126 ~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~~~~~~~~~r~i~Vltk~D~~  205 (299)
T d2akab1         126 NLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQGQRTIGVITKLDLM  205 (299)
T ss_dssp             SEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCTTCSSEEEEEECGGGS
T ss_pred             CeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHHHHhCcCCCceeeEEeccccc
Confidence            499999999321             2244555666666 5556667765555444 456677777778999999999998


Q ss_pred             Cc
Q psy6316         160 YN  161 (259)
Q Consensus       160 ~~  161 (259)
                      ..
T Consensus       206 ~~  207 (299)
T d2akab1         206 DE  207 (299)
T ss_dssp             CT
T ss_pred             cc
Confidence            54

>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=99.23  E-value=2.5e-11  Score=99.21  Aligned_cols=68  Identities=13%  Similarity=0.180  Sum_probs=47.1

Q ss_pred             CCeEEEeCCCCcc-------------hHHHHHhhccCCCeEEEEE-eCCCCC-CHHHHHHHHHHHhCCCCEEEEEecccc
Q psy6316          94 PGLLIIDTPGHES-------------FSNLRNRGSSLCDIAILVV-DIMHGL-EPQTIESINILKSKKTPFVVALNKIDR  158 (259)
Q Consensus        94 ~~~~liDtpG~~~-------------~~~~~~~~~~~ad~~i~v~-d~~~~~-~~~~~~~l~~~~~~~~piivv~NK~D~  158 (259)
                      ..++|+||||...             ...+...+++.++.+++++ ++.... ......+++.+.....++++|+||+|.
T Consensus       131 ~~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~~~~~~~~~~~~~~~~~r~i~Vitk~D~  210 (306)
T d1jwyb_         131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDPEGKRTIGVITKLDL  210 (306)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCSSCSSEEEEEECTTS
T ss_pred             CCceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccccccHHHHHHHHhCcCCCeEEEEEecccc
Confidence            3599999999432             2345666788888755554 555433 334466777777777899999999998


Q ss_pred             cCc
Q psy6316         159 LYN  161 (259)
Q Consensus       159 ~~~  161 (259)
                      ...
T Consensus       211 ~~~  213 (306)
T d1jwyb_         211 MDK  213 (306)
T ss_dssp             SCS
T ss_pred             ccc
Confidence            854

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.23  E-value=1.2e-11  Score=101.87  Aligned_cols=102  Identities=18%  Similarity=0.184  Sum_probs=46.1

Q ss_pred             EEEEeeCCCChhHHHhHHhccccCCCCCC--cceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCCC
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTNVQDGEAG--GITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPGH  104 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~  104 (259)
                      |+++|.||||||||+|+|++.+...+.++  ++....|.+...++............... .+.......++.++|+||.
T Consensus         3 v~lvG~pn~GKStlfn~lt~~~~~v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~i~~~D~pGl   81 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNY-EYRNGLALIPVKMVDVAGL   81 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSS-CEETTEEEEEEEEEECC--
T ss_pred             EeEECCCCCCHHHHHHHHHCCCCchhcCCCCcccCccceeeCCCCchhhhhhhccCcccc-ccccccccccEEEEECCCc
Confidence            99999999999999999998876433322  22222222211111111111101000000 0000011123999999993


Q ss_pred             cc-------hHHHHHhhccCCCeEEEEEeCCC
Q psy6316         105 ES-------FSNLRNRGSSLCDIAILVVDIMH  129 (259)
Q Consensus       105 ~~-------~~~~~~~~~~~ad~~i~v~d~~~  129 (259)
                      ..       ........++.+|++++|+|+..
T Consensus        82 i~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          82 VPGAHEGRGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             -------------CCCSSTTCSEEEEEEETTC
T ss_pred             ccchhcccchHHHHHHhhccceEEEEEecccc
Confidence            22       22223345689999999999863

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=99.21  E-value=4.3e-13  Score=110.39  Aligned_cols=102  Identities=17%  Similarity=0.058  Sum_probs=58.3

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHH--HHHHHHHHhCCCCEEEEEecccccCcccc-cchhhHH
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQT--IESINILKSKKTPFVVALNKIDRLYNWNT-MNRRDVR  171 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~--~~~l~~~~~~~~piivv~NK~D~~~~~~~-~~~~~~~  171 (259)
                      ++.|+.|.|....   -......+|.+++|+++..+...+.  ...+      ..+-++|+||+|....... ....++.
T Consensus       148 d~iliEtvG~gq~---e~~i~~~aD~~l~v~~P~~Gd~iq~~k~gi~------e~aDi~VvNKaD~~~~~~~~~~~~~~~  218 (327)
T d2p67a1         148 DVVIVETVGVGQS---ETEVARMVDCFISLQIAGGGDDLQGIKKGLM------EVADLIVINKDDGDNHTNVAIARHMYE  218 (327)
T ss_dssp             SEEEEEEECCTTH---HHHHHTTCSEEEEEECC------CCCCHHHH------HHCSEEEECCCCTTCHHHHHHHHHHHH
T ss_pred             CeEEEeecccccc---chhhhhccceEEEEecCCCchhhhhhchhhh------ccccEEEEEeecccchHHHHHHHHHHH
Confidence            3788888885432   1245578999999998866532221  1111      1355899999998642111 0112222


Q ss_pred             HHHhhh---hccccccccccccccCcceeEEeecCCC
Q psy6316         172 DIIKSQ---ESSVQTHKTVESARKGQEICIKIEPIPG  205 (259)
Q Consensus       172 ~~~~~~---~~~~~~~~i~~Sa~~g~gv~~~l~~i~~  205 (259)
                      ..+..+   ...|..+++.+||.+|.|++++...+..
T Consensus       219 ~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~  255 (327)
T d2p67a1         219 SALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIID  255 (327)
T ss_dssp             HHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHH
T ss_pred             HHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHHHH
Confidence            222222   2334556778999999999997766644

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=99.17  E-value=7.7e-12  Score=102.66  Aligned_cols=103  Identities=15%  Similarity=0.074  Sum_probs=58.3

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHH
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDII  174 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~  174 (259)
                      ++.|+.|.|.....   ......+|..++|+.+..+..-+-..    ......+-++|+||+|+......  ........
T Consensus       145 d~iiiETVG~gq~e---~~~~~~~D~~v~v~~p~~GD~iQ~~k----~gilE~aDi~vvNKaD~~~~~~~--~~~~~~~~  215 (323)
T d2qm8a1         145 DVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIK----KGIFELADMIAVNKADDGDGERR--ASAAASEY  215 (323)
T ss_dssp             CEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CC----TTHHHHCSEEEEECCSTTCCHHH--HHHHHHHH
T ss_pred             CeEEEeehhhhhhh---hhhhcccceEEEEeeccchhhhhhhh----hhHhhhhheeeEeccccccchHH--HHHHHHHH
Confidence            38888888854322   22345699999999987653222100    00012456999999998643211  11111111


Q ss_pred             hh----hh---ccccccccccccccCcceeEEeecCCCC
Q psy6316         175 KS----QE---SSVQTHKTVESARKGQEICIKIEPIPGE  206 (259)
Q Consensus       175 ~~----~~---~~~~~~~i~~Sa~~g~gv~~~l~~i~~~  206 (259)
                      +.    ..   ..+..+++.+||++|.|++++...+...
T Consensus       216 ~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~  254 (323)
T d2qm8a1         216 RAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDH  254 (323)
T ss_dssp             HHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHH
T ss_pred             HHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHH
Confidence            11    11   2245567789999999999977666443

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.93  E-value=7.7e-10  Score=89.79  Aligned_cols=99  Identities=15%  Similarity=0.163  Sum_probs=58.1

Q ss_pred             ccccccEEEEEeeCCCChhHHHhHHhcccc---CCCCCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCe
Q psy6316          20 NFMRAAIVCVLGHVDTGKTKILDKLRRTNV---QDGEAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGL   96 (259)
Q Consensus        20 ~~~r~~~I~v~G~~~~GKStlin~l~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (259)
                      .+|+   |+++|.||||||||+|+|++...   ....+.++....|....+-.+... .......       .......+
T Consensus         9 ~~~k---iGivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~-l~~~~~~-------~~~~~~~i   77 (296)
T d1ni3a1           9 NNLK---TGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDW-LCEAYKP-------KSRVPAFL   77 (296)
T ss_dssp             SCCE---EEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHH-HHHHHCC-------SEEECEEE
T ss_pred             CCcE---EEEECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhh-hhhcccC-------Cceecccc
Confidence            4576   99999999999999999997643   212223333333332222111000 0000000       00001128


Q ss_pred             EEEeCCCC-------cchHHHHHhhccCCCeEEEEEeCCC
Q psy6316          97 LIIDTPGH-------ESFSNLRNRGSSLCDIAILVVDIMH  129 (259)
Q Consensus        97 ~liDtpG~-------~~~~~~~~~~~~~ad~~i~v~d~~~  129 (259)
                      .++|.||.       ...+......++.||++++|+|+..
T Consensus        78 ~~~DvaGLv~gA~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          78 TVFDIAGLTKGASTGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             EEECTGGGCCCCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             eeeeccccccccccccccHHHHHHHhhccceeEEEEeccC
Confidence            99999992       2245667788899999999999865

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=98.93  E-value=5.3e-10  Score=89.95  Aligned_cols=95  Identities=15%  Similarity=0.209  Sum_probs=55.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhccccCCC--CCCcceeeccccccCccccccccccccCCCCCCCCCCCCCCCCeEEEeCCC
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTNVQDG--EAGGITQQIGATNVPADAIRENTKHVRGPGGEVGGPGPLEIPGLLIIDTPG  103 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG  103 (259)
                      +|+++|.||||||||+|+|++.+....  .+.++....|....+-.+..... .+...       -..-.-.+.++|.||
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~~~~~~~ypf~ti~pn~gvv~v~d~r~~~l~-~~~~~-------~~~~~a~i~~~Di~G   75 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALA-EIVKP-------ERILPTTMEFVDIAG   75 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHH-HHHCC-------SEEECCEEEEEECCS
T ss_pred             eEEEECCCCCCHHHHHHHHHCCCCccccCCCCCCCCceEEEecccHhHHHHH-HhcCC-------CceeeeeEEEEEccc
Confidence            499999999999999999997765422  23444555554443322111000 00000       000001288999999


Q ss_pred             Ccc-------hHHHHHhhccCCCeEEEEEeCC
Q psy6316         104 HES-------FSNLRNRGSSLCDIAILVVDIM  128 (259)
Q Consensus       104 ~~~-------~~~~~~~~~~~ad~~i~v~d~~  128 (259)
                      ...       ......+.++.||++++|+|+.
T Consensus        76 Li~ga~~g~Glg~~FL~~ir~~d~LihVVr~f  107 (278)
T d1jala1          76 LVAGASKGEGLGNKFLANIRETDAIGHVVRCF  107 (278)
T ss_dssp             CCTTHHHHGGGTCCHHHHHHTCSEEEEEEECS
T ss_pred             cCCCcccCCCccHHHHHHHHhccceEEEeecc
Confidence            322       2233556789999999999974

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=98.83  E-value=7.5e-09  Score=79.11  Aligned_cols=164  Identities=16%  Similarity=0.134  Sum_probs=75.9

Q ss_pred             CCCcccccccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccc--cc---cccccCCCCCCC-CCC
Q psy6316          16 PEDENFMRAAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIR--EN---TKHVRGPGGEVG-GPG   89 (259)
Q Consensus        16 ~~~~~~~r~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~---~~~~~~~~~~~~-~~~   89 (259)
                      |...+..++..|+++|++|+||||.+.+|.......+.      .++..+.+..+..  ++   ...+.+...... .+.
T Consensus         4 ~~~~~~k~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~------kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~   77 (211)
T d1j8yf2           4 PKVIPDKIPYVIMLVGVQGTGKATTAGKLAYFYKKKGF------KVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEK   77 (211)
T ss_dssp             CCCSCSSSSEEEEEECSCCC----HHHHHHHHHHHTTC------CEEEEECCCSSHHHHHHHHHHHHHHTCCEECCTTCC
T ss_pred             cccCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCC------ceEEEEeeccccchhHHHHHhccccCcceeecccch
Confidence            34444455677999999999999999999643222111      1111111111110  00   000000000000 000


Q ss_pred             C-------------CCCCCeEEEeCCCCcchH------HHHHhh--ccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCC
Q psy6316          90 P-------------LEIPGLLIIDTPGHESFS------NLRNRG--SSLCDIAILVVDIMHGLEPQTIESINILKSKKTP  148 (259)
Q Consensus        90 ~-------------~~~~~~~liDtpG~~~~~------~~~~~~--~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~p  148 (259)
                      +             ....++.|+||||...+.      ..+...  ....+-+++|++++.+... ...........+..
T Consensus        78 ~~~~~~~~a~~~~~~~~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~-~~~~~~~~~~~~~~  156 (211)
T d1j8yf2          78 DVVGIAKRGVEKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKA-YDLASKFNQASKIG  156 (211)
T ss_dssp             CHHHHHHHHHHHHHHTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGH-HHHHHHHHHHCTTE
T ss_pred             hhhHHHHHHHHHhhccCCceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcch-HHHHhhhhcccCcc
Confidence            0             122359999999943222      111111  2346788999999875332 22233333444433


Q ss_pred             EEEEEecccccCcccccchhhHHHHHhhhhccccccccccccccCcceeE
Q psy6316         149 FVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARKGQEICI  198 (259)
Q Consensus       149 iivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~g~gv~~  198 (259)
                       -+++||.|....     .-.+....    ...+.++.++|  .|+++++
T Consensus       157 -~lI~TKlDet~~-----~G~~l~~~----~~~~lPi~~it--~Gq~v~D  194 (211)
T d1j8yf2         157 -TIIITKMDGTAK-----GGGALSAV----AATGATIKFIG--TGEKIDE  194 (211)
T ss_dssp             -EEEEECTTSCSC-----HHHHHHHH----HTTTCCEEEEE--CSSSTTC
T ss_pred             -eEEEecccCCCc-----ccHHHHHH----HHHCcCEEEEe--CCCCccc
Confidence             466999998742     22233322    22345555555  5777754

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=98.70  E-value=7.9e-09  Score=82.69  Aligned_cols=26  Identities=23%  Similarity=0.558  Sum_probs=23.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ..+|+|+|.||||||||+|+|.+.+.
T Consensus       112 ~~~v~vvG~PNvGKSsliN~L~~~~~  137 (273)
T d1puja_         112 AIRALIIGIPNVGKSTLINRLAKKNI  137 (273)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCC
T ss_pred             ceEEEEEecCccchhhhhhhhhccce
Confidence            34599999999999999999998765

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=98.56  E-value=1.1e-07  Score=72.31  Aligned_cols=24  Identities=29%  Similarity=0.481  Sum_probs=20.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +..|+++|++|+||||.+.+|...
T Consensus         9 p~vi~lvGptGvGKTTTiAKLA~~   32 (211)
T d2qy9a2           9 PFVILMVGVNGVGKTTTIGKLARQ   32 (211)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            456889999999999999999644

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=98.52  E-value=3.9e-08  Score=75.14  Aligned_cols=25  Identities=32%  Similarity=0.408  Sum_probs=21.3

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ++..|+++|++|+||||.+.+|...
T Consensus        10 ~p~vi~lvGptGvGKTTTiAKLAa~   34 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCGKLAKM   34 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            3557899999999999999999644

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.52  E-value=3.9e-08  Score=75.55  Aligned_cols=27  Identities=19%  Similarity=0.321  Sum_probs=22.9

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      +....+++|++|||||||+|+|.+...
T Consensus        94 ~~kt~~~~G~SGVGKSTLiN~L~~~~~  120 (225)
T d1u0la2          94 KGKISTMAGLSGVGKSSLLNAINPGLK  120 (225)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHSTTCC
T ss_pred             cCCeEEEECCCCCCHHHHHHhhcchhh
Confidence            345689999999999999999987643

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.49  E-value=1.9e-08  Score=77.61  Aligned_cols=29  Identities=14%  Similarity=0.264  Sum_probs=22.8

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      .++....+++|++|||||||+|+|.+...
T Consensus        94 ~l~~~~~vl~G~SGVGKSSLiN~L~~~~~  122 (231)
T d1t9ha2          94 HFQDKTTVFAGQSGVGKSSLLNAISPELG  122 (231)
T ss_dssp             GGTTSEEEEEESHHHHHHHHHHHHCC---
T ss_pred             hhccceEEEECCCCccHHHHHHhhccHhH
Confidence            34556789999999999999999987643

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=98.49  E-value=5.9e-08  Score=73.85  Aligned_cols=64  Identities=19%  Similarity=0.171  Sum_probs=37.4

Q ss_pred             CeEEEeCCCCcchHHHH----Hh---hc-----cCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccC
Q psy6316          95 GLLIIDTPGHESFSNLR----NR---GS-----SLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLY  160 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~----~~---~~-----~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~  160 (259)
                      +++|+||||...+....    ..   ..     ...+-.++|+|++.+.. .-..........+.. -++++|.|...
T Consensus        90 d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~-~~~~~~~~~~~~~~~-~lI~TKlDet~  165 (207)
T d1okkd2          90 DLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQN-GLEQAKKFHEAVGLT-GVIVTKLDGTA  165 (207)
T ss_dssp             SEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTH-HHHHHHHHHHHHCCS-EEEEECTTSSC
T ss_pred             CEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCch-HHHHHHHhhhccCCc-eEEEeccCCCC
Confidence            59999999944332221    11   11     24577899999987532 222233333434443 45799999864

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.47  E-value=2.5e-07  Score=71.35  Aligned_cols=147  Identities=16%  Similarity=0.112  Sum_probs=71.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhccccCCCCCCcceeeccccccCccccc--------cccccccCCCCCCCCC-------
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNVQDGEAGGITQQIGATNVPADAIR--------ENTKHVRGPGGEVGGP-------   88 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~-------   88 (259)
                      .|..+|.|.-|||||||+++++...- ......+..++|..........        ...+.+.+........       
T Consensus         3 iPv~iitGFLGaGKTTll~~lL~~~~-~~riaVI~Ne~g~~~iD~~~~~~~~~~~~el~~gcicc~~~~~~~~~l~~~~~   81 (222)
T d1nija1           3 IAVTLLTGFLGAGKTTLLRHILNEQH-GYKIAVIENEFGEVSVDDQLIGDRATQIKTLTNGCICCSRSNELEDALLDLLD   81 (222)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHSCC-CCCEEEECSSCCSCCEEEEEECTTSCEEEEETTSCEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEeeCCCCCHHHHHHHHHhcCC-CCcEEEEEecccchhhhhhhhcccccceEEecCCcceeccchhHHHHHHHHHH
Confidence            46799999999999999999987531 1111112222222111111100        0001111100000000       


Q ss_pred             ---CCCCCCCeEEEeCCCCcchHHHHHhh--------ccCCCeEEEEEeCCCCCCHHHH-H-HHHHHHhCCCCEEEEEec
Q psy6316          89 ---GPLEIPGLLIIDTPGHESFSNLRNRG--------SSLCDIAILVVDIMHGLEPQTI-E-SINILKSKKTPFVVALNK  155 (259)
Q Consensus        89 ---~~~~~~~~~liDtpG~~~~~~~~~~~--------~~~ad~~i~v~d~~~~~~~~~~-~-~l~~~~~~~~piivv~NK  155 (259)
                         ......+..++.+.|..+........        .-..+.++.|+|+......... . ...++.   ..-++++||
T Consensus        82 ~~~~~~~~~d~iiIE~sG~~~p~~l~~~~~~~~~~~~~~~l~~vi~vVDa~~~~~~~~~~~~~~~Qi~---~AD~ivlNK  158 (222)
T d1nija1          82 NLDKGNIQFDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVG---YADRILLTK  158 (222)
T ss_dssp             HHHHTSCCCSEEEEEEETTCCHHHHHHHHHHSHHHHHHEEEEEEEEEEETTTHHHHHHHCHHHHHHHH---TCSEEEEEC
T ss_pred             HHhhccCCcceeEEeecccchhhHHHHHHHhhhcccccccccchhhhhhhhhhhhhhhhhHHHHHHHH---hCCcccccc
Confidence               00001237999999965544333221        1246889999998763221111 1 122232   344788999


Q ss_pred             ccccCcccccchhhHHHHHhhhhc
Q psy6316         156 IDRLYNWNTMNRRDVRDIIKSQES  179 (259)
Q Consensus       156 ~D~~~~~~~~~~~~~~~~~~~~~~  179 (259)
                      +|+..     ..+.+.+.++.+..
T Consensus       159 ~Dl~~-----~~~~~~~~l~~lNP  177 (222)
T d1nija1         159 TDVAG-----EAEKLHERLARINA  177 (222)
T ss_dssp             TTTCS-----CTHHHHHHHHHHCS
T ss_pred             ccccc-----HHHHHHHHHHHHhC
Confidence            99974     23445555655544

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=98.44  E-value=1.2e-07  Score=72.14  Aligned_cols=63  Identities=22%  Similarity=0.257  Sum_probs=38.0

Q ss_pred             CeEEEeCCCCcchHHHHH----hh--ccCCCeEEEEEeCCCCCCHHHHHHHHHHHh-CCCCEEEEEecccccC
Q psy6316          95 GLLIIDTPGHESFSNLRN----RG--SSLCDIAILVVDIMHGLEPQTIESINILKS-KKTPFVVALNKIDRLY  160 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~----~~--~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~-~~~piivv~NK~D~~~  160 (259)
                      ++.||||||.........    ..  ....+-+++|+|++.+  ...........+ .+.. =++++|.|...
T Consensus        94 d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~--~~~~~~~~~f~~~~~~~-~~I~TKlDe~~  163 (207)
T d1ls1a2          94 DLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTG--QEALSVARAFDEKVGVT-GLVLTKLDGDA  163 (207)
T ss_dssp             CEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGT--HHHHHHHHHHHHHTCCC-EEEEECGGGCS
T ss_pred             cceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccc--hhHHHHHHHHHhhCCCC-eeEEeecCccc
Confidence            499999999433222211    11  2467889999998764  333444443333 3433 36789999763

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=98.37  E-value=5.8e-07  Score=71.54  Aligned_cols=81  Identities=19%  Similarity=0.129  Sum_probs=59.5

Q ss_pred             HHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhcccccccccc
Q psy6316         109 NLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVE  188 (259)
Q Consensus       109 ~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  188 (259)
                      ......+..+|++|+|+|+..+.+..+..+...++  ++|.|+|+||+|+..      ........+. ....+...+.+
T Consensus         7 r~i~~~i~~~DvIl~V~DaR~P~ss~~~~l~~~~~--~Kp~IlVlNK~DLv~------~~~~~~w~~~-f~~~~~~~i~i   77 (273)
T d1puja_           7 REVTEKLKLIDIVYELVDARIPMSSRNPMIEDILK--NKPRIMLLNKADKAD------AAVTQQWKEH-FENQGIRSLSI   77 (273)
T ss_dssp             HHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHCS--SSCEEEEEECGGGSC------HHHHHHHHHH-HHTTTCCEEEC
T ss_pred             HHHHHHHHhCCEEEEEEECCCCCCCCCHHHHHHHc--CCCeEEEEECccCCc------hHHHHHHHHH-HHhcCCcccee
Confidence            44566789999999999999888877666655553  789999999999983      2333333333 33445677889


Q ss_pred             ccccCcceeE
Q psy6316         189 SARKGQEICI  198 (259)
Q Consensus       189 Sa~~g~gv~~  198 (259)
                      |+.++.|...
T Consensus        78 sa~~~~~~~~   87 (273)
T d1puja_          78 NSVNGQGLNQ   87 (273)
T ss_dssp             CTTTCTTGGG
T ss_pred             ecccCCCccc
Confidence            9998887755

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.01  E-value=2.3e-06  Score=65.65  Aligned_cols=94  Identities=10%  Similarity=0.163  Sum_probs=63.8

Q ss_pred             ccCCCeEEEEEeCCC-CCCHHHH-HHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhcccccccccccccc
Q psy6316         115 SSLCDIAILVVDIMH-GLEPQTI-ESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESARK  192 (259)
Q Consensus       115 ~~~ad~~i~v~d~~~-~~~~~~~-~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~~  192 (259)
                      +...|.+++|+++.+ .+..... +++......+++.++|+||+|+..+.   ..++..+.+......++.+++.+||.+
T Consensus         8 vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~~~i~pvIvlnK~DL~~~~---~~~~~~~~~~~~y~~~g~~v~~~Sa~~   84 (231)
T d1t9ha2           8 ICNVDQAVLVFSAVQPSFSTALLDRFLVLVEANDIQPIICITKMDLIEDQ---DTEDTIQAYAEDYRNIGYDVYLTSSKD   84 (231)
T ss_dssp             EECCCEEEEEEESTTTTCCHHHHHHHHHHHHTTTCEEEEEEECGGGCCCH---HHHHHHHHHHHHHHHHTCCEEECCHHH
T ss_pred             ccccCEEEEEEECCCCCCCHHHHHHHHHHHHHcCCCEEEEEecccccccH---HHHHHHHHHHHHHhhccccceeeecCC
Confidence            467899999999865 3454443 36666777899999999999998421   122222333333445578999999999


Q ss_pred             CcceeEEeecCCCCCCccc
Q psy6316         193 GQEICIKIEPIPGEAPKMF  211 (259)
Q Consensus       193 g~gv~~~l~~i~~~~~~~~  211 (259)
                      +.|++.+...+......+.
T Consensus        85 ~~gl~~L~~~l~~~~~vl~  103 (231)
T d1t9ha2          85 QDSLADIIPHFQDKTTVFA  103 (231)
T ss_dssp             HTTCTTTGGGGTTSEEEEE
T ss_pred             hhHHHHHHHhhccceEEEE
Confidence            9999987766644433333

>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=97.85  E-value=3e-06  Score=64.09  Aligned_cols=44  Identities=9%  Similarity=-0.126  Sum_probs=31.7

Q ss_pred             ccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEecccc
Q psy6316         115 SSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDR  158 (259)
Q Consensus       115 ~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~  158 (259)
                      +...++.++++|++.............++..+.+++++.++++.
T Consensus        81 ~~~~~~~~vi~d~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  124 (213)
T d1bifa1          81 LSEEGGHVAVFDATNTTRERRAMIFNFGEQNGYKTFFVESICVD  124 (213)
T ss_dssp             HHTTCCSEEEEESCCCSHHHHHHHHHHHHHHTCEEEEEEECCCC
T ss_pred             HHhcCCCEEEeecCCccHHHHHHHHHHHHhcCCeEEEEEeeccH
Confidence            34456677889998766655556666677788888888888763

>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=97.81  E-value=8e-06  Score=62.35  Aligned_cols=94  Identities=23%  Similarity=0.199  Sum_probs=61.4

Q ss_pred             hccCCCeEEEEEeCCC-CCCHHHH-HHHHHHHhCCCCEEEEEecccccCcccccchhhHHHHHhhhhccccccccccccc
Q psy6316         114 GSSLCDIAILVVDIMH-GLEPQTI-ESINILKSKKTPFVVALNKIDRLYNWNTMNRRDVRDIIKSQESSVQTHKTVESAR  191 (259)
Q Consensus       114 ~~~~ad~~i~v~d~~~-~~~~~~~-~~l~~~~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Sa~  191 (259)
                      .+...|.+++|+.+.. .++..-. +++......++|.++|+||+|+....   ..+.+.......  ....+++.+||+
T Consensus         7 ~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~~~i~pvIvlnK~DL~~~~---~~~~~~~~~~~~--~~~~~v~~vSa~   81 (225)
T d1u0la2           7 HVANVDQVILVVTVKMPETSTYIIDKFLVLAEKNELETVMVINKMDLYDED---DLRKVRELEEIY--SGLYPIVKTSAK   81 (225)
T ss_dssp             TEESCCEEEEEECSSTTCCCHHHHHHHHHHHHHTTCEEEEEECCGGGCCHH---HHHHHHHHHHHH--TTTSCEEECCTT
T ss_pred             CcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHHcCCCEEEEEeCcccCCHH---HHHHHHHhhccc--ccceeEEEeccc
Confidence            3467899999999865 3554443 46677778899999999999997321   111222222222  123577889999


Q ss_pred             cCcceeEEeecCCCCCCcccc
Q psy6316         192 KGQEICIKIEPIPGEAPKMFG  212 (259)
Q Consensus       192 ~g~gv~~~l~~i~~~~~~~~~  212 (259)
                      ++.|++.+...+......+.+
T Consensus        82 ~~~g~~~L~~~l~~kt~~~~G  102 (225)
T d1u0la2          82 TGMGIEELKEYLKGKISTMAG  102 (225)
T ss_dssp             TCTTHHHHHHHHSSSEEEEEC
T ss_pred             cchhHhhHHHHhcCCeEEEEC
Confidence            999998876656444444444

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.61  E-value=1.1e-05  Score=59.24  Aligned_cols=21  Identities=24%  Similarity=0.490  Sum_probs=19.7

Q ss_pred             EEEEeeCCCChhHHHhHHhcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+++|++|+|||||++.+++.
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHhc
Confidence            999999999999999999764

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.56  E-value=1.5e-05  Score=57.79  Aligned_cols=23  Identities=30%  Similarity=0.433  Sum_probs=21.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      |.|+|+|.+|||||||+++|+..
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~~   25 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIPA   25 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHH
Confidence            68999999999999999999753

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.54  E-value=0.00019  Score=56.58  Aligned_cols=26  Identities=27%  Similarity=0.500  Sum_probs=22.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ...|+++|+.++|||+|+|.|++...
T Consensus        32 v~vvsi~G~~~sGKS~llN~l~~~~~   57 (277)
T d1f5na2          32 MVVVAIVGLYRTGKSYLMNKLAGKKK   57 (277)
T ss_dssp             EEEEEEEEBTTSSHHHHHHHHTTCSS
T ss_pred             EEEEEEECCCCCCHHHHHHHHcCCCC
Confidence            45799999999999999999987653

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=97.53  E-value=6.2e-05  Score=57.59  Aligned_cols=63  Identities=19%  Similarity=0.157  Sum_probs=46.2

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEE-EEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFV-VALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pii-vv~NK~D~~  159 (259)
                      +++++|||+...  ......+..+|.++++...+........+.+..+++.+.|++ +|+||.+..
T Consensus       113 d~IiiD~~~~~~--~~~~~~l~~aD~viiv~~~~~~s~~~~~~~~~~~~~~~~~~~giv~N~~~~~  176 (237)
T d1g3qa_         113 DFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPEISCLTDTMKVGIVLKKAGLAILGFVLNRYGRS  176 (237)
T ss_dssp             SEEEEECCSSSS--HHHHHHHTTCSEEEEEECSCHHHHHHHHHHHHHHHHTTCEEEEEEEEEETSC
T ss_pred             CEEEEccccccc--ccchhhhhhhhcccccccccceecchhhHHHHHHhhhhhhhhhhhhcccccc
Confidence            599999998653  344556778999999999754323334556677777888876 889999865

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.45  E-value=2.4e-05  Score=57.42  Aligned_cols=26  Identities=31%  Similarity=0.494  Sum_probs=22.5

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +.+.+|+|+|.+|+|||||+++|...
T Consensus         5 ~~~K~I~i~G~~GsGKTTla~~La~~   30 (192)
T d1lw7a2           5 FFAKTVAILGGESSGKSVLVNKLAAV   30 (192)
T ss_dssp             GTCEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHH
Confidence            34678999999999999999999653

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.36  E-value=0.00016  Score=52.26  Aligned_cols=22  Identities=27%  Similarity=0.442  Sum_probs=19.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .|+|+|.+|+|||||+++|+..
T Consensus         3 ii~I~G~~gSGKTTli~~l~~~   24 (165)
T d1xjca_           3 VWQVVGYKHSGKTTLMEKWVAA   24 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            4789999999999999999754

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.35  E-value=0.00012  Score=53.48  Aligned_cols=24  Identities=17%  Similarity=0.357  Sum_probs=20.7

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ++..|+++|.|||||||++..+..
T Consensus        13 ~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            355799999999999999999853

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.33  E-value=4.2e-05  Score=55.44  Aligned_cols=24  Identities=21%  Similarity=0.263  Sum_probs=20.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      -++|+++|++||||||+.+.|...
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~~   27 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELASK   27 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            356999999999999999999643

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.31  E-value=5.2e-05  Score=55.05  Aligned_cols=24  Identities=21%  Similarity=0.333  Sum_probs=20.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..+|+++|++||||||+.+.|...
T Consensus         5 ~~~I~i~G~~GsGKTT~~~~La~~   28 (174)
T d1y63a_           5 GINILITGTPGTGKTSMAEMIAAE   28 (174)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHH
Confidence            344999999999999999999654

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=97.30  E-value=0.00016  Score=55.05  Aligned_cols=63  Identities=17%  Similarity=0.209  Sum_probs=41.2

Q ss_pred             CeEEEeCCCCcchHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEE-EEEeccccc
Q psy6316          95 GLLIIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFV-VALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pii-vv~NK~D~~  159 (259)
                      +++|+|+|+...  ......+..+|.+++|..............+..+.+.+.+++ +++||.+..
T Consensus       111 D~viiD~~~~~~--~~~~~~l~~ad~v~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~N~~~~~  174 (232)
T d1hyqa_         111 DILLLDAPAGLE--RSAVIAIAAAQELLLVVNPEISSITDGLKTKIVAERLGTKVLGVVVNRITTL  174 (232)
T ss_dssp             SEEEEECCSSSS--HHHHHHHHHSSEEEEEECSSHHHHHHHHHHHHHHHHHTCEEEEEEEEEECTT
T ss_pred             ceeeeccccccc--chhHHHhhhhheeeeeccccccchhhhhhhhhhhhhcccccccccccccccc
Confidence            489999999653  334455677999999998743212222334455556666654 789998754

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.13  E-value=0.00011  Score=54.57  Aligned_cols=25  Identities=28%  Similarity=0.430  Sum_probs=21.6

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+..|+|+|+|||||||+.+.|...
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~~   29 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4567999999999999999999643

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.12  E-value=0.00011  Score=52.04  Aligned_cols=22  Identities=18%  Similarity=0.333  Sum_probs=19.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .|+++|.|||||||+++.|...
T Consensus         4 lIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           4 IILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5889999999999999998643

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.08  E-value=0.00012  Score=52.94  Aligned_cols=26  Identities=23%  Similarity=0.397  Sum_probs=22.1

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      |....|++.|.+|+||||+.+.|...
T Consensus         1 M~~kiI~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           1 MTTRMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            45567889999999999999999654

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.08  E-value=0.00018  Score=53.18  Aligned_cols=23  Identities=22%  Similarity=0.408  Sum_probs=20.4

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      +..|+|.|.+|||||||.++|..
T Consensus        22 ~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          22 RLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            45699999999999999999953

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.05  E-value=0.00013  Score=52.61  Aligned_cols=23  Identities=17%  Similarity=0.335  Sum_probs=20.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +.|+++|++|+||||+.+.|...
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999999654

>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=97.04  E-value=0.00076  Score=54.19  Aligned_cols=23  Identities=26%  Similarity=0.323  Sum_probs=20.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .+|+|.|.+|+|||||+++|+..
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGG
T ss_pred             CCEEEEeeccccchHHHHHHhhh
Confidence            46999999999999999999864

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=97.03  E-value=0.00044  Score=53.95  Aligned_cols=65  Identities=6%  Similarity=-0.136  Sum_probs=35.7

Q ss_pred             CeEEEeCCCCcch-HHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHh----CCCCE-EEEEeccccc
Q psy6316          95 GLLIIDTPGHESF-SNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKS----KKTPF-VVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~~-~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~----~~~pi-ivv~NK~D~~  159 (259)
                      ++.++|||+.... ..........||.+++++.+...........+..+..    .+.++ -+++|+.+..
T Consensus       117 D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~~~~sl~~~~~~~~~i~~~~~~~~~~~~~vv~N~~~~~  187 (269)
T d1cp2a_         117 DYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVA  187 (269)
T ss_dssp             SEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECSSHHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECCSSS
T ss_pred             CEEEeccCCccchhHHHHHHHhhccCceeeccchhhhHHHHHHHHHHHHHhhccccceeccceEEeeecCC
Confidence            5999999974322 2222333466899888888643111112233333332    23333 3688998865

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.02  E-value=0.00012  Score=53.03  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=19.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      |+|+++|.+||||||+.+.|..
T Consensus         2 p~IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            6799999999999999998853

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.99  E-value=0.00029  Score=51.69  Aligned_cols=22  Identities=23%  Similarity=0.400  Sum_probs=19.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      -|+++|++|+|||||+++|+..
T Consensus         5 ~ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           5 TLVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHh
Confidence            4899999999999999999854

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.97  E-value=0.00015  Score=53.03  Aligned_cols=21  Identities=19%  Similarity=0.357  Sum_probs=18.9

Q ss_pred             EEEEeeCCCChhHHHhHHhcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+|+|+|||||||+.+.|...
T Consensus         3 I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAA   23 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            999999999999999988543

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.97  E-value=0.00016  Score=52.99  Aligned_cols=24  Identities=21%  Similarity=0.369  Sum_probs=21.3

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +||   |+|+|+||+||||+...|...
T Consensus         2 ~mr---Ivl~G~pGSGKtT~a~~La~~   25 (180)
T d1akya1           2 SIR---MVLIGPPGAGKGTQAPNLQER   25 (180)
T ss_dssp             CCE---EEEECCTTSSHHHHHHHHHHH
T ss_pred             ceE---EEEECCCCCCHHHHHHHHHHH
Confidence            677   999999999999999999643

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.95  E-value=0.00029  Score=51.73  Aligned_cols=23  Identities=26%  Similarity=0.432  Sum_probs=20.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .|+++|++|||||||++.|....
T Consensus         4 iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           4 VVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            48899999999999999997553

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.94  E-value=0.00017  Score=55.53  Aligned_cols=24  Identities=17%  Similarity=0.468  Sum_probs=21.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      -.|+|+|++|+|||||++.|.+-.
T Consensus        30 e~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          30 EVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            359999999999999999998753

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.93  E-value=0.00015  Score=52.76  Aligned_cols=24  Identities=25%  Similarity=0.303  Sum_probs=20.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .+|.++|++|+|||||+..+...-
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            469999999999999999997543

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.90  E-value=0.0002  Score=54.67  Aligned_cols=22  Identities=23%  Similarity=0.498  Sum_probs=20.1

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++++|++|||||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCcchhhHhccCC
Confidence            5999999999999999998765

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=96.89  E-value=0.0002  Score=52.86  Aligned_cols=23  Identities=17%  Similarity=0.245  Sum_probs=19.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .+|+|+|++|+||||+...|...
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~   26 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTK   26 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            34999999999999999998543

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.89  E-value=0.00022  Score=54.52  Aligned_cols=23  Identities=22%  Similarity=0.403  Sum_probs=20.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.+.+-.
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            59999999999999999997653

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.88  E-value=0.00025  Score=51.39  Aligned_cols=25  Identities=20%  Similarity=0.348  Sum_probs=20.9

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      .+-..|.++|.+||||||+.+.|..
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3445689999999999999998854

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=96.88  E-value=0.0002  Score=52.53  Aligned_cols=21  Identities=19%  Similarity=0.409  Sum_probs=19.2

Q ss_pred             EEEEeeCCCChhHHHhHHhcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+|+|+|||||||+...|...
T Consensus         3 I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            999999999999999999654

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.87  E-value=0.00021  Score=53.50  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=20.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|||||||++.|++-.
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhccc
Confidence            48999999999999999998753

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=96.86  E-value=0.00021  Score=50.87  Aligned_cols=22  Identities=23%  Similarity=0.425  Sum_probs=19.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +|+++|++|+||||+...|...
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5999999999999999999643

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.86  E-value=0.00024  Score=55.15  Aligned_cols=23  Identities=26%  Similarity=0.465  Sum_probs=20.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      -.++++|++|||||||++.|.+-
T Consensus        42 e~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          42 KTVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTTT
T ss_pred             CEEEEECCCCChHHHHHHHHhcc
Confidence            35999999999999999999764

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=96.85  E-value=0.00023  Score=54.87  Aligned_cols=24  Identities=29%  Similarity=0.451  Sum_probs=21.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      -.++++|++|+|||||++.|.+-.
T Consensus        29 e~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          29 SIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            359999999999999999997653

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.84  E-value=0.00047  Score=51.73  Aligned_cols=23  Identities=22%  Similarity=0.381  Sum_probs=20.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .|+++|++|+|||||++.|+...
T Consensus         4 livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            48899999999999999997653

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.82  E-value=0.00025  Score=54.96  Aligned_cols=23  Identities=17%  Similarity=0.380  Sum_probs=20.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        42 ~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhccc
Confidence            59999999999999999997653

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.81  E-value=0.00028  Score=55.67  Aligned_cols=24  Identities=21%  Similarity=0.351  Sum_probs=21.1

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      -.++++|++|||||||++.|++-.
T Consensus        63 e~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          63 EMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhCCC
Confidence            359999999999999999998753

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.81  E-value=0.00035  Score=50.44  Aligned_cols=25  Identities=28%  Similarity=0.461  Sum_probs=20.7

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ....|+++|++||||||+.+.|...
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3345889999999999999999643

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.80  E-value=0.00027  Score=51.49  Aligned_cols=22  Identities=23%  Similarity=0.185  Sum_probs=19.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..|+|.|.+||||||+++.|..
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999954

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.80  E-value=0.00028  Score=54.13  Aligned_cols=23  Identities=26%  Similarity=0.401  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.+.+-.
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            58999999999999999998754

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.80  E-value=0.00027  Score=51.61  Aligned_cols=21  Identities=19%  Similarity=0.230  Sum_probs=19.0

Q ss_pred             EEEEeeCCCChhHHHhHHhcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+|+|+|||||||..+.|...
T Consensus         3 I~i~G~pGSGKsT~~~~La~~   23 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEK   23 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            999999999999999999643

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.79  E-value=0.00027  Score=51.78  Aligned_cols=21  Identities=33%  Similarity=0.351  Sum_probs=19.2

Q ss_pred             EEEEeeCCCChhHHHhHHhcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+++|+||+||||+.+.|...
T Consensus         3 I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            999999999999999999644

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.77  E-value=0.00031  Score=51.97  Aligned_cols=23  Identities=26%  Similarity=0.368  Sum_probs=20.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ++.|+|+|+|||||||....|..
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999964

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.76  E-value=0.00037  Score=51.38  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=20.0

Q ss_pred             EEEEeeCCCChhHHHhHHhccc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~   48 (259)
                      |+|+|++|||||||+++|+...
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            8999999999999999997653

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=96.75  E-value=0.00032  Score=51.78  Aligned_cols=20  Identities=30%  Similarity=0.411  Sum_probs=18.6

Q ss_pred             EEEEeeCCCChhHHHhHHhc
Q psy6316          27 VCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~   46 (259)
                      |+++|+||+||||+...|..
T Consensus         6 iil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           6 AVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            99999999999999999964

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.74  E-value=0.00034  Score=53.62  Aligned_cols=23  Identities=22%  Similarity=0.362  Sum_probs=20.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            48899999999999999998754

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.73  E-value=0.00035  Score=53.62  Aligned_cols=23  Identities=22%  Similarity=0.378  Sum_probs=20.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHcCCc
Confidence            48999999999999999997653

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.72  E-value=0.00034  Score=53.69  Aligned_cols=23  Identities=26%  Similarity=0.382  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            59999999999999999998754

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.71  E-value=0.00032  Score=50.41  Aligned_cols=22  Identities=18%  Similarity=0.475  Sum_probs=19.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +|+++|.+||||||+.+.|...
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~   23 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKD   23 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHH
Confidence            5999999999999999998543

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=96.66  E-value=0.00037  Score=51.55  Aligned_cols=22  Identities=14%  Similarity=0.421  Sum_probs=19.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +|+++|+|||||||+...|...
T Consensus         8 rIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3999999999999999999654

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=96.66  E-value=0.00039  Score=53.48  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=20.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|||||||++.+.+-.
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            59999999999999999998764

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=96.65  E-value=0.00026  Score=53.98  Aligned_cols=23  Identities=26%  Similarity=0.417  Sum_probs=20.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            49999999999999999998764

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=96.64  E-value=0.0003  Score=53.88  Aligned_cols=22  Identities=23%  Similarity=0.505  Sum_probs=20.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++++|+.|||||||++.|.+-
T Consensus        27 i~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4999999999999999999884

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.63  E-value=0.0002  Score=52.84  Aligned_cols=26  Identities=27%  Similarity=0.304  Sum_probs=22.1

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhc
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      .+|...|.++|.+||||||+.+.|..
T Consensus        16 ~~~g~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          16 GFRGCTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             SCCCEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            45666799999999999999999954

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=96.61  E-value=0.00053  Score=50.75  Aligned_cols=24  Identities=25%  Similarity=0.430  Sum_probs=20.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ++.|.++|+|||||||+..+|...
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~   31 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQK   31 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            456899999999999999999654

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=96.60  E-value=0.00064  Score=52.73  Aligned_cols=24  Identities=17%  Similarity=0.234  Sum_probs=20.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +..|++.|+||+|||||+.+|.+.
T Consensus        32 P~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          32 PTAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            345999999999999999999765

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.59  E-value=0.00035  Score=54.23  Aligned_cols=23  Identities=22%  Similarity=0.436  Sum_probs=20.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      -.++++|++|+|||||++.|.+-
T Consensus        45 e~vaivG~sGsGKSTLl~ll~gl   67 (255)
T d2hyda1          45 ETVAFVGMSGGGKSTLINLIPRF   67 (255)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHHhc
Confidence            35999999999999999999764

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.59  E-value=0.00048  Score=51.03  Aligned_cols=24  Identities=29%  Similarity=0.475  Sum_probs=21.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .+.|+++|+|||||||+...|...
T Consensus         8 ~~iI~i~GppGSGKsT~a~~La~~   31 (196)
T d1ukza_           8 VSVIFVLGGPGAGKGTQCEKLVKD   31 (196)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            467999999999999999999654

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.59  E-value=0.00051  Score=49.36  Aligned_cols=24  Identities=17%  Similarity=0.382  Sum_probs=20.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...|+++|.+||||||+.+.|...
T Consensus         6 ~~iivl~G~~GsGKsT~a~~La~~   29 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASEVAHQ   29 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            456889999999999999999643

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=96.58  E-value=0.00048  Score=52.87  Aligned_cols=23  Identities=26%  Similarity=0.326  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|||||||++.|.+-.
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            48999999999999999998764

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.53  E-value=0.00054  Score=53.23  Aligned_cols=23  Identities=17%  Similarity=0.465  Sum_probs=20.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            49999999999999999997653

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.51  E-value=0.00063  Score=51.30  Aligned_cols=26  Identities=15%  Similarity=0.409  Sum_probs=22.0

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+...|+|.|++||||||....|...
T Consensus         1 Mk~i~IaIdGp~GsGKgT~ak~La~~   26 (223)
T d1q3ta_           1 MKTIQIAIDGPASSGKSTVAKIIAKD   26 (223)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHH
Confidence            55566999999999999999999643

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.47  E-value=0.0006  Score=52.88  Aligned_cols=23  Identities=13%  Similarity=0.382  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|+.|||||||++.|.+-.
T Consensus        32 i~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHCCC
Confidence            48999999999999999998763

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.46  E-value=0.00068  Score=49.48  Aligned_cols=22  Identities=32%  Similarity=0.457  Sum_probs=18.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .|+|.|.+||||||+++.|...
T Consensus         3 iivi~G~~GsGKTT~~~~La~~   24 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3677899999999999999643

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.45  E-value=0.00064  Score=51.03  Aligned_cols=23  Identities=22%  Similarity=0.404  Sum_probs=20.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      |..|+|.|.+|||||||.+.|..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            45699999999999999999954

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=96.42  E-value=0.00032  Score=53.84  Aligned_cols=23  Identities=22%  Similarity=0.348  Sum_probs=20.8

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .++++|++|||||||++.|.+-.
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            59999999999999999998753

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.38  E-value=0.00069  Score=48.96  Aligned_cols=21  Identities=24%  Similarity=0.351  Sum_probs=18.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .|+++|.+||||||+.+.|..
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999999953

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.29  E-value=0.00091  Score=49.38  Aligned_cols=27  Identities=22%  Similarity=0.365  Sum_probs=22.8

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|+..|+|-|..||||||+++.|...
T Consensus         6 ~~kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           6 GTQPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             TCCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            345667999999999999999999644

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.25  E-value=0.00093  Score=49.31  Aligned_cols=21  Identities=33%  Similarity=0.515  Sum_probs=19.2

Q ss_pred             EEEEeeCCCChhHHHhHHhcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+|+|++|+|||||+++|...
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            889999999999999999654

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=96.25  E-value=0.00084  Score=51.27  Aligned_cols=24  Identities=17%  Similarity=0.260  Sum_probs=21.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .+++++.|+||+||||+++.+.+.
T Consensus        35 ~~~~Ll~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          35 LEHLLLFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            467999999999999999999654

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=96.25  E-value=0.00071  Score=53.22  Aligned_cols=24  Identities=17%  Similarity=0.386  Sum_probs=18.4

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHh
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~   45 (259)
                      .|.|.|+|.|.+||||||+.++|.
T Consensus         2 ~k~pIIgIaG~SGSGKTTva~~l~   25 (288)
T d1a7ja_           2 KKHPIISVTGSSGAGTSTVKHTFD   25 (288)
T ss_dssp             TTSCEEEEESCC---CCTHHHHHH
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHH
Confidence            467889999999999999999874

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.24  E-value=0.0018  Score=49.66  Aligned_cols=26  Identities=15%  Similarity=0.083  Sum_probs=22.4

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...+.+++.|++|+||||++..++..
T Consensus        50 ~~~~~lll~GPpG~GKTt~a~~la~~   75 (253)
T d1sxja2          50 GVFRAAMLYGPPGIGKTTAAHLVAQE   75 (253)
T ss_dssp             TSCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHH
Confidence            34567999999999999999999764

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.20  E-value=0.00096  Score=50.08  Aligned_cols=24  Identities=17%  Similarity=0.364  Sum_probs=20.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +|.|+|.|+|||||||+...|...
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~   26 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEA   26 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999644

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=96.13  E-value=0.00099  Score=50.78  Aligned_cols=23  Identities=22%  Similarity=0.244  Sum_probs=20.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +++++.|+||+||||+++.|...
T Consensus        36 ~~~L~~GPpGtGKT~lA~~la~~   58 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAHIIASE   58 (238)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHhc
Confidence            56999999999999999999644

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.08  E-value=0.0015  Score=48.03  Aligned_cols=23  Identities=26%  Similarity=0.556  Sum_probs=19.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      +..|+++|.+||||||+++.|..
T Consensus         3 p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            34589999999999999998854

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=95.94  E-value=0.0018  Score=48.35  Aligned_cols=25  Identities=24%  Similarity=0.514  Sum_probs=21.0

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+ ..|+|+|..|+||||+.+.|...
T Consensus         2 mk-~iIgitG~igSGKStv~~~l~~~   26 (208)
T d1vhta_           2 LR-YIVALTGGIGSGKSTVANAFADL   26 (208)
T ss_dssp             CC-EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CC-EEEEEECCCcCCHHHHHHHHHHC
Confidence            45 56999999999999999988543

>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=95.93  E-value=0.0017  Score=51.57  Aligned_cols=26  Identities=23%  Similarity=0.290  Sum_probs=21.9

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhc
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      .-++..|+|.|.+|||||||.+.|..
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHHH
Confidence            34467899999999999999998843

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=95.92  E-value=0.0019  Score=48.31  Aligned_cols=25  Identities=20%  Similarity=0.351  Sum_probs=21.3

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      .+...|.++|.||+|||||.+.|..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3455799999999999999999964

>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=95.88  E-value=0.0018  Score=48.98  Aligned_cols=25  Identities=24%  Similarity=0.191  Sum_probs=21.6

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +.+++++.|++|+||||+++.+...
T Consensus        44 ~~~~lll~Gp~G~GKTtla~~iak~   68 (231)
T d1iqpa2          44 SMPHLLFAGPPGVGKTTAALALARE   68 (231)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHH
Confidence            3467999999999999999999654

>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=95.85  E-value=0.00089  Score=49.50  Aligned_cols=25  Identities=24%  Similarity=0.380  Sum_probs=21.7

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +..+++++|++|+|||+++..|...
T Consensus        42 ~k~n~lLvG~pGVGKTalv~~LA~r   66 (195)
T d1jbka_          42 TKNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCCeEEEecCCcccHHHHHHHHHH
Confidence            4568999999999999999999654

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=95.84  E-value=0.0028  Score=53.04  Aligned_cols=26  Identities=23%  Similarity=0.399  Sum_probs=22.3

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHhc
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      .+.+.||+++|++|+|||-|+++|.+
T Consensus        46 ei~ksNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          46 EVTPKNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             TCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             ccccccEEEECCCCCCHHHHHHHHHH
Confidence            44456899999999999999999964

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=95.70  E-value=0.0032  Score=48.42  Aligned_cols=22  Identities=23%  Similarity=0.280  Sum_probs=20.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..|++.|++|+|||++++++..
T Consensus        43 ~giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          43 KGVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHH
Confidence            4599999999999999999974

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=95.65  E-value=0.0027  Score=48.88  Aligned_cols=24  Identities=38%  Similarity=0.383  Sum_probs=21.3

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ++.++|.|++|+||||+++.+...
T Consensus        43 ~~~lll~GppGtGKT~l~~~l~~~   66 (276)
T d1fnna2          43 YPRATLLGRPGTGKTVTLRKLWEL   66 (276)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHH
Confidence            467999999999999999999754

>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=95.63  E-value=0.0012  Score=51.39  Aligned_cols=25  Identities=28%  Similarity=0.341  Sum_probs=21.8

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +..+++++|++|+|||+++..|...
T Consensus        38 ~k~n~lLVG~~GvGKTalv~~la~r   62 (268)
T d1r6bx2          38 RKNNPLLVGESGVGKTAIAEGLAWR   62 (268)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ccCCcEEECCCCCcHHHHHHHHHHH
Confidence            3568999999999999999999654

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=95.49  E-value=0.029  Score=41.36  Aligned_cols=65  Identities=11%  Similarity=0.075  Sum_probs=35.9

Q ss_pred             CeEEEeCCCCcc-----hHHHHHhhccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCE-EEEEeccccc
Q psy6316          95 GLLIIDTPGHES-----FSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPF-VVALNKIDRL  159 (259)
Q Consensus        95 ~~~liDtpG~~~-----~~~~~~~~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~pi-ivv~NK~D~~  159 (259)
                      ++.++|+++...     ............+.+++|.+...............++..+.++ -+|+|+.|..
T Consensus       110 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~V~~~~~~~~~~~~~~~~~~~~~~~~~~gvv~N~~~~~  180 (224)
T d1byia_         110 DWVLVEGAGGWFTPLSDTFTFADWVTQEQLPVILVVGVKLGCINHAMLTAQVIQHAGLTLAGWVANDVTPP  180 (224)
T ss_dssp             SEEEEECSSSTTCEEETTEEHHHHHHHHTCCEEEEEECSTTHHHHHHHHHHHHHHTTCCEEEEEEECCSSC
T ss_pred             ceEeecccccccccccccchhhcccccccceeeEEEeeccchhHHHHHHHHHHhccCCccEEEEEeCcCCC
Confidence            388888887221     0011111122345667777765543333344555666666654 5789998864

>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=95.49  E-value=0.0031  Score=48.42  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=19.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..|++.|+||+|||++++++..
T Consensus        41 ~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          41 VSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHhh
Confidence            3599999999999999999964

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=95.46  E-value=0.0021  Score=49.57  Aligned_cols=24  Identities=38%  Similarity=0.383  Sum_probs=20.4

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...|+|.|++|+|||||++.++..
T Consensus        29 ~~~i~i~G~~G~GKTsLl~~~~~~   52 (283)
T d2fnaa2          29 APITLVLGLRRTGKSSIIKIGINE   52 (283)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHHH
Confidence            356999999999999999998643

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=95.37  E-value=0.0031  Score=50.13  Aligned_cols=24  Identities=25%  Similarity=0.448  Sum_probs=21.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      +..|+++|+||+|||.|.++|...
T Consensus        49 ~~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          49 PKNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHhhc
Confidence            456999999999999999999654

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=95.37  E-value=0.0045  Score=47.79  Aligned_cols=22  Identities=27%  Similarity=0.302  Sum_probs=19.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..+++.|+||+|||++++++..
T Consensus        46 ~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          46 KGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEeeCCCCCCccHHHHHHHH
Confidence            4599999999999999999964

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.26  E-value=0.0037  Score=47.21  Aligned_cols=24  Identities=25%  Similarity=0.279  Sum_probs=20.9

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .+++.+.|++|+||||+++.++..
T Consensus        33 ~~~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          33 LPHMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCChHHHHHHHHHH
Confidence            356999999999999999999754

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.21  E-value=0.004  Score=46.83  Aligned_cols=24  Identities=21%  Similarity=0.221  Sum_probs=20.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .+++++.|++|+||||+++.+...
T Consensus        36 ~~~~ll~Gp~G~GKTt~a~~la~~   59 (224)
T d1sxjb2          36 MPHMIISGMPGIGKTTSVHCLAHE   59 (224)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCchhhHHHHHHH
Confidence            456999999999999999988643

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=95.08  E-value=0.0051  Score=45.65  Aligned_cols=22  Identities=32%  Similarity=0.462  Sum_probs=19.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..|+++|..|+||||+.+.|..
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998853

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.06  E-value=0.0041  Score=47.45  Aligned_cols=24  Identities=21%  Similarity=0.159  Sum_probs=21.0

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .+++++.|++|+||||++..+...
T Consensus        33 ~~~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          33 LPHLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CCCEEEECSTTSSHHHHHHTHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHh
Confidence            456999999999999999999764

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.02  E-value=0.0073  Score=46.58  Aligned_cols=23  Identities=26%  Similarity=0.267  Sum_probs=20.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .-|++.|+||+|||++++++...
T Consensus        39 ~giLL~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2          39 RGILLYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceeEEecCCCCCchHHHHHHHHH
Confidence            35999999999999999999654

>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=94.99  E-value=0.005  Score=46.27  Aligned_cols=24  Identities=29%  Similarity=0.320  Sum_probs=20.8

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .+++.+.|++|+||||++..++..
T Consensus        35 ~~~lLl~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          35 LPHLLFYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             CCCEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCChhHHHHHHHHH
Confidence            346999999999999999999754

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.90  E-value=0.0056  Score=45.25  Aligned_cols=20  Identities=25%  Similarity=0.489  Sum_probs=18.5

Q ss_pred             EEEEeeCCCChhHHHhHHhc
Q psy6316          27 VCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~   46 (259)
                      |+|-|..||||||+++.|..
T Consensus         3 I~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999998864

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.74  E-value=0.0061  Score=46.05  Aligned_cols=22  Identities=18%  Similarity=0.513  Sum_probs=19.9

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .|+|-|..||||||+++.|...
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~~   25 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQL   25 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999998654

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=94.65  E-value=0.031  Score=42.21  Aligned_cols=22  Identities=27%  Similarity=0.256  Sum_probs=19.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .+++.|++|+||||++..+...
T Consensus        36 ~~Ll~Gp~G~GKtt~a~~~~~~   57 (239)
T d1njfa_          36 AYLFSGTRGVGKTSIARLLAKG   57 (239)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            4889999999999999988543

>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=94.62  E-value=0.0049  Score=47.57  Aligned_cols=22  Identities=27%  Similarity=0.353  Sum_probs=18.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .+.+.|+||+|||++++++...
T Consensus        48 ~l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          48 IYGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             EEECTTCCSSSHHHHHHHHHHH
T ss_pred             EEEeECCCCCCHHHHHHHHHHH
Confidence            3566799999999999999754

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.54  E-value=0.01  Score=46.35  Aligned_cols=25  Identities=12%  Similarity=0.046  Sum_probs=21.0

Q ss_pred             cccccEEEEEeeCCCChhHHHhHHh
Q psy6316          21 FMRAAIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        21 ~~r~~~I~v~G~~~~GKStlin~l~   45 (259)
                      .-++..|+|.|.+|+|||||...|.
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHHH
Confidence            3356789999999999999998774

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=94.34  E-value=0.02  Score=40.49  Aligned_cols=23  Identities=22%  Similarity=0.355  Sum_probs=20.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .|++-|+-|||||||++.++..-
T Consensus        35 ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          35 MVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEecCCCccHHHHHHHHHhhc
Confidence            48899999999999999997553

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.30  E-value=0.012  Score=43.62  Aligned_cols=22  Identities=18%  Similarity=0.243  Sum_probs=19.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      .-|+|-|..||||||+++.|..
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3488999999999999999864

>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=94.19  E-value=0.0099  Score=46.01  Aligned_cols=23  Identities=22%  Similarity=0.215  Sum_probs=20.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|++.|++|+|||+|++++.+.
T Consensus        42 ~giLL~Gp~GtGKT~l~~ala~~   64 (265)
T d1r7ra3          42 KGVLFYGPPGCGKTLLAKAIANE   64 (265)
T ss_dssp             CEEEEBCCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcchhHHHHHHHH
Confidence            45999999999999999999654

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=94.09  E-value=0.012  Score=44.52  Aligned_cols=21  Identities=19%  Similarity=0.308  Sum_probs=19.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .|+++|..||||||+.+.|..
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999999954

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=94.05  E-value=0.012  Score=42.39  Aligned_cols=22  Identities=23%  Similarity=0.326  Sum_probs=19.6

Q ss_pred             EEEEeeCCCChhHHHhHHhccc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~   48 (259)
                      |++.|++|+||||+.-.|....
T Consensus        17 vl~~G~sG~GKStlal~l~~~g   38 (176)
T d1kkma_          17 VLITGDSGVGKSETALELVQRG   38 (176)
T ss_dssp             EEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEEeCCCCCHHHHHHHHHHcC
Confidence            9999999999999999987553

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.99  E-value=0.014  Score=44.05  Aligned_cols=23  Identities=22%  Similarity=0.456  Sum_probs=20.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .-|+|=|..||||||+++.|...
T Consensus         3 k~IviEG~~GsGKST~~~~L~~~   25 (241)
T d2ocpa1           3 RRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHH
Confidence            45999999999999999999654

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=93.95  E-value=0.0022  Score=47.02  Aligned_cols=22  Identities=14%  Similarity=0.270  Sum_probs=19.2

Q ss_pred             ccEEEEEeeCCCChhHHHhHHh
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~   45 (259)
                      ++..+|+|+.|+||||++.+|.
T Consensus        24 ~~~tvi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          24 ELVTTLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHHHHHSCCSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHH
Confidence            4457889999999999999994

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=93.91  E-value=0.017  Score=41.69  Aligned_cols=22  Identities=27%  Similarity=0.314  Sum_probs=19.6

Q ss_pred             EEEEeeCCCChhHHHhHHhccc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~   48 (259)
                      |+|.|++|+||||+.-.|....
T Consensus        18 vli~G~sG~GKS~lal~l~~~G   39 (177)
T d1knxa2          18 VLLTGRSGIGKSECALDLINKN   39 (177)
T ss_dssp             EEEEESSSSSHHHHHHHHHTTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHcC
Confidence            8999999999999999987543

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=93.79  E-value=0.065  Score=39.48  Aligned_cols=21  Identities=14%  Similarity=0.221  Sum_probs=19.0

Q ss_pred             EEEEeeCCCChhHHHhHHhcc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~   47 (259)
                      +++.|++|+||||++..+...
T Consensus        27 lLl~Gp~G~GKtt~a~~~a~~   47 (207)
T d1a5ta2          27 LLIQALPGMGDDALIYALSRY   47 (207)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHh
Confidence            999999999999999988654

>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=93.78  E-value=0.015  Score=47.17  Aligned_cols=22  Identities=27%  Similarity=0.348  Sum_probs=19.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      +.+++.|+||+|||+|.++|.+
T Consensus       155 ~~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         155 RYWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999964

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.72  E-value=0.012  Score=46.19  Aligned_cols=21  Identities=24%  Similarity=0.659  Sum_probs=18.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHh
Q psy6316          25 AIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~   45 (259)
                      ..-+++|+.|+||||++.+|.
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHH
Confidence            457899999999999999984

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.71  E-value=0.016  Score=43.12  Aligned_cols=22  Identities=23%  Similarity=0.308  Sum_probs=18.4

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      -|+|-|..||||||+++.|...
T Consensus         5 lI~ieG~dGsGKsT~~~~L~~~   26 (209)
T d1nn5a_           5 LIVLEGVDRAGKSTQSRKLVEA   26 (209)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4788899999999988888543

>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=93.70  E-value=0.012  Score=48.19  Aligned_cols=24  Identities=25%  Similarity=0.398  Sum_probs=20.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..+++++|++|+|||+++..|...
T Consensus        43 k~n~llvG~~GvGKtaiv~~la~~   66 (387)
T d1qvra2          43 KNNPVLIGEPGVGKTAIVEGLAQR   66 (387)
T ss_dssp             CCCCEEEECTTSCHHHHHHHHHHH
T ss_pred             CCCCeEECCCCCCHHHHHHHHHHH
Confidence            456999999999999999888543

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=93.64  E-value=0.016  Score=47.58  Aligned_cols=26  Identities=23%  Similarity=0.220  Sum_probs=22.5

Q ss_pred             cccEEEEEeeCCCChhHHHhHHhccc
Q psy6316          23 RAAIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        23 r~~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ..+-|+|.|++|+||||+++.++..-
T Consensus       157 ~~GliLvtGpTGSGKSTTl~~~l~~~  182 (401)
T d1p9ra_         157 PHGIILVTGPTGSGKSTTLYAGLQEL  182 (401)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             hhceEEEEcCCCCCccHHHHHHhhhh
Confidence            35679999999999999999997653

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=93.45  E-value=0.011  Score=47.25  Aligned_cols=22  Identities=32%  Similarity=0.386  Sum_probs=19.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      .+|++.|+||+|||+|++++..
T Consensus        29 h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          29 GGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CCEEEECCGGGCTTHHHHHHHH
T ss_pred             CeEEEECCCCccHHHHHHHHHH
Confidence            3699999999999999999854

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.40  E-value=0.018  Score=42.19  Aligned_cols=24  Identities=38%  Similarity=0.472  Sum_probs=20.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ..+.|.|++|+|||+|+..++...
T Consensus        24 ~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          24 SITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHHH
Confidence            358999999999999998886543

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=93.39  E-value=0.021  Score=40.92  Aligned_cols=22  Identities=23%  Similarity=0.329  Sum_probs=19.4

Q ss_pred             EEEEeeCCCChhHHHhHHhccc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~   48 (259)
                      |++.|++|+||||+.-.|....
T Consensus        18 vli~G~sg~GKS~la~~l~~~g   39 (169)
T d1ko7a2          18 VLITGDSGIGKSETALELIKRG   39 (169)
T ss_dssp             EEEEESTTSSHHHHHHHHHHTT
T ss_pred             EEEEeCCCCCHHHHHHHHHHcC
Confidence            9999999999999998886553

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=93.17  E-value=0.086  Score=40.44  Aligned_cols=25  Identities=24%  Similarity=0.288  Sum_probs=20.4

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ..+.+.|++++|||||+-.++....
T Consensus        55 ~itei~G~~gsGKTtl~l~~~~~~q   79 (263)
T d1u94a1          55 RIVEIYGPESSGKTTLTLQVIAAAQ   79 (263)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEecCCCcHHHHHHHHHHHHHH
Confidence            3689999999999999888865443

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=93.02  E-value=0.13  Score=35.19  Aligned_cols=38  Identities=13%  Similarity=0.121  Sum_probs=26.8

Q ss_pred             EEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEeccccc
Q psy6316         122 ILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus       122 i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      ++.+|-.+-+...-...+..+...++++++.+=..|-.
T Consensus        82 vI~IDE~QFf~d~i~~~~~~~~~~g~~Viv~GLd~Df~  119 (139)
T d2b8ta1          82 VIGIDEVQFFDDRICEVANILAENGFVVIISGLDKNFK  119 (139)
T ss_dssp             EEEECSGGGSCTHHHHHHHHHHHTTCEEEEECCSBCTT
T ss_pred             EEEechhhhcchhHHHHHHHHHhcCceEEEEEeccccc
Confidence            56678555555444566778888899999887777754

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=92.99  E-value=0.023  Score=46.02  Aligned_cols=23  Identities=22%  Similarity=0.433  Sum_probs=20.5

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~   46 (259)
                      +.+|+++|++|+|||-|.++|..
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CcceeeeCCCCccHHHHHHHHHh
Confidence            56799999999999999999853

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.87  E-value=0.02  Score=46.73  Aligned_cols=20  Identities=20%  Similarity=0.604  Sum_probs=18.0

Q ss_pred             EEEEEeeCCCChhHHHhHHh
Q psy6316          26 IVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~   45 (259)
                      .-+|+|+.|+||||++.+|.
T Consensus        27 l~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          27 FTSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            46899999999999999984

>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=92.86  E-value=0.017  Score=42.46  Aligned_cols=22  Identities=18%  Similarity=0.161  Sum_probs=19.5

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      -+++.|++++|||+|+++|+.-
T Consensus        55 ~i~~~GP~~TGKS~f~~sl~~~   76 (205)
T d1tuea_          55 CLVFCGPANTGKSYFGMSFIHF   76 (205)
T ss_dssp             EEEEESCGGGCHHHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHHHHH
Confidence            5999999999999999988643

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.83  E-value=0.06  Score=40.13  Aligned_cols=23  Identities=30%  Similarity=0.489  Sum_probs=19.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..+.|.|++|+|||+|+..++..
T Consensus        35 ~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          35 SITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            36999999999999999888644

>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=92.72  E-value=0.027  Score=43.73  Aligned_cols=24  Identities=17%  Similarity=0.286  Sum_probs=20.7

Q ss_pred             ccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          24 AAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ...|++.|..|.|||||+..++..
T Consensus        44 ~~~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          44 SFFLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            346999999999999999998654

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=92.49  E-value=0.029  Score=44.70  Aligned_cols=26  Identities=19%  Similarity=0.243  Sum_probs=21.7

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhcc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      |+...|+|=|.-|+||||+++.|...
T Consensus         3 m~~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           3 MGVLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHH
Confidence            34445999999999999999999654

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=92.42  E-value=0.03  Score=44.35  Aligned_cols=23  Identities=30%  Similarity=0.512  Sum_probs=18.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++++.|+||+|||.|.++|.+.
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHH
Confidence            33555799999999999999654

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=92.28  E-value=0.033  Score=44.05  Aligned_cols=23  Identities=22%  Similarity=0.332  Sum_probs=20.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .+++++|++|+|||.|+..|...
T Consensus        53 ~~~lf~Gp~GvGKT~lak~la~~   75 (315)
T d1r6bx3          53 GSFLFAGPTGVGKTEVTVQLSKA   75 (315)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCcchhHHHHHHHHhh
Confidence            36999999999999999999643

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=92.26  E-value=0.031  Score=41.57  Aligned_cols=22  Identities=32%  Similarity=0.542  Sum_probs=19.7

Q ss_pred             EEEEeeCCCChhHHHhHHhccc
Q psy6316          27 VCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~~~~   48 (259)
                      +.+.|++|+|||.|+++++...
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~~   60 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNEA   60 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHh
Confidence            8899999999999999997653

>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=92.06  E-value=0.037  Score=41.67  Aligned_cols=23  Identities=35%  Similarity=0.496  Sum_probs=19.6

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..+.|.|+||+|||+|.-.++..
T Consensus        37 ~~~li~G~pGsGKT~~~lq~~~~   59 (254)
T d1pzna2          37 AITEVFGEFGSGKTQLAHTLAVM   59 (254)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHH
Confidence            36999999999999998888644

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.97  E-value=0.044  Score=40.65  Aligned_cols=23  Identities=26%  Similarity=0.326  Sum_probs=19.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .-|+|=|..||||||+++.|...
T Consensus         4 k~I~iEG~DGsGKST~~~~L~~~   26 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILYKK   26 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHHHHH
Confidence            34999999999999999988643

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=91.89  E-value=0.039  Score=45.37  Aligned_cols=27  Identities=30%  Similarity=0.348  Sum_probs=22.0

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHhccc
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ....+++|+|.+|+|||+++..++...
T Consensus        48 ~~~~H~~I~G~tGsGKT~~l~~li~~~   74 (433)
T d1e9ra_          48 AEPRHLLVNGATGTGKSVLLRELAYTG   74 (433)
T ss_dssp             GGGGCEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cccceEEEEeCCCCcHHHHHHHHHHHH
Confidence            335679999999999999998886443

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=91.75  E-value=0.48  Score=36.12  Aligned_cols=23  Identities=22%  Similarity=0.242  Sum_probs=19.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhccc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      .+-+.|++++|||+|+-.++...
T Consensus        59 itei~G~~~sGKT~l~l~~~~~a   81 (268)
T d1xp8a1          59 ITEIYGPESGGKTTLALAIVAQA   81 (268)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEecCCccchHHHHHHHHHHH
Confidence            68999999999999998886543

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=91.63  E-value=0.045  Score=41.03  Aligned_cols=25  Identities=24%  Similarity=0.434  Sum_probs=21.0

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTNV   49 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~~   49 (259)
                      ..+.|.|+||+|||+|+..+.....
T Consensus        27 sl~li~G~pGsGKT~l~~qia~~~~   51 (242)
T d1tf7a2          27 SIILATGATGTGKTLLVSRFVENAC   51 (242)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            4599999999999999998865543

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=91.31  E-value=0.05  Score=40.62  Aligned_cols=24  Identities=21%  Similarity=0.281  Sum_probs=20.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhccc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRTN   48 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~~   48 (259)
                      ..+.|.|++|+|||+|+..++...
T Consensus        35 ~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          35 SVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHH
Confidence            458999999999999999886543

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=91.28  E-value=0.046  Score=41.99  Aligned_cols=21  Identities=14%  Similarity=0.254  Sum_probs=18.2

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .++|.|+||+|||+|+..+..
T Consensus        37 l~vi~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          37 VIMVTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            588999999999999888853

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=90.77  E-value=0.38  Score=36.76  Aligned_cols=21  Identities=19%  Similarity=0.303  Sum_probs=18.2

Q ss_pred             cEEEEEeeCCCChhHHHhHHh
Q psy6316          25 AIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~   45 (259)
                      ..+.+.|++++|||+|+-.++
T Consensus        61 ~i~e~~G~~~~GKT~l~l~~~   81 (269)
T d1mo6a1          61 RVIEIYGPESSGKTTVALHAV   81 (269)
T ss_dssp             SEEEEECSSSSSHHHHHHHHH
T ss_pred             eeEEEecCCCcHHHHHHHHHH
Confidence            468999999999999987775

>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=90.46  E-value=0.087  Score=39.45  Aligned_cols=22  Identities=36%  Similarity=0.451  Sum_probs=19.6

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .+.|.|++|+|||+|.-.++..
T Consensus        39 ~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          39 ITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             EEEEECCTTCTHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999888653

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=90.28  E-value=0.071  Score=39.42  Aligned_cols=21  Identities=29%  Similarity=0.191  Sum_probs=17.7

Q ss_pred             cEEEEEeeCCCChhHHHhHHh
Q psy6316          25 AIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~   45 (259)
                      ..+.|.|++|+|||+|+..++
T Consensus        27 ~~~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          27 RSTLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             SEEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHH
Confidence            358999999999999987664

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=89.97  E-value=0.083  Score=40.85  Aligned_cols=22  Identities=27%  Similarity=0.415  Sum_probs=18.5

Q ss_pred             ccccEEEEEeeCCCChhHHHhHHh
Q psy6316          22 MRAAIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        22 ~r~~~I~v~G~~~~GKStlin~l~   45 (259)
                      ||  +|++.|..|+||||+.-.|.
T Consensus         2 Mr--~IaisgKGGVGKTT~a~NLA   23 (289)
T d2afhe1           2 MR--QCAIYGKGGIGKSTTTQNLV   23 (289)
T ss_dssp             CE--EEEEEECTTSSHHHHHHHHH
T ss_pred             cc--EEEEECCCCCCHHHHHHHHH
Confidence            56  68899999999999877763

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=89.92  E-value=0.07  Score=42.44  Aligned_cols=23  Identities=13%  Similarity=0.120  Sum_probs=20.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      ..|.|=|..|+||||+++.|...
T Consensus         7 ~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           7 VRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHSG
T ss_pred             EEEEEECCccCCHHHHHHHHHHH
Confidence            34999999999999999999654

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=89.85  E-value=0.08  Score=40.44  Aligned_cols=22  Identities=14%  Similarity=0.199  Sum_probs=18.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ...+|+|++|+|||+|+-.|..
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~   51 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAA   51 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHH
Confidence            3577999999999999988753

>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=89.78  E-value=0.073  Score=40.93  Aligned_cols=22  Identities=27%  Similarity=0.517  Sum_probs=19.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      .-+.+.|++++|||+|++.|..
T Consensus       105 n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         105 NTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            3489999999999999999964

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=89.66  E-value=0.06  Score=42.75  Aligned_cols=21  Identities=29%  Similarity=0.213  Sum_probs=19.0

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .|+|=|.-|+||||+++.|..
T Consensus         6 rI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           6 RVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEECSCTTSSHHHHHHHHTC
T ss_pred             EEEEECCcCCCHHHHHHHHHH
Confidence            399999999999999999954

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.36  E-value=0.1  Score=34.79  Aligned_cols=22  Identities=5%  Similarity=0.018  Sum_probs=19.5

Q ss_pred             cEEEEEeeCCCChhHHHhHHhc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~   46 (259)
                      ..|.+.|..|+||||+.++|..
T Consensus         7 f~i~~tg~~~~gk~~ia~al~~   28 (122)
T d1g8fa3           7 FSIVLGNSLTVSREQLSIALLS   28 (122)
T ss_dssp             EEEEECTTCCSCHHHHHHHHHH
T ss_pred             eEEEEeCCCCCCHHHHHHHHHH
Confidence            4599999999999999999953

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=88.17  E-value=0.089  Score=40.70  Aligned_cols=17  Identities=29%  Similarity=0.501  Sum_probs=14.3

Q ss_pred             cEEEEEeeCCCChhHHH
Q psy6316          25 AIVCVLGHVDTGKTKIL   41 (259)
Q Consensus        25 ~~I~v~G~~~~GKStli   41 (259)
                      ..++|+|.+|+||||.+
T Consensus        15 ~~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             SEEEECCCTTSCHHHHH
T ss_pred             CCEEEEeeCCccHHHHH
Confidence            34889999999999864

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=87.81  E-value=0.12  Score=40.79  Aligned_cols=22  Identities=32%  Similarity=0.418  Sum_probs=19.3

Q ss_pred             EEEEEeeCCCChhHHHhHHhcc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .++++|++|+|||.+.+.|...
T Consensus        55 ~~lf~Gp~G~GKt~lak~la~~   76 (315)
T d1qvra3          55 SFLFLGPTGVGKTELAKTLAAT   76 (315)
T ss_dssp             EEEEBSCSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCcchHHHHHHHHHHH
Confidence            5889999999999999998644

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=87.12  E-value=0.16  Score=40.71  Aligned_cols=21  Identities=38%  Similarity=0.466  Sum_probs=18.1

Q ss_pred             ccEEEEEeeCCCChhHHHhHH
Q psy6316          24 AAIVCVLGHVDTGKTKILDKL   44 (259)
Q Consensus        24 ~~~I~v~G~~~~GKStlin~l   44 (259)
                      .+..+|.|.+|+||||++..+
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHHH
Confidence            567999999999999988654

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=86.71  E-value=0.14  Score=39.94  Aligned_cols=16  Identities=25%  Similarity=0.553  Sum_probs=13.9

Q ss_pred             EEEEEeeCCCChhHHH
Q psy6316          26 IVCVLGHVDTGKTKIL   41 (259)
Q Consensus        26 ~I~v~G~~~~GKStli   41 (259)
                      .++|.|.+|+||||.+
T Consensus        26 ~~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVL   41 (318)
T ss_dssp             CEEEEECTTSCHHHHH
T ss_pred             CEEEEecCCccHHHHH
Confidence            3889999999999764

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=86.12  E-value=0.19  Score=38.60  Aligned_cols=38  Identities=11%  Similarity=0.055  Sum_probs=24.8

Q ss_pred             CeEEEEEeCCCCCCHHHHHHHHHHHhCCCCE-EEEEecc
Q psy6316         119 DIAILVVDIMHGLEPQTIESINILKSKKTPF-VVALNKI  156 (259)
Q Consensus       119 d~~i~v~d~~~~~~~~~~~~l~~~~~~~~pi-ivv~NK~  156 (259)
                      +.+++|..++........+.+..++..++|+ -+|+||.
T Consensus       199 t~~~lVt~pe~~~~~~~~r~~~~l~~~gi~~~~vVvN~v  237 (296)
T d1ihua1         199 TRLVLVARLQKSTLQEVARTHLELAAIGLKNQYLVINGV  237 (296)
T ss_dssp             EEEEEEEESCHHHHHHHHHHHHHHHHHTCCCEEEEEEEE
T ss_pred             ceeeEecCcchhHHHHHHHHHHHHHhcCCCceEEEEcCC
Confidence            4567777664322233455677778888886 4788996

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=86.00  E-value=0.22  Score=38.54  Aligned_cols=23  Identities=17%  Similarity=0.303  Sum_probs=19.9

Q ss_pred             cEEEEEeeCCCChhHHHhHHhcc
Q psy6316          25 AIVCVLGHVDTGKTKILDKLRRT   47 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~~~   47 (259)
                      .+++++|.+|+|||+|+..+...
T Consensus        44 Qr~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          44 QRGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CeeeEeCCCCCCHHHHHHHHHHH
Confidence            34999999999999999988653

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=84.94  E-value=0.23  Score=37.81  Aligned_cols=21  Identities=19%  Similarity=0.466  Sum_probs=17.3

Q ss_pred             cEEEEEeeCCCChhHHHhHHh
Q psy6316          25 AIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~   45 (259)
                      ..|++.|..|+||||+.-.|.
T Consensus        21 ~iii~sGKGGVGKTT~a~nLA   41 (279)
T d1ihua2          21 GLIMLMGKGGVGKTTMAAAIA   41 (279)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            457788999999999877773

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=84.04  E-value=1.4  Score=29.78  Aligned_cols=44  Identities=11%  Similarity=0.138  Sum_probs=29.1

Q ss_pred             hccCCCeEEEEEeCCCCCCHHHHHHHHHHHhCCCCEEEEEeccccc
Q psy6316         114 GSSLCDIAILVVDIMHGLEPQTIESINILKSKKTPFVVALNKIDRL  159 (259)
Q Consensus       114 ~~~~ad~~i~v~d~~~~~~~~~~~~l~~~~~~~~piivv~NK~D~~  159 (259)
                      ..+.+|+  +.+|-.+-+.......+..+...++++++.+=..|-.
T Consensus        77 ~~~~~dv--I~IDE~QFf~d~~~~~~~~l~~~g~~Viv~GLd~Df~  120 (141)
T d1xx6a1          77 FEEDTEV--IAIDEVQFFDDEIVEIVNKIAESGRRVICAGLDMDFR  120 (141)
T ss_dssp             CCTTCSE--EEECSGGGSCTHHHHHHHHHHHTTCEEEEEECSBCTT
T ss_pred             hcccccE--EEEeehhhccccHHHHHHhheeCCcEEEEEEeccccc
Confidence            3455664  5557555555444566777888899998887777754

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=82.33  E-value=0.36  Score=36.06  Aligned_cols=21  Identities=14%  Similarity=0.262  Sum_probs=18.8

Q ss_pred             cEEEEEeeCCCChhHHHhHHh
Q psy6316          25 AIVCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        25 ~~I~v~G~~~~GKStlin~l~   45 (259)
                      ..+++.|+..+||||+++.+.
T Consensus        42 ~~~iiTGpN~~GKSt~lk~i~   62 (234)
T d1wb9a2          42 RMLIITGPNMGGKSTYMRQTA   62 (234)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEeccCchhhHHHHHHHH
Confidence            458999999999999999984

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=82.25  E-value=0.32  Score=36.64  Aligned_cols=19  Identities=21%  Similarity=0.365  Sum_probs=17.7

Q ss_pred             EEEEeeCCCChhHHHhHHh
Q psy6316          27 VCVLGHVDTGKTKILDKLR   45 (259)
Q Consensus        27 I~v~G~~~~GKStlin~l~   45 (259)
                      |.+.|++|+||+.+.+.|.
T Consensus        26 vlI~Ge~GtGK~~~A~~ih   44 (247)
T d1ny5a2          26 VLITGESGVGKEVVARLIH   44 (247)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            8999999999999999885

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=80.08  E-value=0.42  Score=35.40  Aligned_cols=21  Identities=24%  Similarity=0.333  Sum_probs=18.7

Q ss_pred             EEEEEeeCCCChhHHHhHHhc
Q psy6316          26 IVCVLGHVDTGKTKILDKLRR   46 (259)
Q Consensus        26 ~I~v~G~~~~GKStlin~l~~   46 (259)
                      .+++.|+..+||||+++.+.-
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~l   57 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTAL   57 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHHH
T ss_pred             EEEEECCCccccchhhhhhHH
Confidence            489999999999999998843