Citrus Sinensis ID: 016622

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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-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380------
Protein Sequence
MQLLHAPCWPHLPFQGCKSPSILALVPPDRFLQLSAINFSLHPSKLEKSIWVSHRPSIFGCGSTNATSVEVSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYMI
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccHHHHHcccccccccccccccEEEccccccccccccccccccccccccHHHHHHHHcccccccccccccccccccEEEEEccccEEEEEEEEccccccHHHHHHHHHHHHHHcccccEEEEEEEEEcccccccccccccccccccEEEEEEcccccccHHHHHHHHHHHHHHccccEEEEcccccccccccccccccccccccccccEEEcccccccEEEEEcccccccEEEEcHHHHHHHHHHHHccccccccEEEEEcccccHHHHHHHHccccccEEEEEcccHHHHHHHHHHHHHHHHcccccEEEEEcccccccccccccccccccHHHHHHHHHcccEEEcccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccEEEccEEEEEEEEEEcccccccccEEEEccccEEEEEcccccccccccccccHHHHHHHHHccccccccccEEEcccEEEEEEEccccEEEEEEEEcccccHHHHHHHHHHHHHHHHcccccEEEEEEEEcccccccccccccccccccEEEEEEcccccccHHHHHHHHHHHHHHccccEEEEEEcccccccccEcccccccccccccccEEEEHHHccEEEEEEcEcccccEEEccHHHHHHHHHHHHHcccccccEEEEEcccccccHHEHHHcccccEEEEEEEcHHHHHHHHHHHHHHHHHHccccEEEEEEccEEEEccccccccccccHHHHHHHHccccEcccccccccHHHcc
Coil and Loop (DISEMBL)
mqllhapcwphlpfqgckspsilalvppdrflqlsainfslhpskleksiwvshrpsifgcgstnatSVEVSTGTAENDVLKALSQiidpdfgtdivscgFVKDMQINEALGEVSFRlelttpacpikdMFEQRANEVVLAIPWvnkvnvtmsaqparpifaeQLPEGLQKISNIVAVssckggvgkSTVAVNLAYTLAGMGarvgifdadvygpslptmvspenrllemnpekrtiipteyLGVKLVsfgfsgqgraimrgpmVSGVINQLLTTTEWGELDYlvidmppgtgdiqltlcqvvPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVEnmchfdadgkryypfgrgsgsqvvqqfgiphlfdlpirptvsymi
Flexible Loop (DISEMBL)
MQLLHAPCWPHLPFQGCKSPSILALVPPDRFLQLSAINFSLHPSKLEKSIWVSHRPSIFGCGSTNATSVEVSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGiphlfdlpirptvsymi
Low Complexity Region (SEG)
MQLLHAPCWPHLPFQGCKSPSILALVPPDRFLQLSAINFSLHPSKLEKSIWVSHRPSIFGCGSTNATSVEVSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYMI
Disordered region (IsUnstruct)
***LHAPCWPHLPFQGCKSPSILALVPPDRFLQLSAINFSLHPSKLEKSIWVSHRPSIFGCGSTNATSVEVSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMV******L****EKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTV****
Disordered Region (DISOPRED)
************************LVPPDRFLQLSAINF****************************************VLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTM*********************NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSP*************IIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM*
Disordered Region (DISEMBL)
MQLLHAPCWPHLPFQGCKSPSILALVPPDRFLQLSAINFSLHPSKLEKSIWVSHRPSIFGCGSTNATSVEVSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYMI
Disordered Region (DISPRO)
********************SILALVPPDRFLQLSAINFSLHPSKLEKSIWVSHRPSIFGCGST**********TAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTV****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQLLHAPCWPHLPFQGCKSPSILALVPPDRFLQLSAINFSLHPSKLEKSIWVSHRPSIFGCGSTNATSVEVSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYMI
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	386	2.2.26 [Sep-21-2011]
P53383	353	Protein mrp homolog OS=Sy	N/A	no	0.769	0.841	0.411	3e-56
Q9RVM9	350	Protein mrp homolog OS=De	yes	no	0.738	0.814	0.432	2e-52
Q9ZMM5	368	Protein mrp homolog OS=He	yes	no	0.782	0.820	0.379	4e-52
O24999	368	Protein mrp homolog OS=He	no	no	0.782	0.820	0.376	1e-51
P45135	370	Protein mrp homolog OS=Ha	yes	no	0.735	0.767	0.388	7e-50
P72190	287	Uncharacterized ATP-bindi	N/A	no	0.554	0.745	0.511	2e-47
Q54F15	323	Iron-sulfur protein NUBPL	yes	no	0.546	0.653	0.460	3e-47
P0AF08	369	Protein mrp OS=Escherichi	N/A	no	0.546	0.571	0.467	2e-46
P0AF09	369	Protein mrp OS=Escherichi	yes	no	0.546	0.571	0.467	2e-46
O66946	364	Protein mrp homolog OS=Aq	yes	no	0.777	0.824	0.369	4e-45

>sp|P53383|MRP_SYNY3 Protein mrp homolog OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=mrp PE=3 SV=1

 Score =  219 bits (557), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 128/311 (41%), Positives = 190/311 (61%), Gaps = 14/311 (4%)

Query: 78  NDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANE 137
           + VL  L  + DP+    +V    ++D+ I  A G VSF L LTTPACP+++   +   +
Sbjct: 5   DAVLTVLRPVQDPELQKSLVELNMIRDVAI--AGGTVSFTLVLTTPACPLREFIVEDCEK 62

Query: 138 VVLAIPWVNKVNVTMSAQPARPIFAEQLP--EGLQKISNIVAVSSCKGGVGKSTVAVNLA 195
            V  +P V KV V ++A+  +    + LP  + + ++ NI+A+SS KGGVGKSTVAVN+A
Sbjct: 63  AVKTLPGVEKVEVKVTAETPQ---QKSLPDRQSVGQVKNIIAISSGKGGVGKSTVAVNVA 119

Query: 196 YTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEM--NPEKRTIIPTEYLGVKLVSFGF- 252
             LA  GA VG+ DAD+YGP+ PTM+      +++  +P+   + P    G+K+VS GF 
Sbjct: 120 VALAQTGAAVGLLDADIYGPNAPTMLGLSGAAVQVQNSPQGEVLEPVFNHGIKMVSMGFL 179

Query: 253 -SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIV 311
                  I RGPM++G+I Q L    WG LDYL++DMPPGTGD QLTL Q VP+  AVIV
Sbjct: 180 IDPDQPVIWRGPMLNGIIRQFLYQVNWGALDYLIVDMPPGTGDAQLTLTQSVPMAGAVIV 239

Query: 312 TTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHF---DADGKRYYPFGRGSGSQVVQQF 368
           TTPQ ++ +D  +G++MF ++ V  + +VENM +F   D   ++Y  FG G G +  ++ 
Sbjct: 240 TTPQTVSLLDARRGLKMFQQMGVNVLGIVENMSYFIPPDLPDRQYDLFGSGGGEKASKEL 299

Query: 369 GIPHLFDLPIR 379
            +P L  +P+ 
Sbjct: 300 NVPLLGCVPLE 310

Synechocystis sp. (strain PCC 6803 / Kazusa) (taxid: 1111708)

>sp|Q9RVM9|MRP_DEIRA Protein mrp homolog OS=Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422) GN=mrp PE=3 SV=1

 Score =  206 bits (525), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 135/312 (43%), Positives = 188/312 (60%), Gaps = 27/312 (8%)

Query: 78  ND-VLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRAN 136
           ND +L+ALS + DP+   D+VS G ++  +++  + +V  ++ LTTPACP+K   E    
Sbjct: 2   NDALLRALSTVNDPELHRDLVSLGMIERAELSGDVAQV--KVNLTTPACPLKGQIELDVR 59

Query: 137 EVVLAIPWVNKVNVTMSA------QPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTV 190
             +L +P V  V +   A      QPA P            + ++V V S KGGVGKS+V
Sbjct: 60  SALLQVPGVRDVQIEFGAMVRAATQPALP-----------GVKHVVLVGSGKGGVGKSSV 108

Query: 191 AVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSF 250
           AVNLA +LA  GARVG+ DADVYGPS+  M+      +  N E R + P E  GV+ +S 
Sbjct: 109 AVNLAASLARDGARVGLLDADVYGPSVAHMLGQGQARVTAN-EDRKMRPIEAHGVRFISM 167

Query: 251 G-FSGQGRAIM-RGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAA 308
              S  G+A++ RGPM+   I Q L  + WGELDYL++D+PPGTGD+QL+L Q V +T A
Sbjct: 168 ANLSPAGQALVWRGPMLHSAIQQFLKDSAWGELDYLIVDLPPGTGDVQLSLTQTVQVTGA 227

Query: 309 VIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA--DGKRYYPFGRGSGSQVVQ 366
           VIVTTPQ +A ID A+ + MF K  VP + VVENM +F A   G  Y  FGRG   ++ +
Sbjct: 228 VIVTTPQDVALIDAARAIDMFRKASVPVLGVVENMSYFVAPDTGLTYDIFGRGGSRKLGE 287

Query: 367 QFGIPHLFDLPI 378
           Q+  P L ++P+
Sbjct: 288 QY--PLLGEIPL 297

Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422) (taxid: 243230)

>sp|Q9ZMM5|MRP_HELPJ Protein mrp homolog OS=Helicobacter pylori (strain J99) GN=mrp PE=3 SV=1

 Score =  205 bits (522), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 118/311 (37%), Positives = 185/311 (59%), Gaps = 9/311 (2%)

Query: 77  ENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRAN 136
           + DVL AL  II P+F  DIVS GFVK++ +++   ++   +E+ + +     +  +  +
Sbjct: 4   QEDVLNALKTIIYPNFEKDIVSFGFVKNITLHD--NQLGLLIEIPSSSEETSAILRENIS 61

Query: 137 EVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQK-ISNIVAVSSCKGGVGKSTVAVNLA 195
           +  +    V  +N+ +   P +P   +   + L K I ++V +SS KGGVGKST +VNL+
Sbjct: 62  KA-MQEKGVKALNLDIKT-PPKPQAPKPTTKNLAKNIKHVVMISSGKGGVGKSTTSVNLS 119

Query: 196 YTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF-SG 254
             LA +  +VG+ DADVYGP++P M+  +N  + M+P  + +IP +  GV ++S G    
Sbjct: 120 IALANLNQKVGLLDADVYGPNIPRMMGLQNADVIMDPSGKKLIPLKAFGVSVMSMGLLYD 179

Query: 255 QGRAIM-RGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTT 313
           +G++++ RGPM+   I Q+L+   WG+LD LV+DMPPGTGD QLTL Q VPL+A + VTT
Sbjct: 180 EGQSLIWRGPMLMRAIEQMLSDIIWGDLDVLVVDMPPGTGDAQLTLAQAVPLSAGITVTT 239

Query: 314 PQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDAD--GKRYYPFGRGSGSQVVQQFGIP 371
           PQ ++  D  + + MF KL +P   +VENM  F  +   K    FG  S S +++ +   
Sbjct: 240 PQIVSLDDAKRSLDMFKKLHIPIAGIVENMGSFVCEHCKKESEIFGSNSMSGLLEAYNTQ 299

Query: 372 HLFDLPIRPTV 382
            L  LP+ P V
Sbjct: 300 ILAKLPLEPKV 310

Helicobacter pylori (strain J99) (taxid: 85963)

>sp|O24999|MRP_HELPY Protein mrp homolog OS=Helicobacter pylori (strain ATCC 700392 / 26695) GN=mrp PE=3 SV=2

 Score =  204 bits (518), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 117/311 (37%), Positives = 186/311 (59%), Gaps = 9/311 (2%)

Query: 77  ENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRAN 136
           + DVL AL  II P+F  DIVS GFVK++ +++   ++   +E+ + +     +  +  +
Sbjct: 4   QEDVLNALKTIIYPNFEKDIVSFGFVKNITLHD--DQLGLLIEIPSSSEETSAILRENIS 61

Query: 137 EVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQK-ISNIVAVSSCKGGVGKSTVAVNLA 195
           +  +    V  +N+ +   P +P   +   + L K I ++V +SS KGGVGKST +VNL+
Sbjct: 62  KA-MQEKGVKALNLDIKT-PPKPQAPKPTTKNLAKNIKHVVMISSGKGGVGKSTTSVNLS 119

Query: 196 YTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF-SG 254
             LA +  +VG+ DADVYGP++P M+  ++  + M+P  + +IP +  GV ++S G    
Sbjct: 120 IALANLNQKVGLLDADVYGPNIPRMMGLQSADVIMDPSGKKLIPLKAFGVSVMSMGLLYD 179

Query: 255 QGRAIM-RGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTT 313
           +G++++ RGPM+   I Q+L+   WG+LD LV+DMPPGTGD QLTL Q VPL+A + VTT
Sbjct: 180 EGQSLIWRGPMLMRAIEQMLSDIIWGDLDVLVVDMPPGTGDAQLTLAQAVPLSAGITVTT 239

Query: 314 PQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDAD--GKRYYPFGRGSGSQVVQQFGIP 371
           PQ ++  D  + + MF KL +P   +VENM  F  +   K    FG  S S++++ +   
Sbjct: 240 PQIVSLDDAKRSLDMFKKLHIPIAGIVENMGSFVCEHCKKESEIFGSNSMSELLEAYHTQ 299

Query: 372 HLFDLPIRPTV 382
            L  LP+ P V
Sbjct: 300 ILAKLPLEPKV 310

Helicobacter pylori (strain ATCC 700392 / 26695) (taxid: 85962)

>sp|P45135|MRP_HAEIN Protein mrp homolog OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=mrp PE=3 SV=2

 Score =  198 bits (503), Expect = 7e-50,   Method: Compositional matrix adjust.
 Identities = 115/296 (38%), Positives = 168/296 (56%), Gaps = 12/296 (4%)

Query: 90  PDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPAC--PIKDMFEQRANEVVLAIPWVNK 147
           P    D++    +K ++     G  + R+EL  P       +  +Q  ++ +L       
Sbjct: 27  PTLQKDLIVLNTLKKVE----KGGDTLRIELQLPFAWNSGAEQLKQAVSDALLKATDCKL 82

Query: 148 VNVTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGI 207
           +   ++ Q A    A   P  ++ + NI+AVSS KGGVGKS+V+VNLA  L   GARVGI
Sbjct: 83  IKWAVAYQIATLKRANNQP-AVKGVKNIIAVSSGKGGVGKSSVSVNLALALQAQGARVGI 141

Query: 208 FDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF--SGQGRAIMRGPMV 265
            DAD+YGPS+P M+   ++    +P+ + I P +  G+   S GF  +     I RGPM 
Sbjct: 142 LDADIYGPSIPHMLGAADQR-PTSPDNQHITPIKAHGLSANSIGFLMNEDSATIWRGPMA 200

Query: 266 SGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKG 325
           S  ++QLL  T W  LDYLVIDMPPGTGDIQLTL Q +P+T AV+VTTPQ +A +D  KG
Sbjct: 201 SSALSQLLNETLWDSLDYLVIDMPPGTGDIQLTLSQQIPVTGAVVVTTPQDIALLDAVKG 260

Query: 326 VRMFSKLKVPCIAVVENMC-HFDAD-GKRYYPFGRGSGSQVVQQFGIPHLFDLPIR 379
           + MF ++ VP + +VENM  H  ++ G     FG G   ++ +++ +  L  LP+ 
Sbjct: 261 ISMFERVSVPVLGIVENMSMHICSECGHHEAIFGTGGAEKMAEKYNVKVLAQLPLH 316

Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) (taxid: 71421)

>sp|P72190|YCAB_PSEFR Uncharacterized ATP-binding protein in capB 3'region OS=Pseudomonas fragi PE=3 SV=1

 Score =  190 bits (482), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 112/219 (51%), Positives = 140/219 (63%), Gaps = 5/219 (2%)

Query: 164 QLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSP 223
           Q+P GL  + NIVAV+S KGGVGKST A NLA  LA  GARVGI DAD+YGPS   M   
Sbjct: 31  QIP-GLANVKNIVAVASGKGGVGKSTTAANLALALAREGARVGILDADIYGPSQGVMFGI 89

Query: 224 ENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIM--RGPMVSGVINQLLTTTEWGEL 281
                    +++  +P E  GV+++S  F       M  RGPMVSG + QL+T T W +L
Sbjct: 90  AEGTRPKIRDQKWFVPIEAHGVEVMSMAFLTDDNTPMVWRGPMVSGALLQLVTQTAWNDL 149

Query: 282 DYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVE 341
           DYLVIDMPPGTGDIQLTL Q VP+  +VIVTTPQ LA +D  KGV MF K+ +P + VVE
Sbjct: 150 DYLVIDMPPGTGDIQLTLAQKVPVAGSVIVTTPQDLALLDARKGVEMFRKVNIPVLGVVE 209

Query: 342 NMC-HFDAD-GKRYYPFGRGSGSQVVQQFGIPHLFDLPI 378
           NM  H  ++ G   + FG G G ++  Q+G+  L  LP+
Sbjct: 210 NMAVHICSNCGHAEHLFGEGGGEKLATQYGVEVLASLPL 248

Pseudomonas fragi (taxid: 296)

>sp|Q54F15|NUBPL_DICDI Iron-sulfur protein NUBPL OS=Dictyostelium discoideum GN=nubpl PE=3 SV=1

 Score =  189 bits (480), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 99/215 (46%), Positives = 133/215 (61%), Gaps = 4/215 (1%)

Query: 169 LQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLL 228
           ++ I NI+AVSS KGGVGKST AVN+A  L+     VG+ D DV+GPS+P M+  +N   
Sbjct: 53  IEGIKNIIAVSSAKGGVGKSTCAVNIALGLSSHNLSVGLLDVDVFGPSIPLMMDLKNHEK 112

Query: 229 EMNPEKRTIIPTEYLGVKLVSFGF--SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVI 286
               E   +IP +  G+K +S GF  +     I RGPMV   + +LL  T+WG LD LV 
Sbjct: 113 PFTNELNQMIPLQNYGIKCMSMGFLVNEDDPIIWRGPMVGSALEKLLRQTDWGHLDVLVC 172

Query: 287 DMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHF 346
           D+PPGTGD  LT+CQ VPLT AVIV+TPQ +A  DV +GV MF K++VP + +VENM +F
Sbjct: 173 DLPPGTGDAILTMCQRVPLTGAVIVSTPQDVALADVVRGVNMFKKVEVPILGLVENMSYF 232

Query: 347 DAD--GKRYYPFGRGSGSQVVQQFGIPHLFDLPIR 379
           +     +  + FG        ++ GI  L D+PI 
Sbjct: 233 NCPHCNESTHIFGNEGAKNTAKKMGINFLGDVPIH 267

Required for the assembly of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I). May deliver of one or more Fe-S clusters to complex I subunits.

Dictyostelium discoideum (taxid: 44689)

>sp|P0AF08|MRP_ECOLI Protein mrp OS=Escherichia coli (strain K12) GN=mrp PE=3 SV=1

 Score =  187 bits (474), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 101/216 (46%), Positives = 140/216 (64%), Gaps = 5/216 (2%)

Query: 168 GLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL 227
           G+  + NI+AVSS KGGVGKS+ AVNLA  LA  GA+VGI DAD+YGPS+PTM+  EN+ 
Sbjct: 102 GINGVKNIIAVSSGKGGVGKSSTAVNLALALAAEGAKVGILDADIYGPSIPTMLGAENQR 161

Query: 228 LEMNPEKRTIIPTEYLGVKLVSFGF--SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLV 285
              +P+   + P    G+   S G+  +     + RGPM S  + Q+L  T W +LDYLV
Sbjct: 162 -PTSPDGTHMAPIMSHGLATNSIGYLVTDDNAMVWRGPMASKALMQMLQETLWPDLDYLV 220

Query: 286 IDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMC- 344
           +DMPPGTGDIQLTL Q +P+T AV+VTTPQ +A ID  KG+ MF K++VP + +VENM  
Sbjct: 221 LDMPPGTGDIQLTLAQNIPVTGAVVVTTPQDIALIDAKKGIVMFEKVEVPVLGIVENMSV 280

Query: 345 HFDADGKRYYP-FGRGSGSQVVQQFGIPHLFDLPIR 379
           H  ++   + P FG G   ++ +++    L  +P+ 
Sbjct: 281 HICSNCGHHEPIFGTGGAEKLAEKYHTQLLGQMPLH 316

Escherichia coli (strain K12) (taxid: 83333)

>sp|P0AF09|MRP_ECOL6 Protein mrp OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=mrp PE=3 SV=1

 Score =  187 bits (474), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 101/216 (46%), Positives = 140/216 (64%), Gaps = 5/216 (2%)

Query: 168 GLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL 227
           G+  + NI+AVSS KGGVGKS+ AVNLA  LA  GA+VGI DAD+YGPS+PTM+  EN+ 
Sbjct: 102 GINGVKNIIAVSSGKGGVGKSSTAVNLALALAAEGAKVGILDADIYGPSIPTMLGAENQR 161

Query: 228 LEMNPEKRTIIPTEYLGVKLVSFGF--SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLV 285
              +P+   + P    G+   S G+  +     + RGPM S  + Q+L  T W +LDYLV
Sbjct: 162 -PTSPDGTHMAPIMSHGLATNSIGYLVTDDNAMVWRGPMASKALMQMLQETLWPDLDYLV 220

Query: 286 IDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMC- 344
           +DMPPGTGDIQLTL Q +P+T AV+VTTPQ +A ID  KG+ MF K++VP + +VENM  
Sbjct: 221 LDMPPGTGDIQLTLAQNIPVTGAVVVTTPQDIALIDAKKGIVMFEKVEVPVLGIVENMSV 280

Query: 345 HFDADGKRYYP-FGRGSGSQVVQQFGIPHLFDLPIR 379
           H  ++   + P FG G   ++ +++    L  +P+ 
Sbjct: 281 HICSNCGHHEPIFGTGGAEKLAEKYHTQLLGQMPLH 316

Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) (taxid: 199310)

>sp|O66946|MRP_AQUAE Protein mrp homolog OS=Aquifex aeolicus (strain VF5) GN=mrp PE=3 SV=1

 Score =  182 bits (462), Expect = 4e-45,   Method: Compositional matrix adjust.
 Identities = 123/333 (36%), Positives = 189/333 (56%), Gaps = 33/333 (9%)

Query: 76  AENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRA 135
           A  DV++AL +    D G +      VKD+++   +G V   +    P   ++D+   + 
Sbjct: 2   AVQDVIEALKKETLEDVGINQNLAQLVKDIKM---VGNV-LTIVFEPPKQGLEDIIRAKV 57

Query: 136 NEVVLAIPWVNKVNVTMSAQPAR--------------------PIFAEQLPEGLQKISNI 175
            + +  +P V K++V      A+                    P+F  +   G   + +I
Sbjct: 58  IDALGNLPEVQKIDVKFVKPQAQIPVKQQAPQQQQTPPPQTQQPMFTRKKVPG---VKHI 114

Query: 176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKR 235
           +AV S KGGVGKSTVA NLA  L+ +G +VG+ DADVYGPS+PT+   +   + ++  +R
Sbjct: 115 IAVGSGKGGVGKSTVAANLAVALSQLGYKVGLLDADVYGPSVPTLFGLKGERVTVDQFQR 174

Query: 236 TIIPTEYLGVKLVSFGF---SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGT 292
            IIP E  G+K++S GF   S     I RGPM+   + + L +T+WG LD+LV+D+PPGT
Sbjct: 175 -IIPVEKYGLKILSIGFMLPSEDTPIIWRGPMLMKALTEFLFSTKWGNLDFLVMDLPPGT 233

Query: 293 GDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHF--DADG 350
           GD+Q+TL Q V LT AV+VTTPQ +A  DV K V MF ++ +P + V+ENM +F   +D 
Sbjct: 234 GDVQITLAQNVELTGAVVVTTPQDVALADVKKAVSMFREVNIPVLGVIENMAYFICPSDK 293

Query: 351 KRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVS 383
           ++YY FG+G  ++    +G+  L  +PI P V+
Sbjct: 294 QKYYIFGKGKVAEFANAYGLKILGSIPIDPEVA 326

Aquifex aeolicus (strain VF5) (taxid: 224324)

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	386
225445308	525	PREDICTED: protein mrp homolog [Vitis vi	0.974	0.716	0.818	1e-179
297738859	556	unnamed protein product [Vitis vinifera]	0.974	0.676	0.818	1e-179
356531234	530	PREDICTED: protein mrp homolog [Glycine	0.989	0.720	0.797	1e-178
356520515	533	PREDICTED: protein mrp homolog [Glycine	0.992	0.718	0.786	1e-174
449461963	529	PREDICTED: protein mrp homolog [Cucumis	0.974	0.710	0.795	1e-174
357500509	516	Mrp-like protein [Medicago truncatula] g	0.979	0.732	0.780	1e-173
388500020	526	unknown [Medicago truncatula]	0.979	0.718	0.778	1e-172
15230111	532	ATP binding protein [Arabidopsis thalian	0.992	0.719	0.766	1e-167
21592386	532	mrp protein, putative [Arabidopsis thali	0.992	0.719	0.764	1e-167
255549050	474	Protein mrp, putative [Ricinus communis]	0.945	0.770	0.795	1e-166

>gi|225445308|ref|XP_002281353.1| PREDICTED: protein mrp homolog [Vitis vinifera]

 Score =  634 bits (1634), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 316/386 (81%), Positives = 340/386 (88%), Gaps = 10/386 (2%)

Query: 1   MQLLHAPCWPHLPFQGCKSPSILALVPPDRFLQLSAINFSLHPSKLEKSIWVSHRPSIFG 60
           MQLLHAP   HL F   +  S       ++   LS++  S HP +  K  W+S++ S+  
Sbjct: 1   MQLLHAPSSLHLSFNNSRPQS-------EKSFLLSSVCCSSHPQRHHKPTWISYKRSVLS 53

Query: 61  C---GSTNATSVEVSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFR 117
                S +A++  +S+GTAE DVLKALSQIIDPDFGTDIVSCGFVKD+QINEALGEVSFR
Sbjct: 54  SITPKSASASTSAISSGTAEADVLKALSQIIDPDFGTDIVSCGFVKDLQINEALGEVSFR 113

Query: 118 LELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVA 177
           LELTTPACPIKDMFEQ+ANEVV  +PWV  VNVTMSAQPARP+FA QLP GLQ ISNI+A
Sbjct: 114 LELTTPACPIKDMFEQKANEVVAMLPWVKNVNVTMSAQPARPVFAGQLPAGLQTISNIIA 173

Query: 178 VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTI 237
           VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKR+I
Sbjct: 174 VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRSI 233

Query: 238 IPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL 297
           IPTEYLGVKLVSFGF+GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL
Sbjct: 234 IPTEYLGVKLVSFGFAGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL 293

Query: 298 TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG 357
           TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPC+AVVENMCHFDADGKRYYPFG
Sbjct: 294 TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCVAVVENMCHFDADGKRYYPFG 353

Query: 358 RGSGSQVVQQFGIPHLFDLPIRPTVS 383
           RGSGSQVVQQFGIPHLFDLPIRPT+S
Sbjct: 354 RGSGSQVVQQFGIPHLFDLPIRPTLS 379

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297738859|emb|CBI28104.3| unnamed protein product [Vitis vinifera]

 Score =  633 bits (1633), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 316/386 (81%), Positives = 340/386 (88%), Gaps = 10/386 (2%)

Query: 1   MQLLHAPCWPHLPFQGCKSPSILALVPPDRFLQLSAINFSLHPSKLEKSIWVSHRPSIFG 60
           MQLLHAP   HL F   +  S       ++   LS++  S HP +  K  W+S++ S+  
Sbjct: 32  MQLLHAPSSLHLSFNNSRPQS-------EKSFLLSSVCCSSHPQRHHKPTWISYKRSVLS 84

Query: 61  C---GSTNATSVEVSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFR 117
                S +A++  +S+GTAE DVLKALSQIIDPDFGTDIVSCGFVKD+QINEALGEVSFR
Sbjct: 85  SITPKSASASTSAISSGTAEADVLKALSQIIDPDFGTDIVSCGFVKDLQINEALGEVSFR 144

Query: 118 LELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVA 177
           LELTTPACPIKDMFEQ+ANEVV  +PWV  VNVTMSAQPARP+FA QLP GLQ ISNI+A
Sbjct: 145 LELTTPACPIKDMFEQKANEVVAMLPWVKNVNVTMSAQPARPVFAGQLPAGLQTISNIIA 204

Query: 178 VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTI 237
           VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKR+I
Sbjct: 205 VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRSI 264

Query: 238 IPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL 297
           IPTEYLGVKLVSFGF+GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL
Sbjct: 265 IPTEYLGVKLVSFGFAGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL 324

Query: 298 TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG 357
           TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPC+AVVENMCHFDADGKRYYPFG
Sbjct: 325 TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCVAVVENMCHFDADGKRYYPFG 384

Query: 358 RGSGSQVVQQFGIPHLFDLPIRPTVS 383
           RGSGSQVVQQFGIPHLFDLPIRPT+S
Sbjct: 385 RGSGSQVVQQFGIPHLFDLPIRPTLS 410

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356531234|ref|XP_003534183.1| PREDICTED: protein mrp homolog [Glycine max]

 Score =  631 bits (1627), Expect = e-178,   Method: Compositional matrix adjust.
 Identities = 308/386 (79%), Positives = 337/386 (87%), Gaps = 4/386 (1%)

Query: 1   MQLLHAPCWPHLPFQGCKSPSILALVPPDRFLQ---LSAINFSLHPSKLEKSIWVSHRPS 57
           MQ+LHAP  PH   Q  K+P +   + P   +     SA++FSLH  + ++ +W SH+  
Sbjct: 1   MQVLHAPSSPHFSIQTSKAPQLTWGLLPSVSVNSSPFSALHFSLHSQRDQRLLW-SHKRV 59

Query: 58  IFGCGSTNATSVEVSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFR 117
                S       VSTGTAE+DVLKALSQIIDPDFGTDIV+CGFVKD+ I++ALGEVSFR
Sbjct: 60  TSRAASVEVGDSSVSTGTAEDDVLKALSQIIDPDFGTDIVTCGFVKDLHIDKALGEVSFR 119

Query: 118 LELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVA 177
           LELTTPACPIKD+FEQ+ANEVV  +PWV  V VTMSAQPARPI+AEQLP GLQ ISNIVA
Sbjct: 120 LELTTPACPIKDVFEQKANEVVAMLPWVKNVKVTMSAQPARPIYAEQLPAGLQTISNIVA 179

Query: 178 VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTI 237
           VSSCKGGVGKSTVAVNLAYTLA MGARVGIFDADVYGPSLPTMVSPENRLL MNPEK+TI
Sbjct: 180 VSSCKGGVGKSTVAVNLAYTLADMGARVGIFDADVYGPSLPTMVSPENRLLVMNPEKKTI 239

Query: 238 IPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL 297
           IPTEYLGVKL+SFGF+GQGRAIMRGPMVSGVI+QLLTTTEWGELDYL+IDMPPGTGDIQL
Sbjct: 240 IPTEYLGVKLISFGFAGQGRAIMRGPMVSGVIDQLLTTTEWGELDYLIIDMPPGTGDIQL 299

Query: 298 TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG 357
           TLCQVVPLTAAVIVTTPQKL+FIDVAKGVRMFSKLKVPC+AVVENMCHFDADGKRYYPFG
Sbjct: 300 TLCQVVPLTAAVIVTTPQKLSFIDVAKGVRMFSKLKVPCVAVVENMCHFDADGKRYYPFG 359

Query: 358 RGSGSQVVQQFGIPHLFDLPIRPTVS 383
           RGSGSQVVQQFGIPHLFDLPIRPT+S
Sbjct: 360 RGSGSQVVQQFGIPHLFDLPIRPTLS 385

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356520515|ref|XP_003528907.1| PREDICTED: protein mrp homolog [Glycine max]

 Score =  618 bits (1594), Expect = e-174,   Method: Compositional matrix adjust.
 Identities = 305/388 (78%), Positives = 332/388 (85%), Gaps = 5/388 (1%)

Query: 1   MQLLHAPCW-PHLPFQGCKSPS-ILALVPPDRFLQ---LSAINFSLHPSKLEKSIWVSHR 55
           MQ+L AP   P+   Q  K+P     L+P    +     S  +FSLH  + +  +W  H+
Sbjct: 1   MQVLQAPSSSPYFSIQTSKAPQRTWGLLPSSVSVNSSLFSTFHFSLHSQRDQHLLWTPHK 60

Query: 56  PSIFGCGSTNATSVEVSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVS 115
                  S       VSTGTAE+DVLKALSQIIDPDFGTDIV+CGFVKD+ I++ALGEVS
Sbjct: 61  RVTTRAASVEVGDSSVSTGTAEDDVLKALSQIIDPDFGTDIVTCGFVKDLLIDKALGEVS 120

Query: 116 FRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNI 175
           FRLELTTPACPIKD+FEQ+ANEVV  +PWV  V VTMSAQPARPI+AEQLP GLQ ISNI
Sbjct: 121 FRLELTTPACPIKDVFEQKANEVVAMLPWVKNVKVTMSAQPARPIYAEQLPAGLQTISNI 180

Query: 176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKR 235
           VAVSSCKGGVGKSTVAVNLAYTLA MGARVG+FDADVYGPSLPTMVSPENRLL MNPEK+
Sbjct: 181 VAVSSCKGGVGKSTVAVNLAYTLADMGARVGLFDADVYGPSLPTMVSPENRLLVMNPEKK 240

Query: 236 TIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI 295
           TIIPTEYLGVKL+SFGF+GQGRAIMRGPMVSGVINQLLTTTEWGELDYL+IDMPPGTGDI
Sbjct: 241 TIIPTEYLGVKLISFGFAGQGRAIMRGPMVSGVINQLLTTTEWGELDYLIIDMPPGTGDI 300

Query: 296 QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYP 355
           QLTLCQVVPLTAAVIVTTPQKL+FIDVAKGVRMFSKLKVPC+AVVENMCHFDADGKRYYP
Sbjct: 301 QLTLCQVVPLTAAVIVTTPQKLSFIDVAKGVRMFSKLKVPCVAVVENMCHFDADGKRYYP 360

Query: 356 FGRGSGSQVVQQFGIPHLFDLPIRPTVS 383
           FGRGSGSQVVQQFGIPHLFDLPIRPT+S
Sbjct: 361 FGRGSGSQVVQQFGIPHLFDLPIRPTLS 388

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449461963|ref|XP_004148711.1| PREDICTED: protein mrp homolog [Cucumis sativus] gi|449508261|ref|XP_004163266.1| PREDICTED: protein mrp homolog [Cucumis sativus]

 Score =  617 bits (1591), Expect = e-174,   Method: Compositional matrix adjust.
 Identities = 307/386 (79%), Positives = 332/386 (86%), Gaps = 10/386 (2%)

Query: 3   LLHAPCWPHLPFQGCKSPSILALVPPDRFLQLSAINFSLHPSKLEKSIWVSHRPSIFGCG 62
           LLH P  P L  +  K+ S      PD  L LSA    ++  + ++SI +    +I    
Sbjct: 2   LLHTPSSPRLSLKIIKAQS-----KPDNVLLLSAFKSLVYNQRFDRSISLLRGNTISSSF 56

Query: 63  STNATSVE-----VSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFR 117
           + NA S E     +ST TAE DVLKALSQIIDPDFGTDIVSCGFVKD+QI+EALGEVSFR
Sbjct: 57  TRNAASTEAGASVMSTETAETDVLKALSQIIDPDFGTDIVSCGFVKDLQIDEALGEVSFR 116

Query: 118 LELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVA 177
           LELTTPACP+KDMFEQRANE V A+PWV  V VTMSAQPA+PI+A +LP GLQ+ISNIVA
Sbjct: 117 LELTTPACPVKDMFEQRANEEVAALPWVKNVKVTMSAQPAKPIYAGELPPGLQRISNIVA 176

Query: 178 VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTI 237
           VSSCKGGVGKSTVAVNLAYTLA MGARVGIFDADVYGPSLPTMVSPENRLLEMNPE R+I
Sbjct: 177 VSSCKGGVGKSTVAVNLAYTLADMGARVGIFDADVYGPSLPTMVSPENRLLEMNPETRSI 236

Query: 238 IPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL 297
           +PTEYLGVKLVSFGF+GQGRAIMRGPMVSGVI+QLLTT EWGELDYLVIDMPPGTGDIQL
Sbjct: 237 LPTEYLGVKLVSFGFAGQGRAIMRGPMVSGVISQLLTTAEWGELDYLVIDMPPGTGDIQL 296

Query: 298 TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG 357
           TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPC+AVVENMCHFDADGKRYYPFG
Sbjct: 297 TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCVAVVENMCHFDADGKRYYPFG 356

Query: 358 RGSGSQVVQQFGIPHLFDLPIRPTVS 383
           RGSGSQVVQQFGIPHLFDLPIRPT+S
Sbjct: 357 RGSGSQVVQQFGIPHLFDLPIRPTLS 382

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357500509|ref|XP_003620543.1| Mrp-like protein [Medicago truncatula] gi|355495558|gb|AES76761.1| Mrp-like protein [Medicago truncatula]

 Score =  614 bits (1584), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 306/392 (78%), Positives = 336/392 (85%), Gaps = 14/392 (3%)

Query: 1   MQLLHAPCWPHLPFQGCKSP--SILALVPPDRFLQLSAINFSLHPSKLEKSIWVSHRPSI 58
           MQ + A   PH      K P  S  +LV     ++ S   FSL   + + S+W S+   +
Sbjct: 1   MQAVQASSSPHFSIHSSKPPHSSTCSLVTSSVNVKCSG--FSL---REQSSLWTSYNKRV 55

Query: 59  F--GCGSTNATSVEV-----STGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEAL 111
                 S  A SVEV     STGTAE+DVLKALSQIIDPDFGTDIV+CGFVKD+QI++AL
Sbjct: 56  ILKSSFSAKAASVEVGSSSISTGTAEDDVLKALSQIIDPDFGTDIVTCGFVKDLQIDKAL 115

Query: 112 GEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQK 171
           GEVSFRLELTTPACPIKD+FE++ANEVV  +PWV  VNVTMSAQPA+P+FAEQLP GLQ 
Sbjct: 116 GEVSFRLELTTPACPIKDVFEKQANEVVAVLPWVKNVNVTMSAQPAKPLFAEQLPAGLQT 175

Query: 172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMN 231
           ISNI+AVSSCKGGVGKSTVAVNLAYTLA MGARVGIFDAD+YGPSLPTMVSPENR+LEMN
Sbjct: 176 ISNIIAVSSCKGGVGKSTVAVNLAYTLADMGARVGIFDADIYGPSLPTMVSPENRILEMN 235

Query: 232 PEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPG 291
           PEK+TIIPTEY+GVKLVSFGF+GQGRAIMRGPMVSGV NQLLTTTEWGELDYLVIDMPPG
Sbjct: 236 PEKKTIIPTEYMGVKLVSFGFAGQGRAIMRGPMVSGVTNQLLTTTEWGELDYLVIDMPPG 295

Query: 292 TGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGK 351
           TGDIQLTLCQ+VPLTAAVIVTTPQKL+FIDVAKGVRMFSKLKVPC+AVVENMCHFDADGK
Sbjct: 296 TGDIQLTLCQIVPLTAAVIVTTPQKLSFIDVAKGVRMFSKLKVPCVAVVENMCHFDADGK 355

Query: 352 RYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVS 383
           RYYPFGRGSGSQVVQQFGIPHLFDLPIRPT+S
Sbjct: 356 RYYPFGRGSGSQVVQQFGIPHLFDLPIRPTLS 387

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388500020|gb|AFK38076.1| unknown [Medicago truncatula]

 Score =  612 bits (1577), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 305/392 (77%), Positives = 335/392 (85%), Gaps = 14/392 (3%)

Query: 1   MQLLHAPCWPHLPFQGCKSP--SILALVPPDRFLQLSAINFSLHPSKLEKSIWVSHRPSI 58
           MQ + A   PH      K P  S  +LV     ++ S   FSL   + + S+W S+   +
Sbjct: 1   MQAVQASSSPHFSIHSSKPPHSSTCSLVTSSVNVKCSG--FSL---REQSSLWTSYNKRV 55

Query: 59  F--GCGSTNATSVEV-----STGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEAL 111
                 S  A SVEV     STGTAE+DVLKALSQIIDPDFGTDIV+CGFVKD+QI++AL
Sbjct: 56  ILKSSFSAKAASVEVGSSSISTGTAEDDVLKALSQIIDPDFGTDIVTCGFVKDLQIDKAL 115

Query: 112 GEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQK 171
           GEVSFRLELTTPACPIKD+FE++ANEVV  +PWV  VNVTMSAQPA+P+FAEQLP GLQ 
Sbjct: 116 GEVSFRLELTTPACPIKDVFEKQANEVVAVLPWVKNVNVTMSAQPAKPLFAEQLPAGLQT 175

Query: 172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMN 231
           ISNI+AVSSCKGGVGKSTVAVNLAYTLA MGARVGIFDAD+YGPSLPTMVS ENR+LEMN
Sbjct: 176 ISNIIAVSSCKGGVGKSTVAVNLAYTLADMGARVGIFDADIYGPSLPTMVSSENRILEMN 235

Query: 232 PEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPG 291
           PEK+TIIPTEY+GVKLVSFGF+GQGRAIMRGPMVSGV NQLLTTTEWGELDYLVIDMPPG
Sbjct: 236 PEKKTIIPTEYMGVKLVSFGFAGQGRAIMRGPMVSGVTNQLLTTTEWGELDYLVIDMPPG 295

Query: 292 TGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGK 351
           TGDIQLTLCQ+VPLTAAVIVTTPQKL+FIDVAKGVRMFSKLKVPC+AVVENMCHFDADGK
Sbjct: 296 TGDIQLTLCQIVPLTAAVIVTTPQKLSFIDVAKGVRMFSKLKVPCVAVVENMCHFDADGK 355

Query: 352 RYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVS 383
           RYYPFGRGSGSQVVQQFGIPHLFDLPIRPT+S
Sbjct: 356 RYYPFGRGSGSQVVQQFGIPHLFDLPIRPTLS 387

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15230111|ref|NP_189086.1| ATP binding protein [Arabidopsis thaliana] gi|40950525|gb|AAR97892.1| [4Fe-4S] cluster assembly factor [Arabidopsis thaliana] gi|110740872|dbj|BAE98532.1| putative mrp protein [Arabidopsis thaliana] gi|332643376|gb|AEE76897.1| ATP binding protein [Arabidopsis thaliana]

 Score =  595 bits (1533), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 296/386 (76%), Positives = 329/386 (85%), Gaps = 3/386 (0%)

Query: 1   MQLLHAPCWPHLPFQ---GCKSPSILALVPPDRFLQLSAINFSLHPSKLEKSIWVSHRPS 57
           M LLH     H  F+     +S S   L+   +FL   A   S+  +++ K +  +   +
Sbjct: 1   MPLLHPQSLRHPSFEIQTQRRSNSTTRLLLSHKFLHSQASIISISRTRILKRVSQNLSVA 60

Query: 58  IFGCGSTNATSVEVSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFR 117
                  +++  E    T+E DVLKALSQIIDPDFGTDIVSCGFVKD+ INEALGEVSFR
Sbjct: 61  KAASAQASSSVGESVAQTSEKDVLKALSQIIDPDFGTDIVSCGFVKDLGINEALGEVSFR 120

Query: 118 LELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVA 177
           LELTTPACP+KDMFE +ANEVV A+PWV KVNVTMSAQPA+PIFA QLP GL +ISNI+A
Sbjct: 121 LELTTPACPVKDMFENKANEVVAALPWVKKVNVTMSAQPAKPIFAGQLPFGLSRISNIIA 180

Query: 178 VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTI 237
           VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMV+PE+R+LEMNPEK+TI
Sbjct: 181 VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVNPESRILEMNPEKKTI 240

Query: 238 IPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL 297
           IPTEY+GVKLVSFGF+GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL
Sbjct: 241 IPTEYMGVKLVSFGFAGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL 300

Query: 298 TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG 357
           TLCQV PLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPC+AVVENMCHFDADGKRYYPFG
Sbjct: 301 TLCQVAPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCVAVVENMCHFDADGKRYYPFG 360

Query: 358 RGSGSQVVQQFGIPHLFDLPIRPTVS 383
           +GSGS+VV+QFGIPHLFDLPIRPT+S
Sbjct: 361 KGSGSEVVKQFGIPHLFDLPIRPTLS 386

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21592386|gb|AAM64337.1| mrp protein, putative [Arabidopsis thaliana] gi|30502918|emb|CAD90253.1| putative PSI stabilising protein precursor [Arabidopsis thaliana]

 Score =  593 bits (1530), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 295/386 (76%), Positives = 329/386 (85%), Gaps = 3/386 (0%)

Query: 1   MQLLHAPCWPHLPFQ---GCKSPSILALVPPDRFLQLSAINFSLHPSKLEKSIWVSHRPS 57
           M LLH     H  F+     +S S   L+   +FL   A   S+  +++ K +  +   +
Sbjct: 1   MPLLHPQSLRHPSFEIQTQRRSNSTTRLLLSHKFLHSQASIISISRTRILKRVSQNLSVA 60

Query: 58  IFGCGSTNATSVEVSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFR 117
                  +++  E    T+E DVLKALSQIIDPDFGTDIVSCGFVKD+ INEALGEVSFR
Sbjct: 61  KAASAQASSSVGESVAQTSEKDVLKALSQIIDPDFGTDIVSCGFVKDLGINEALGEVSFR 120

Query: 118 LELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVA 177
           LELTTPACP+KDMFE +ANEVV A+PWV KVN+TMSAQPA+PIFA QLP GL +ISNI+A
Sbjct: 121 LELTTPACPVKDMFENKANEVVAALPWVKKVNLTMSAQPAKPIFAGQLPFGLSRISNIIA 180

Query: 178 VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTI 237
           VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMV+PE+R+LEMNPEK+TI
Sbjct: 181 VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVNPESRILEMNPEKKTI 240

Query: 238 IPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL 297
           IPTEY+GVKLVSFGF+GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL
Sbjct: 241 IPTEYMGVKLVSFGFAGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL 300

Query: 298 TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG 357
           TLCQV PLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPC+AVVENMCHFDADGKRYYPFG
Sbjct: 301 TLCQVAPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCVAVVENMCHFDADGKRYYPFG 360

Query: 358 RGSGSQVVQQFGIPHLFDLPIRPTVS 383
           +GSGS+VV+QFGIPHLFDLPIRPT+S
Sbjct: 361 KGSGSEVVKQFGIPHLFDLPIRPTLS 386

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255549050|ref|XP_002515581.1| Protein mrp, putative [Ricinus communis] gi|223545525|gb|EEF47030.1| Protein mrp, putative [Ricinus communis]

 Score =  590 bits (1520), Expect = e-166,   Method: Compositional matrix adjust.
 Identities = 296/372 (79%), Positives = 322/372 (86%), Gaps = 7/372 (1%)

Query: 1   MQLLHAPCWPHLPFQGCKSPSILALVPPDRFLQLSAINFSLHPSKLEKSIWVSHRPSIFG 60
           MQLLHAP    +  Q  KS S   LV   + LQ SA + S +P K+  ++ +S + S+F 
Sbjct: 1   MQLLHAPSSLSISLQTLKSQSKSGLVLAGKCLQFSATDCSPYPLKVNTALALSLKRSVFN 60

Query: 61  CGSTNATSVE------VSTGTAEND-VLKALSQIIDPDFGTDIVSCGFVKDMQINEALGE 113
           C +T A SV+       S+GTA+++ VLKALSQIIDPDFGTDIV+CGF+KD+QI EA GE
Sbjct: 61  CLTTRAASVQGGASTISSSGTAKSEEVLKALSQIIDPDFGTDIVTCGFIKDLQIEEAQGE 120

Query: 114 VSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKIS 173
           VSFRLELTTPACPIKD+FEQ+ANEVV A+PWV  V VTMSAQPARP+FA QLP GLQ IS
Sbjct: 121 VSFRLELTTPACPIKDLFEQQANEVVAALPWVKNVKVTMSAQPARPVFAGQLPAGLQTIS 180

Query: 174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPE 233
           NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD+YGPSLPTMVSPENRLLEMNPE
Sbjct: 181 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADIYGPSLPTMVSPENRLLEMNPE 240

Query: 234 KRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG 293
           KRTIIPTEYLGVKLVSFGF+GQGRAIMRGPMVSGVI+QLLTTTEWGELDYLVIDMPPGTG
Sbjct: 241 KRTIIPTEYLGVKLVSFGFAGQGRAIMRGPMVSGVIDQLLTTTEWGELDYLVIDMPPGTG 300

Query: 294 DIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRY 353
           DIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRY
Sbjct: 301 DIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRY 360

Query: 354 YPFGRGSGSQVV 365
           YPFGRGS S  V
Sbjct: 361 YPFGRGSVSTAV 372

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	386
TAIR|locus:2087148	532	HCF101 "HIGH-CHLOROPHYLL-FLUOR	0.987	0.716	0.778	5.6e-155
UNIPROTKB|Q4K759	364	PFL_4843 "Uncharacterized prot	0.756	0.802	0.441	2.9e-55
UNIPROTKB|Q87XN1	364	PSPTO_4146 "ParA family protei	0.753	0.799	0.44	1.5e-53
UNIPROTKB|Q48LT6	364	PSPPH_1379 "ATP-binding protei	0.756	0.802	0.431	1.9e-53
UNIPROTKB|Q60CU7	361	MCA0052 "MrP protein" [Methylo	0.753	0.806	0.410	1.3e-52
UNIPROTKB|Q8EDX3	371	apbC "Scaffold protein for [4F	0.753	0.784	0.413	2.1e-52
TIGR_CMR|SO_2618	371	SO_2618 "ATP-binding protein,	0.753	0.784	0.413	2.1e-52
UNIPROTKB|Q5LSG5	353	SPO1803 "Mrp/NBP35 family prot	0.761	0.832	0.397	1.5e-51
TIGR_CMR|SPO_1803	353	SPO_1803 "Mrp/NBP35 family pro	0.761	0.832	0.397	1.5e-51
UNIPROTKB|Q480H6	391	CPS_2838 "Putative mrp protein	0.556	0.549	0.490	1.5e-49

TAIR|locus:2087148 HCF101 "HIGH-CHLOROPHYLL-FLUORESCENCE 101" [Arabidopsis thaliana (taxid:3702)]

 Score = 1511 (537.0 bits), Expect = 5.6e-155, P = 5.6e-155
 Identities = 302/388 (77%), Positives = 331/388 (85%)

Query:     1 MQLLHAPCWPHLPFQ---GCKSPSILALVPPDRFLQLSAINFSLHPSKLEKSIWVSHRPS 57
             M LLH     H  F+     +S S   L+   +FL   A   S+  +++ K   VS   S
Sbjct:     1 MPLLHPQSLRHPSFEIQTQRRSNSTTRLLLSHKFLHSQASIISISRTRILKR--VSQNLS 58

Query:    58 IFGCGSTNATSV--EVSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVS 115
             +    S  A+S   E    T+E DVLKALSQIIDPDFGTDIVSCGFVKD+ INEALGEVS
Sbjct:    59 VAKAASAQASSSVGESVAQTSEKDVLKALSQIIDPDFGTDIVSCGFVKDLGINEALGEVS 118

Query:   116 FRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNI 175
             FRLELTTPACP+KDMFE +ANEVV A+PWV KVNVTMSAQPA+PIFA QLP GL +ISNI
Sbjct:   119 FRLELTTPACPVKDMFENKANEVVAALPWVKKVNVTMSAQPAKPIFAGQLPFGLSRISNI 178

Query:   176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKR 235
             +AVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMV+PE+R+LEMNPEK+
Sbjct:   179 IAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVNPESRILEMNPEKK 238

Query:   236 TIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI 295
             TIIPTEY+GVKLVSFGF+GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI
Sbjct:   239 TIIPTEYMGVKLVSFGFAGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI 298

Query:   296 QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYP 355
             QLTLCQV PLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPC+AVVENMCHFDADGKRYYP
Sbjct:   299 QLTLCQVAPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCVAVVENMCHFDADGKRYYP 358

Query:   356 FGRGSGSQVVQQFGIPHLFDLPIRPTVS 383
             FG+GSGS+VV+QFGIPHLFDLPIRPT+S
Sbjct:   359 FGKGSGSEVVKQFGIPHLFDLPIRPTLS 386

GO:0005524 "ATP binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0016226 "iron-sulfur cluster assembly" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0000023 "maltose metabolic process" evidence=RCA

GO:0006098 "pentose-phosphate shunt" evidence=RCA

GO:0006364 "rRNA processing" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0015979 "photosynthesis" evidence=RCA

GO:0015995 "chlorophyll biosynthetic process" evidence=RCA

GO:0016117 "carotenoid biosynthetic process" evidence=RCA

GO:0019252 "starch biosynthetic process" evidence=RCA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

GO:0043085 "positive regulation of catalytic activity" evidence=RCA

UNIPROTKB|Q4K759 PFL_4843 "Uncharacterized protein" [Pseudomonas protegens Pf-5 (taxid:220664)]

 Score = 570 (205.7 bits), Expect = 2.9e-55, P = 2.9e-55
 Identities = 132/299 (44%), Positives = 173/299 (57%)

Query:    84 LSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIP 143
             L Q  DP    D VS G V+D+++      V+ R+EL   A   K  + Q     +  + 
Sbjct:    13 LRQYTDPYLNQDPVSAGCVRDIEVQG--DRVTVRMELGYAAGLFKSGWAQMLQLAIEGLD 70

Query:   144 WVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGA 203
              V+   V +S+  A      Q+P GL  + N+VAV+S KGGVGKST A NLA  LA  GA
Sbjct:    71 GVSSAKVEISSVIAAHKAQAQIP-GLANVKNVVAVASGKGGVGKSTTAANLALALAREGA 129

Query:   204 RVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIM--R 261
             +VGI DAD+YGPS   M            +++  +P E  GV+++S  F       M  R
Sbjct:   130 KVGILDADIYGPSQGIMFGIAEGTRPKIKDQKWFVPIESHGVEVMSMAFLTDDNTPMVWR 189

Query:   262 GPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFID 321
             GPMVSG + QL+T T+WG LDYLVIDMPPGTGDIQLTL Q VP+  AVIVTTPQ LA +D
Sbjct:   190 GPMVSGALLQLVTQTDWGNLDYLVIDMPPGTGDIQLTLAQKVPVAGAVIVTTPQDLALLD 249

Query:   322 VAKGVRMFSKLKVPCIAVVENMC-HFDAD-GKRYYPFGRGSGSQVVQQFGIPHLFDLPI 378
               KGV MF K+ +P + VVENM  H  ++ G   + FG G G ++  Q+ +  L  LP+
Sbjct:   250 ARKGVEMFRKVNIPVLGVVENMAVHICSNCGHAEHLFGEGGGEKLASQYDVELLASLPL 308

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q87XN1 PSPTO_4146 "ParA family protein" [Pseudomonas syringae pv. tomato str. DC3000 (taxid:223283)]

 Score = 554 (200.1 bits), Expect = 1.5e-53, P = 1.5e-53
 Identities = 132/300 (44%), Positives = 173/300 (57%)

Query:    84 LSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIP 143
             L Q  DP    D VS G V+ + I+ A   VS +LEL   A   ++ +       +  + 
Sbjct:    13 LRQYTDPYLNQDPVSAGCVRSIDIDGA--HVSVQLELGYAADLFRNGWAHVLKTAIENLD 70

Query:   144 WVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGA 203
              V    V + +  +      Q+P GL  + NIVAV+S KGGVGKST A NLA  L+  GA
Sbjct:    71 GVGSATVAIKSVISAHKAQSQIP-GLANVKNIVAVASGKGGVGKSTTAANLALALSREGA 129

Query:   204 RVGIFDADVYGPSLPTMVS-PENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIM-- 260
             RVGI DAD+YGPS   M   PE    ++  E++  +P E  G++++S  F       M  
Sbjct:   130 RVGILDADIYGPSQGVMFGIPEGTRPKIK-EQKWFVPIEAHGIEVMSMAFLTDDNTPMVW 188

Query:   261 RGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFI 320
             RGPMVSG + QL+T T W +LDYLVIDMPPGTGDIQLTL Q VP+  AVIVTTPQ LA +
Sbjct:   189 RGPMVSGALLQLVTQTAWNDLDYLVIDMPPGTGDIQLTLAQKVPVAGAVIVTTPQDLALL 248

Query:   321 DVAKGVRMFSKLKVPCIAVVENMC-HFDADGKRYYP-FGRGSGSQVVQQFGIPHLFDLPI 378
             D  KGV MF K+ +P + VVENM  H  ++     P FG G G ++  Q+ +  L  LP+
Sbjct:   249 DAKKGVEMFRKVNIPVLGVVENMAVHICSNCGHAEPLFGEGGGEKLASQYDVELLASLPL 308

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q48LT6 PSPPH_1379 "ATP-binding protein, Mrp/Nbp35 family" [Pseudomonas syringae pv. phaseolicola 1448A (taxid:264730)]

 Score = 553 (199.7 bits), Expect = 1.9e-53, P = 1.9e-53
 Identities = 129/299 (43%), Positives = 171/299 (57%)

Query:    84 LSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIP 143
             L Q  DP    D VS G V+ + I  A  +VS +LEL   A   ++ + Q     +  + 
Sbjct:    13 LRQYTDPYLNQDPVSAGCVRSIDIQGA--QVSVQLELGYAADLFRNGWAQVLKTAIENLD 70

Query:   144 WVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGA 203
              V+   V + +  +      Q+P GL  + NIVAV+S KGGVGKST A NLA  L+  GA
Sbjct:    71 GVSSATVAIKSVISAHKAQSQIP-GLANVKNIVAVASGKGGVGKSTTAANLALALSREGA 129

Query:   204 RVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIM--R 261
             RVGI DAD+YGPS   M            +++  +P +  G+ ++S  F       M  R
Sbjct:   130 RVGILDADIYGPSQGVMFGIAEGTRPKIKDQKWFVPVQAHGIDVMSMAFLTDDNTPMVWR 189

Query:   262 GPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFID 321
             GPMVSG + QL+T T W +LDYLVIDMPPGTGDIQLTL Q VP+  AVIVTTPQ LA +D
Sbjct:   190 GPMVSGALLQLVTQTAWNDLDYLVIDMPPGTGDIQLTLAQKVPVAGAVIVTTPQDLALLD 249

Query:   322 VAKGVRMFSKLKVPCIAVVENMC-HFDAD-GKRYYPFGRGSGSQVVQQFGIPHLFDLPI 378
               KGV MF K+ +P + VVENM  H  ++ G   + FG G G ++  Q+ +  L  LP+
Sbjct:   250 AKKGVEMFRKVNIPVLGVVENMAVHICSNCGHAEHLFGEGGGEKLASQYNVELLASLPL 308

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q60CU7 MCA0052 "MrP protein" [Methylococcus capsulatus str. Bath (taxid:243233)]

 Score = 545 (196.9 bits), Expect = 1.3e-52, P = 1.3e-52
 Identities = 126/307 (41%), Positives = 178/307 (57%)

Query:    79 DVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEV 138
             DV  AL   +DP+ G D  +   VK + ++     VS R+ L  PA   +D   Q A   
Sbjct:     7 DVEAALKNFVDPNLGVDWFAAKSVKKISVDG--DRVSLRIALGYPAGSCRDELAQAAKAA 64

Query:   139 VLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQK---ISNIVAVSSCKGGVGKSTVAVNLA 195
             + A     +V + + ++    I +  + +GL+    + NI+AV+S KGGVGKST AVNLA
Sbjct:    65 IRAAVGAAEVEIDLVSE----IVSHAVQKGLKPMPGVRNIIAVASGKGGVGKSTTAVNLA 120

Query:   196 YTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF--S 253
               LAG GARVGI DAD++GPS P M+    R      E R I P    G++ +S G+   
Sbjct:   121 LALAGEGARVGILDADIHGPSQPLMLGVSGR---PETEGRKIHPIVAHGLQSMSIGYLID 177

Query:   254 GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTT 313
                  I RGPMV G + QLL  T W +LDYL++D+PPGTGDIQL+L Q +P++ AVIVTT
Sbjct:   178 EDTPMIWRGPMVVGALQQLLNDTLWEDLDYLIVDLPPGTGDIQLSLAQQIPVSGAVIVTT 237

Query:   314 PQKLAFIDVAKGVRMFSKLKVPCIAVVENMC-HFDADGKRYYP-FGRGSGSQVVQQFGIP 371
             PQ +A +D  KG++MF K+ +P + ++ENM  H  +      P FG G G ++ Q++G  
Sbjct:   238 PQDIALLDAQKGLKMFEKVSIPVLGIIENMSVHVCSRCGHAEPIFGEGGGEKMAQKYGTE 297

Query:   372 HLFDLPI 378
              L  LP+
Sbjct:   298 LLGQLPL 304

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q8EDX3 apbC "Scaffold protein for [4Fe-4S] cluster assembly ApbC" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 543 (196.2 bits), Expect = 2.1e-52, P = 2.1e-52
 Identities = 127/307 (41%), Positives = 178/307 (57%)

Query:    80 VLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTP-AC--PIKDMFEQRAN 136
             VL  L   IDP     +VS G V  + I    G+   +L L  P  C    +D      N
Sbjct:    18 VLAILDAYIDPYLAKGLVSAGCVNKLAIE---GK-RLQLGLVYPYPCMTQYRDTVMALTN 73

Query:   137 EVVLAIPWVNKVNVTMSAQP-ARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLA 195
             ++ + +  +++V   +  QP      A   P  +  +  ++AV+S KGGVGKST AVNLA
Sbjct:    74 KLAV-LDAIDEVECEIDFQPKVYSAIASIAP--IANVKQVIAVASGKGGVGKSTTAVNLA 130

Query:   196 YTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF--S 253
               LA  GA+VGI DAD+YGPS+P M+   N    ++P+ + +      G+   S GF  S
Sbjct:   131 LALAAEGAQVGILDADIYGPSVPLMLGIPN-FRPVSPDGKHMTAASAYGIAAQSIGFMLS 189

Query:   254 GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTT 313
             G   A+ RGPM +G + QLL  T+W ELDYLV+DMPPGTGDIQLTL Q VP++ AVIVTT
Sbjct:   190 GDEAAVWRGPMAAGALAQLLNETQWPELDYLVVDMPPGTGDIQLTLSQKVPVSGAVIVTT 249

Query:   314 PQKLAFIDVAKGVRMFSKLKVPCIAVVENMC-HFDAD-GKRYYPFGRGSGSQVVQQFGIP 371
             PQ +A  D  KG+ MF K+ +P + +VENM  H   + G + +PFG   GS++ +++ +P
Sbjct:   250 PQDIALADAKKGITMFQKVNIPVLGIVENMSFHLCPECGHKEHPFGTHGGSKMAERYQVP 309

Query:   372 HLFDLPI 378
              L  LP+
Sbjct:   310 LLGALPL 316

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|SO_2618 SO_2618 "ATP-binding protein, Mrp/Nbp35 family" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 543 (196.2 bits), Expect = 2.1e-52, P = 2.1e-52
 Identities = 127/307 (41%), Positives = 178/307 (57%)

Query:    80 VLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTP-AC--PIKDMFEQRAN 136
             VL  L   IDP     +VS G V  + I    G+   +L L  P  C    +D      N
Sbjct:    18 VLAILDAYIDPYLAKGLVSAGCVNKLAIE---GK-RLQLGLVYPYPCMTQYRDTVMALTN 73

Query:   137 EVVLAIPWVNKVNVTMSAQP-ARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLA 195
             ++ + +  +++V   +  QP      A   P  +  +  ++AV+S KGGVGKST AVNLA
Sbjct:    74 KLAV-LDAIDEVECEIDFQPKVYSAIASIAP--IANVKQVIAVASGKGGVGKSTTAVNLA 130

Query:   196 YTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF--S 253
               LA  GA+VGI DAD+YGPS+P M+   N    ++P+ + +      G+   S GF  S
Sbjct:   131 LALAAEGAQVGILDADIYGPSVPLMLGIPN-FRPVSPDGKHMTAASAYGIAAQSIGFMLS 189

Query:   254 GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTT 313
             G   A+ RGPM +G + QLL  T+W ELDYLV+DMPPGTGDIQLTL Q VP++ AVIVTT
Sbjct:   190 GDEAAVWRGPMAAGALAQLLNETQWPELDYLVVDMPPGTGDIQLTLSQKVPVSGAVIVTT 249

Query:   314 PQKLAFIDVAKGVRMFSKLKVPCIAVVENMC-HFDAD-GKRYYPFGRGSGSQVVQQFGIP 371
             PQ +A  D  KG+ MF K+ +P + +VENM  H   + G + +PFG   GS++ +++ +P
Sbjct:   250 PQDIALADAKKGITMFQKVNIPVLGIVENMSFHLCPECGHKEHPFGTHGGSKMAERYQVP 309

Query:   372 HLFDLPI 378
              L  LP+
Sbjct:   310 LLGALPL 316

GO:0008150 "biological_process" evidence=ND

GO:0005524 "ATP binding" evidence=ISS

GO:0003674 "molecular_function" evidence=ND

UNIPROTKB|Q5LSG5 SPO1803 "Mrp/NBP35 family protein" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 535 (193.4 bits), Expect = 1.5e-51, P = 1.5e-51
 Identities = 124/312 (39%), Positives = 183/312 (58%)

Query:    80 VLKALSQIIDPDFGTDIVSCGFVKDMQINEALGE-VSFRLELTTPACPIKDMFEQRANEV 138
             VL  L +I DP  G DIVS G V+ + +    G+ V F +E+        +     A + 
Sbjct:     7 VLANLKKITDPVSGQDIVSAGIVRALNVE---GDTVRFVIEIDPKLAERMEPVRAAAEKA 63

Query:   139 VLAIPWVNKVNVTMSAQP--ARPIF---AEQLPEGLQKISN---IVAVSSCKGGVGKSTV 190
                +  V KV+  M+A    A P     A+  P+G Q ++    IVAV+S KGGVGKSTV
Sbjct:    64 AQMVEGVAKVSAMMTAHSDKAPPELKPRAKAAPQGPQPVAGVDRIVAVASGKGGVGKSTV 123

Query:   191 AVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSF 250
             + NLA  LA  G RVG+ DADVYGPS P M+    R    +P+ +TI+P    GV ++S 
Sbjct:   124 SANLACALAAEGRRVGLLDADVYGPSQPRMLGVSGR--PASPDGKTILPLRNHGVTMMSM 181

Query:   251 GF-SGQGRAIM-RGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAA 308
             G  + +G+A++ RGPM+ G + Q++   +WG LD L++D+PPGTGD+QLTL Q   +  A
Sbjct:   182 GLMTNEGQAVVWRGPMLMGALQQMMNQVQWGGLDVLIVDLPPGTGDVQLTLSQKFAVDGA 241

Query:   309 VIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMC-HFDAD-GKRYYPFGRGSGSQVVQ 366
             +IV+TPQ +A ID  KG+ MF +LK P + ++ENM  H  ++ G   + FG G  +   +
Sbjct:   242 IIVSTPQDVALIDARKGIDMFRQLKTPILGMIENMSTHICSNCGHEEHVFGHGGVAAEAE 301

Query:   367 QFGIPHLFDLPI 378
             + G+P L ++P+
Sbjct:   302 KLGVPLLGEIPL 313

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|SPO_1803 SPO_1803 "Mrp/NBP35 family protein" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 535 (193.4 bits), Expect = 1.5e-51, P = 1.5e-51
 Identities = 124/312 (39%), Positives = 183/312 (58%)

Query:    80 VLKALSQIIDPDFGTDIVSCGFVKDMQINEALGE-VSFRLELTTPACPIKDMFEQRANEV 138
             VL  L +I DP  G DIVS G V+ + +    G+ V F +E+        +     A + 
Sbjct:     7 VLANLKKITDPVSGQDIVSAGIVRALNVE---GDTVRFVIEIDPKLAERMEPVRAAAEKA 63

Query:   139 VLAIPWVNKVNVTMSAQP--ARPIF---AEQLPEGLQKISN---IVAVSSCKGGVGKSTV 190
                +  V KV+  M+A    A P     A+  P+G Q ++    IVAV+S KGGVGKSTV
Sbjct:    64 AQMVEGVAKVSAMMTAHSDKAPPELKPRAKAAPQGPQPVAGVDRIVAVASGKGGVGKSTV 123

Query:   191 AVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSF 250
             + NLA  LA  G RVG+ DADVYGPS P M+    R    +P+ +TI+P    GV ++S 
Sbjct:   124 SANLACALAAEGRRVGLLDADVYGPSQPRMLGVSGR--PASPDGKTILPLRNHGVTMMSM 181

Query:   251 GF-SGQGRAIM-RGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAA 308
             G  + +G+A++ RGPM+ G + Q++   +WG LD L++D+PPGTGD+QLTL Q   +  A
Sbjct:   182 GLMTNEGQAVVWRGPMLMGALQQMMNQVQWGGLDVLIVDLPPGTGDVQLTLSQKFAVDGA 241

Query:   309 VIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMC-HFDAD-GKRYYPFGRGSGSQVVQ 366
             +IV+TPQ +A ID  KG+ MF +LK P + ++ENM  H  ++ G   + FG G  +   +
Sbjct:   242 IIVSTPQDVALIDARKGIDMFRQLKTPILGMIENMSTHICSNCGHEEHVFGHGGVAAEAE 301

Query:   367 QFGIPHLFDLPI 378
             + G+P L ++P+
Sbjct:   302 KLGVPLLGEIPL 313

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q480H6 CPS_2838 "Putative mrp protein" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 516 (186.7 bits), Expect = 1.5e-49, P = 1.5e-49
 Identities = 109/222 (49%), Positives = 143/222 (64%)

Query:   167 EG-LQ-KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPE 224
             EG LQ K++NI+A++S KGGVGKST  VNLAY L   GARVGI DAD+YGPS+P+M+  +
Sbjct:   119 EGMLQGKVANIIAIASGKGGVGKSTTTVNLAYALMCEGARVGILDADIYGPSIPSMLGLK 178

Query:   225 NRLLEMNPEKRTIIPTEYLGVKLVSFGF--SGQGRAIMRGPMVSGVINQLLTTTEWGELD 282
             N     + + + + P +  G+  +S GF        + RGPM S   NQLL  T+W ELD
Sbjct:   179 NEK-PSSSDGKLMTPVDAKGLSAMSIGFLVDEADATVWRGPMASSAFNQLLNETDWPELD 237

Query:   283 YLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVEN 342
             YL+IDMPPGTGDIQLTL Q VP+ AAVIVTTPQ +A ID  KG+ MF K+KVP + +VEN
Sbjct:   238 YLLIDMPPGTGDIQLTLAQKVPVAAAVIVTTPQDIALIDAVKGIAMFDKVKVPVLGIVEN 297

Query:   343 MCHFDAD--GKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTV 382
             M +   +  G + + FG   G  + +      L  LP+  T+
Sbjct:   298 MSYHLCENCGHKSHIFGEAGGEHMAEDHETKLLGQLPLDITI 339

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	386
cd02037	169	cd02037, MRP-like, MRP (Multiple Resistance and pH	4e-85
PRK11670	369	PRK11670, PRK11670, antiporter inner membrane prot	2e-72
COG0489	265	COG0489, Mrp, ATPases involved in chromosome parti	1e-61
pfam10609	81	pfam10609, ParA, ParA/MinD ATPase like	7e-40
COG0455	262	COG0455, flhG, Antiactivator of flagellar biosynth	1e-18
pfam01883	72	pfam01883, DUF59, Domain of unknown function DUF59	6e-16
pfam01656	217	pfam01656, CbiA, CobQ/CobB/MinD/ParA nucleotide bi	1e-14
COG2151	111	COG2151, PaaD, Predicted metal-sulfur cluster bios	2e-14
cd03110	179	cd03110, Fer4_NifH_child, This protein family's fu	4e-14
COG1192	259	COG1192, Soj, ATPases involved in chromosome parti	3e-13
cd02038	139	cd02038, FleN-like, FleN is a member of the Fer4_N	2e-12
COG1149	284	COG1149, COG1149, MinD superfamily P-loop ATPase c	8e-12
cd02042	104	cd02042, ParA, ParA and ParB of Caulobacter cresce	4e-11
TIGR01969	251	TIGR01969, minD_arch, cell division ATPase MinD, a	3e-10
cd02035	217	cd02035, ArsA, ArsA ATPase functionas as an efflux	9e-10
CHL00175	281	CHL00175, minD, septum-site determining protein; V	1e-09
TIGR01968	261	TIGR01968, minD_bact, septum site-determining prot	2e-09
cd02036	179	cd02036, MinD, Bacterial cell division requires th	1e-08
TIGR02945	99	TIGR02945, SUF_assoc, FeS assembly SUF system prot	2e-08
cd01983	99	cd01983, Fer4_NifH, The Fer4_NifH superfamily cont	5e-08
pfam13614	145	pfam13614, AAA_31, AAA domain	1e-07
cd03111	106	cd03111, CpaE_like, This protein family consists o	3e-07
cd02034	116	cd02034, CooC, The accessory protein CooC, which c	3e-07
TIGR03018	207	TIGR03018, pepcterm_TyrKin, exopolysaccharide/PEP-	1e-06
PHA02518	211	PHA02518, PHA02518, ParA-like protein; Provisional	7e-06
COG2894	272	COG2894, MinD, Septum formation inhibitor-activati	2e-05
cd01983	99	cd01983, Fer4_NifH, The Fer4_NifH superfamily cont	6e-05
pfam09140	262	pfam09140, MipZ, ATPase MipZ	7e-05
TIGR01005	754	TIGR01005, eps_transp_fam, exopolysaccharide trans	9e-05
COG0003	322	COG0003, ArsA, Predicted ATPase involved in chromo	1e-04
PRK13705	388	PRK13705, PRK13705, plasmid-partitioning protein S	2e-04
TIGR01007	204	TIGR01007, eps_fam, capsular exopolysaccharide fam	3e-04
TIGR03406	174	TIGR03406, FeS_long_SufT, probable FeS assembly SU	7e-04
TIGR03453	387	TIGR03453, partition_RepA, plasmid partitioning pr	0.001
cd02040	270	cd02040, NifH, NifH gene encodes component II (iro	0.001
PRK13869	405	PRK13869, PRK13869, plasmid-partitioning protein R	0.001
COG1348	278	COG1348, NifH, Nitrogenase subunit NifH (ATPase) [	0.001
cd02038	139	cd02038, FleN-like, FleN is a member of the Fer4_N	0.002
cd02117	212	cd02117, NifH_like, This family contains the NifH	0.002
pfam07015	231	pfam07015, VirC1, VirC1 protein	0.003
PRK13849	231	PRK13849, PRK13849, putative crown gall tumor prot	0.003
TIGR03371	246	TIGR03371, cellulose_yhjQ, cellulose synthase oper	0.003
TIGR01287	275	TIGR01287, nifH, nitrogenase iron protein	0.004

>gnl|CDD|238994 cd02037, MRP-like, MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

 Score =  255 bits (654), Expect = 4e-85
 Identities = 96/208 (46%), Positives = 122/208 (58%), Gaps = 41/208 (19%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEK 234
           ++AV S KGGVGKSTVAVNLA  LA +G +VG+ DAD+YGPS+P M              
Sbjct: 1   VIAVMSGKGGVGKSTVAVNLALALAKLGYKVGLLDADIYGPSIPKMW------------- 47

Query: 235 RTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD 294
                                     RGPM  G I Q LT  +WGELDYLVIDMPPGTGD
Sbjct: 48  --------------------------RGPMKMGAIKQFLTDVDWGELDYLVIDMPPGTGD 81

Query: 295 IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHF--DADGKR 352
             LTL Q +P+  AVIVTTPQ++A  DV K + MF K+ +P + VVENM +F     GK+
Sbjct: 82  EHLTLAQSLPIDGAVIVTTPQEVALDDVRKAIDMFKKVNIPILGVVENMSYFVCPHCGKK 141

Query: 353 YYPFGRGSGSQVVQQFGIPHLFDLPIRP 380
            Y FG+G G ++ ++ G+P L  +P+ P
Sbjct: 142 IYIFGKGGGEKLAEELGVPLLGKIPLDP 169

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. Length = 169

>gnl|CDD|183270 PRK11670, PRK11670, antiporter inner membrane protein; Provisional

 Score =  229 bits (587), Expect = 2e-72
 Identities = 118/321 (36%), Positives = 173/321 (53%), Gaps = 14/321 (4%)

Query: 65  NATSVEVSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPA 124
           N  S   S       V   L+    P    ++ +   +  +    AL + +  +EL  P 
Sbjct: 2   NEQSQAKSPEALRAMVAGTLANFQHPTLKHNLTTLKALHHV----ALLDDTLHIELVMPF 57

Query: 125 CPIKDMFEQRANEV---VLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVAVSSC 181
                 FE+   +    +L I     ++  +S   A        P G+  + NI+AVSS 
Sbjct: 58  -VWNSAFEELKEQCSAELLRITGAKAIDWKLSHNIATLKRVNNQP-GVNGVKNIIAVSSG 115

Query: 182 KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTE 241
           KGGVGKS+ AVNLA  LA  GA+VGI DAD+YGPS+PTM+  E++    +P+   + P  
Sbjct: 116 KGGVGKSSTAVNLALALAAEGAKVGILDADIYGPSIPTMLGAEDQR-PTSPDGTHMAPIM 174

Query: 242 YLGVKLVSFGF--SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTL 299
             G+   S G+  +     + RGPM S  + Q+L  T W +LDYLV+DMPPGTGDIQLTL
Sbjct: 175 AHGLATNSIGYLVTDDNAMVWRGPMASKALMQMLQETLWPDLDYLVLDMPPGTGDIQLTL 234

Query: 300 CQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMC-HFDADGKRYYP-FG 357
            Q +P+T AV+VTTPQ +A ID  KG+ MF K++VP + +VENM  H  ++   + P FG
Sbjct: 235 AQNIPVTGAVVVTTPQDIALIDAKKGIVMFEKVEVPVLGIVENMSMHICSNCGHHEPIFG 294

Query: 358 RGSGSQVVQQFGIPHLFDLPI 378
            G   ++ +++    L  +P+
Sbjct: 295 TGGAEKLAEKYHTQLLGQMPL 315

Length = 369

>gnl|CDD|223563 COG0489, Mrp, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

 Score =  198 bits (506), Expect = 1e-61
 Identities = 98/266 (36%), Positives = 140/266 (52%), Gaps = 12/266 (4%)

Query: 117 RLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNIV 176
            +EL  P     +   +   + + A+   +  +  + A      FA+ L +G   + N++
Sbjct: 4   EIELALPFASSSEEIPELLAKALAALLPKSTASEALRALRTNLKFAKVLRKG---VKNVI 60

Query: 177 AVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMV-SPENRLLEMNPEKR 235
           AV+S KGGVGKSTVAVNLA  LA +G RV + DAD+ GPS+P M+       L       
Sbjct: 61  AVTSGKGGVGKSTVAVNLAAALAQLGKRVLLLDADLRGPSIPRMLGLENLPGLTELLAGE 120

Query: 236 TIIPTE-YLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD 294
            + P   + G+K++S    G    I RG + S  + QLL    WGE DY++ID PPGTGD
Sbjct: 121 ALEPVIQHDGIKVLSILPLGPVPVIPRGLLGSKAMLQLLEDVLWGEYDYVIIDTPPGTGD 180

Query: 295 IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYY 354
              T+ Q +P    VIVTTP K A  DV K + M  K  +P + VVENM +F     R  
Sbjct: 181 ADATVLQRIPD-GVVIVTTPGKTALEDVKKAIDMLEKAGIPVLGVVENMSYFIC--PRC- 236

Query: 355 PFGRGSGSQVVQQFGIPHLFDLPIRP 380
             G G G +  +++G P+L  +P+ P
Sbjct: 237 --GEGGGEKYAERYG-PYLGSIPLDP 259

Length = 265

>gnl|CDD|204531 pfam10609, ParA, ParA/MinD ATPase like

 Score =  136 bits (344), Expect = 7e-40
 Identities = 45/81 (55%), Positives = 58/81 (71%), Gaps = 2/81 (2%)

Query: 281 LDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVV 340
           LDYL+ID+PPGTGD  LTL Q +P+  AVIVTTPQ +A +DV K + MF K+ VP + VV
Sbjct: 1   LDYLLIDLPPGTGDEHLTLAQSLPVDGAVIVTTPQDVALLDVRKAIDMFKKVNVPILGVV 60

Query: 341 ENMCHF--DADGKRYYPFGRG 359
           ENM +F     G++ Y FG+G
Sbjct: 61  ENMSYFVCPDCGEKIYIFGKG 81

This family contains ATPases involved in plasmid partitioning. It also contains the cytosolic Fe-S cluster assembling factor NBP35 which is required for biogenesis and export of both ribosomal subunits. Length = 81

>gnl|CDD|223531 COG0455, flhG, Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]

 Score = 84.2 bits (209), Expect = 1e-18
 Identities = 52/188 (27%), Positives = 83/188 (44%), Gaps = 17/188 (9%)

Query: 173 SNIVAVSSCKGGVGKSTVAVNL-AYTLAGMGARVGIFDADVYGPSLPTMV---SPENRLL 228
           + ++AV S KGGVGK+T+  NL A   A  G  V + DAD+   +L  ++   S    L 
Sbjct: 2   TKVIAVVSGKGGVGKTTITANLGAALAALGGKVVLLIDADLGLGNLSLLLGVESKPTTLH 61

Query: 229 EM-NPEKR---TIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYL 284
           ++   E      I  T   G+ ++  G   +  A +    +  VI +L         DY+
Sbjct: 62  DVLAGEASIEDIIYETPQDGLYVLPGGSGLEDLAKLDPEDLEDVIKELEEL-----YDYI 116

Query: 285 VIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLK--VPCIAVVEN 342
           +ID   G     L+   ++     VIVTTP+  +  D  K +++ SKL   +    VV N
Sbjct: 117 LIDTGAGLSRDTLSF--ILSSDELVIVTTPEPTSITDAYKTIKILSKLGLDLLGRRVVLN 174

Query: 343 MCHFDADG 350
                 +G
Sbjct: 175 RVRSTKEG 182

Length = 262

>gnl|CDD|216762 pfam01883, DUF59, Domain of unknown function DUF59

 Score = 71.5 bits (176), Expect = 6e-16
 Identities = 29/74 (39%), Positives = 43/74 (58%), Gaps = 2/74 (2%)

Query: 77  ENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRAN 136
           +  VL AL  + DP+ G D+VS G V+++ I    G+V F +ELT PACP  +   + A 
Sbjct: 1   KEAVLAALKTVTDPETGVDLVSLGMVRNITIEG--GKVRFDIELTYPACPQMEPIRKAAE 58

Query: 137 EVVLAIPWVNKVNV 150
             + A+P V  V+V
Sbjct: 59  AALRALPGVVSVSV 72

This family has an alpha/beta topology, with 13 conserved hydrophobic residues at its core and a putative active site containing a highly conserved cysteine. Members of this family are involved in a range of physiological functions. The family includes PaaJ (PhaH) from Pseudomonas putida. PaaJ forms a complex with PaaG (PhaF), PaaI (PhaG) and PaaK (PhaI), which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid. It also includes PaaD from Escherichia coli, a member of a multicomponent oxygenase involved in phenylacetyl-CoA hydroxylation. It is found near the N-terminus of the chloroplast scaffold protein HCF101, involved in the assembly of [4Fe-4S] clusters and their transfer to apoproteins. Length = 72

>gnl|CDD|216631 pfam01656, CbiA, CobQ/CobB/MinD/ParA nucleotide binding domain

 Score = 72.1 bits (177), Expect = 1e-14
 Identities = 44/184 (23%), Positives = 70/184 (38%), Gaps = 21/184 (11%)

Query: 176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV--------YGPSLPTMVSPENRL 227
           +A++  KGGVGK+T+A NLA  LA  G RV + D D                    E   
Sbjct: 1   IAIAGTKGGVGKTTLAANLARALAKRGYRVLLIDLDPQANNSSYLGKVEEVLPEGLEIVD 60

Query: 228 -LEMNPEKRTIIPTEYL-GVKLVSFGFSGQGRAIMRGPMVSG--VINQLLTTTEWGELDY 283
              +      I+P+  L  + L+    S +               +   L +      DY
Sbjct: 61  AQALQAIAAAIVPSRNLDPLLLIPSNLSLENFESELIVEGKRESRLRAALESLIKLAYDY 120

Query: 284 LVIDMPPGTGDI---QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIA-V 339
           ++ID PPG G++    L    ++     V+   P+ +A     + + +   L V  I  V
Sbjct: 121 VIIDGPPGLGELTANALVAADIL-----VVPIEPEGVAVEGAQRLLELIEDLGVLDILGV 175

Query: 340 VENM 343
           V N 
Sbjct: 176 VLNK 179

This family consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from S.typhimurium, and CobQ from R. capsulatus. These amidases catalyze amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria. The family also contains dethiobiotin synthetases as well as the plasmid partitioning proteins of the MinD/ParA family. Length = 217

>gnl|CDD|225062 COG2151, PaaD, Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]

 Score = 68.5 bits (168), Expect = 2e-14
 Identities = 27/81 (33%), Positives = 45/81 (55%)

Query: 77  ENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRAN 136
             D+L+AL  +IDP+ G DIV  G V ++ I++  G V  ++ LT+P CP+ ++   +  
Sbjct: 14  LEDILEALKTVIDPEIGIDIVDLGLVYEVDIDDVDGLVKVKMTLTSPGCPLAEVIADQVE 73

Query: 137 EVVLAIPWVNKVNVTMSAQPA 157
             +  IP V  V V ++  P 
Sbjct: 74  AALEEIPGVEDVEVELTLSPP 94

Length = 111

>gnl|CDD|239384 cd03110, Fer4_NifH_child, This protein family's function is unkown

 Score = 69.6 bits (171), Expect = 4e-14
 Identities = 48/174 (27%), Positives = 69/174 (39%), Gaps = 31/174 (17%)

Query: 176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLE---MNP 232
           +AV S KGG GK+TV   LA  L      V + D DV  P+L   + PE    E   +  
Sbjct: 2   IAVISGKGGTGKTTVTAALAALLKN----VVLADCDVDAPNLHLFLKPEIEEEEDFIVGG 57

Query: 233 EKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGT 292
           +K  I P   +   L              G +V+ V        +    + ++ID PPG 
Sbjct: 58  KKAVIDPELCISCGLC-------------GKLVTEVRKHAKEIAKAEGAELIIIDGPPGI 104

Query: 293 GDIQLTLCQVVP----LTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVEN 342
           G      C V+       AA++VT P      D+ + V +     +P   VV N
Sbjct: 105 G------CPVIASLTGADAALLVTEPTPSGLHDLERAVELVRHFGIPV-GVVIN 151

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion. Length = 179

>gnl|CDD|224113 COG1192, Soj, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

 Score = 68.7 bits (168), Expect = 3e-13
 Identities = 45/189 (23%), Positives = 74/189 (39%), Gaps = 24/189 (12%)

Query: 174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFDAD-------VYGPSLPTMVSPEN 225
            I+AV++ KGGVGK+T AVNLA  LA   G +V + D D         G          N
Sbjct: 3   KIIAVANQKGGVGKTTTAVNLAAALAKRGGKKVLLIDLDPQGSLTSWLGLRPDLEGDLYN 62

Query: 226 RLLEMNPEKRTIIPTEYL-GVKLVSFGFSGQGRAIMRGPMVSG-VINQLLTTTEWGELDY 283
            L  +      +  T  + G+ L+         A +    V+  ++ + L      + DY
Sbjct: 63  LLSGLKERPDILDYTVVIEGLDLIPSNIDLAEGAEIELNAVAKELLLKRLLDPVKDDYDY 122

Query: 284 LVIDMPPGTGDIQLTLCQVVPLTAA---VIVTTPQKLAFIDVAKGVRMFSKLK------V 334
           ++ID PP  G + L       L AA   +I   P+ L    + + +     L       +
Sbjct: 123 IIIDTPPSLGVLTLNA-----LAAADHVLIPVQPEFLDLEGLEQLLNTLEDLLKLRRNKL 177

Query: 335 PCIAVVENM 343
             + ++   
Sbjct: 178 IVVGILITR 186

Length = 259

>gnl|CDD|238995 cd02038, FleN-like, FleN is a member of the Fer4_NifH superfamily

 Score = 63.7 bits (156), Expect = 2e-12
 Identities = 21/37 (56%), Positives = 28/37 (75%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD 211
           I+AV+S KGGVGK+ ++ NLA  LA +G RV + DAD
Sbjct: 1   IIAVTSGKGGVGKTNISANLALALAKLGKRVLLLDAD 37

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. Length = 139

>gnl|CDD|224071 COG1149, COG1149, MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

 Score = 64.7 bits (158), Expect = 8e-12
 Identities = 57/241 (23%), Positives = 83/241 (34%), Gaps = 71/241 (29%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLE----- 229
            VAV+S KGG GK+TVA NLA  L     ++ + D DV  P+L  ++  E    E     
Sbjct: 3   QVAVASGKGGTGKTTVAANLAVLLGD-KYKLVLADCDVEAPNLHLLLGVEVLEEEEVIRG 61

Query: 230 ----MNPEK---------------------RTIIPTEYL--GVKLVSFGFSGQGRAIMRG 262
               ++PEK                        +    L  G    S        AI   
Sbjct: 62  EIPEIDPEKCIRCGKCAEVCRFGAIVVLPGGKPVLNPDLCEGCGACS--IVCPEPAIEEE 119

Query: 263 PMVSGVINQLLT----TTEWGEL----------------------DYLVIDMPPGTGDIQ 296
           P+V G I +  T        G L                      D L+ID   GTG   
Sbjct: 120 PVVIGKIYESKTDYGFPLISGRLNVGEEESGKLVTALKKHAKELADLLIIDSAAGTG--- 176

Query: 297 LTLCQVV-PLT---AAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKR 352
              C V+  L     A++VT P      D+ + + +     +P   V+      D++ + 
Sbjct: 177 ---CPVIASLKGADLAILVTEPTPFGLHDLKRALELVEHFGIPTGIVINRYNLGDSEIEE 233

Query: 353 Y 353
           Y
Sbjct: 234 Y 234

Length = 284

>gnl|CDD|238997 cd02042, ParA, ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

 Score = 59.1 bits (144), Expect = 4e-11
 Identities = 21/37 (56%), Positives = 27/37 (72%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD 211
           ++AV++ KGGVGK+T AVNLA  LA  G RV + D D
Sbjct: 1   VIAVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLD 37

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. Length = 104

>gnl|CDD|131024 TIGR01969, minD_arch, cell division ATPase MinD, archaeal

 Score = 59.7 bits (145), Expect = 3e-10
 Identities = 48/177 (27%), Positives = 80/177 (45%), Gaps = 19/177 (10%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPE------NRLL 228
           I+ ++S KGG GK+T+  NL   LA +G +V   DAD+   +L  ++  E      + +L
Sbjct: 2   IITIASGKGGTGKTTITANLGVALAKLGKKVLALDADITMANLELILGMEDKPVTLHDVL 61

Query: 229 EMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDM 288
               + +  I     GVK++  G S +G        +  V+ +++      + D+L+ID 
Sbjct: 62  AGEADIKDAIYEGPFGVKVIPAGVSLEGLRKADPDKLEDVLKEII-----DDTDFLLIDA 116

Query: 289 PPGTGDIQLTLCQVVPLTAA---VIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVEN 342
           P G     L    V  L AA   ++V  P+  +  D  K   +  KL    + VV N
Sbjct: 117 PAG-----LERDAVTALAAADELLLVVNPEISSITDALKTKIVAEKLGTAILGVVLN 168

This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown. Length = 251

>gnl|CDD|238992 cd02035, ArsA, ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell

 Score = 57.6 bits (140), Expect = 9e-10
 Identities = 40/189 (21%), Positives = 68/189 (35%), Gaps = 31/189 (16%)

Query: 182 KGGVGKSTVAVNLAYTLAGMGARVGI-------FDADVYGPSL-------PTMVSPENRL 227
           KGGVGK+T+A   A  LA  G +V +         +D   P+L          ++P    
Sbjct: 7   KGGVGKTTIAAATAVRLAEEGKKVLLVSTDPAHNLSDKGLPNLSDAFIVEDPEIAPNLYR 66

Query: 228 LEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVID 287
            E++  +R        G  ++    +  G   +        + +  +   +   D +V D
Sbjct: 67  EEVDATRRVERAWGGEGGLMLELAAALPG---IEELASLLAVFREFSEGLY---DVIVFD 120

Query: 288 MPPGTGDI-------QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVV 340
             P TG          LT       T+  +VT P+KL   +  + +   +   +P  AVV
Sbjct: 121 TAP-TGHTLRLLVRELLT---DPERTSFRLVTLPEKLPLYETERAITELALYGIPVDAVV 176

Query: 341 ENMCHFDAD 349
            N       
Sbjct: 177 VNRVLPAEV 185

This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence. Length = 217

>gnl|CDD|214385 CHL00175, minD, septum-site determining protein; Validated

 Score = 58.2 bits (141), Expect = 1e-09
 Identities = 48/164 (29%), Positives = 79/164 (48%), Gaps = 20/164 (12%)

Query: 169 LQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLL 228
              +S I+ ++S KGGVGK+T   NL  ++A +G RV + DAD+   +L  ++  ENR+L
Sbjct: 11  SATMSRIIVITSGKGGVGKTTTTANLGMSIARLGYRVALIDADIGLRNLDLLLGLENRVL 70

Query: 229 ---------EMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWG 279
                    E   ++  I    +  + L++   + Q   + R  M     N L+ + +  
Sbjct: 71  YTAMDVLEGECRLDQALIRDKRWKNLSLLAISKNRQRYNVTRKNM-----NMLVDSLKNR 125

Query: 280 ELDYLVIDMPPG--TGDIQLTLCQVVPLTAAVIVTTPQKLAFID 321
             DY++ID P G   G I      + P   A++VTTP+  A  D
Sbjct: 126 GYDYILIDCPAGIDVGFIN----AIAPAQEAIVVTTPEITAIRD 165

Length = 281

>gnl|CDD|131023 TIGR01968, minD_bact, septum site-determining protein MinD

 Score = 57.3 bits (139), Expect = 2e-09
 Identities = 43/153 (28%), Positives = 72/153 (47%), Gaps = 21/153 (13%)

Query: 174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLL----- 228
            ++ ++S KGGVGK+T   NL   LA +G +V + DAD+   +L  ++  ENR++     
Sbjct: 2   RVIVITSGKGGVGKTTTTANLGTALARLGKKVVLIDADIGLRNLDLLLGLENRIVYTLVD 61

Query: 229 ----EMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYL 284
               E   ++  I       + L+    +    A+    M   ++N+L       E DY+
Sbjct: 62  VVEGECRLQQALIKDKRLKNLYLLPASQTRDKDAVTPEQMKK-LVNELKE-----EFDYV 115

Query: 285 VIDMPPG--TGDIQLTLCQVVPLTAAVIVTTPQ 315
           +ID P G  +G        V P   A++VTTP+
Sbjct: 116 IIDCPAGIESGFRN----AVAPADEAIVVTTPE 144

This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model [Cellular processes, Cell division]. Length = 261

>gnl|CDD|238993 cd02036, MinD, Bacterial cell division requires the formation of a septum at mid-cell

 Score = 53.7 bits (130), Expect = 1e-08
 Identities = 41/170 (24%), Positives = 68/170 (40%), Gaps = 48/170 (28%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEK 234
           ++ V+S KGGVGK+T   NL   LA +G +V + DAD+   +L  ++  ENR        
Sbjct: 1   VIVVTSGKGGVGKTTTTANLGTALAQLGYKVVLIDADLGLRNLDLILGLENR-------- 52

Query: 235 RTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG- 293
             ++ T      L           ++ G                   DY++ID P G   
Sbjct: 53  --VVYT------LHD---------VLAG-------------------DYILIDSPAGIER 76

Query: 294 DIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENM 343
                +    P   A++VTTP+  +  D  +   +   L +  + V+ N 
Sbjct: 77  GFITAI---APADEALLVTTPEISSLRDADRVKGLLEALGIKVVGVIVNR 123

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. Length = 179

>gnl|CDD|131990 TIGR02945, SUF_assoc, FeS assembly SUF system protein

 Score = 51.5 bits (124), Expect = 2e-08
 Identities = 22/80 (27%), Positives = 39/80 (48%), Gaps = 1/80 (1%)

Query: 77  ENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRAN 136
           ++ V++AL  + DP+   +I   G + D+ +++  G V  ++ LT P CP+         
Sbjct: 3   KDAVIEALKTVYDPEIPVNIYELGLIYDIDVDDD-GHVDIQMTLTAPNCPVAGSMPGEVE 61

Query: 137 EVVLAIPWVNKVNVTMSAQP 156
             V A+P V  V V +   P
Sbjct: 62  NAVRAVPGVGSVTVELVWDP 81

Members of this family belong to the broader Pfam family pfam01883, or Domain of Unknown Function DUF59. Many members of DUF59 are candidate ring hydroxylating complex subunits. However, members of the narrower family defined here all are found in genomes that carry the FeS assembly SUF system. For 70 % of these species, the member of this protein family is found as part of the SUF locus, usually immediately downstream of the sufS gene [Biosynthesis of cofactors, prosthetic groups, and carriers, Other]. Length = 99

>gnl|CDD|238941 cd01983, Fer4_NifH, The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

 Score = 50.1 bits (120), Expect = 5e-08
 Identities = 29/98 (29%), Positives = 39/98 (39%), Gaps = 4/98 (4%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV---YGPSLPTMVSPENRLLEMN 231
           ++ V+  KGGVGK+T+A NLA  LA  G RV + D  V     P L  +V      L   
Sbjct: 1   VIVVTG-KGGVGKTTLAANLAAALAKRGKRVLLIDDYVLIDTPPGLGLLVLLCLLALLAA 59

Query: 232 PEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVI 269
                +   E L V              + G    GV+
Sbjct: 60  DLVIIVTTPEALAVLGARRLTEVVLELAIEGLRPVGVV 97

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion. Length = 99

>gnl|CDD|222264 pfam13614, AAA_31, AAA domain

 Score = 50.3 bits (121), Expect = 1e-07
 Identities = 32/130 (24%), Positives = 53/130 (40%), Gaps = 23/130 (17%)

Query: 174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPE 233
            ++ V S  GG GK+T A+NLA +LA  G +V   D + Y   L   +  E + L     
Sbjct: 1   KVIGVYSPVGGEGKTTFALNLAQSLAEEGPKVLYLDLEEYSGDLALFLGLEPKGL----- 55

Query: 234 KRTIIPTEYLG--VKLVSFGFSGQ-GRAIMRGPMVSGVINQLLTTTEWGEL--------D 282
                 ++ L    +L S       G   +  P     + + ++  EW +L        D
Sbjct: 56  ------SDLLYYLKRLDSMLIQAMGGLDYLAPPRNPEDLRE-VSPEEWEQLLERLRERYD 108

Query: 283 YLVIDMPPGT 292
            +V+D+ P  
Sbjct: 109 VIVLDLGPLV 118

This family includes a wide variety of AAA domains including some that have lost essential nucleotide binding residues in the P-loop. Length = 145

>gnl|CDD|239385 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

 Score = 48.1 bits (115), Expect = 3e-07
 Identities = 18/38 (47%), Positives = 23/38 (60%), Gaps = 1/38 (2%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDAD 211
           ++A    KGGVG +T+A NLA  LA   G RV + D D
Sbjct: 1   VIAFIGAKGGVGATTLAANLAVALAKEAGRRVLLVDLD 38

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. Length = 106

>gnl|CDD|238991 cd02034, CooC, The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

 Score = 48.0 bits (115), Expect = 3e-07
 Identities = 27/107 (25%), Positives = 41/107 (38%), Gaps = 19/107 (17%)

Query: 182 KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTE 241
           KGGVGK+T+A  LA  LA  G  V   DAD             + L E    +   +   
Sbjct: 7   KGGVGKTTIAALLARYLAEKGKPVLAIDAD------------PDDLPERLSVE---VGEI 51

Query: 242 YLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDM 288
            L + +      G+G         + ++N LL        + +V+D 
Sbjct: 52  KLLLVMGMGRPGGEGCYC----PENALLNALLRHLVLTRDEQVVVDT 94

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function. Length = 116

>gnl|CDD|132063 TIGR03018, pepcterm_TyrKin, exopolysaccharide/PEP-CTERM locus tyrosine autokinase

 Score = 48.1 bits (115), Expect = 1e-06
 Identities = 26/76 (34%), Positives = 38/76 (50%), Gaps = 3/76 (3%)

Query: 158 RPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVYGPS 216
           RP+ A       +K +N++ V+S   G GKS  A+NLA +LA      V + DAD+  PS
Sbjct: 20  RPLLANAFSANRKKNNNLIMVTSSLPGEGKSFTAINLAISLAQEYDKTVLLIDADLRRPS 79

Query: 217 LPTM--VSPENRLLEM 230
           L     +  E  L + 
Sbjct: 80  LHRTLGLEAEPGLSDC 95

Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins. Length = 207

>gnl|CDD|222854 PHA02518, PHA02518, ParA-like protein; Provisional

 Score = 46.0 bits (109), Expect = 7e-06
 Identities = 21/43 (48%), Positives = 26/43 (60%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSL 217
           I+AV + KGG GK+TVA NLA  L   G +V + D D  G S 
Sbjct: 2   IIAVLNQKGGAGKTTVATNLASWLHADGHKVLLVDLDPQGSST 44

Length = 211

>gnl|CDD|225447 COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]

 Score = 45.7 bits (109), Expect = 2e-05
 Identities = 17/40 (42%), Positives = 26/40 (65%)

Query: 173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV 212
           + I+ V+S KGGVGK+T   N+   LA +G +V + D D+
Sbjct: 2   ARIIVVTSGKGGVGKTTTTANIGTALAQLGKKVVLIDFDI 41

Length = 272

>gnl|CDD|238941 cd01983, Fer4_NifH, The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

 Score = 41.2 bits (97), Expect = 6e-05
 Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 1/55 (1%)

Query: 282 DYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVP 335
           DY++ID PPG G +  L L  ++     +IVTTP+ LA +   +   +  +L + 
Sbjct: 35  DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTTPEALAVLGARRLTEVVLELAIE 89

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion. Length = 99

>gnl|CDD|220125 pfam09140, MipZ, ATPase MipZ

 Score = 43.9 bits (104), Expect = 7e-05
 Identities = 31/115 (26%), Positives = 48/115 (41%), Gaps = 8/115 (6%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEK 234
           ++ V + KGG GKST AV++A  L  +GARV   D D+   +L      ENR        
Sbjct: 2   VIVVGNEKGGSGKSTTAVHVAVALLYLGARVATIDLDLRQRTLTRYF--ENRAAWAERTG 59

Query: 235 RTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMP 289
             +   ++L +          G +     +        +   E  E D++VID P
Sbjct: 60  LDLPVPKHLCLPDGEVSEVFDGESADDARL-----EAAVADLE-QEADFIVIDTP 108

MipZ is an ATPase that forms a complex with the chromosome partitioning protein ParB near the chromosomal origin of replication. It is responsible for the temporal and spatial regulation of FtsZ ring formation. Length = 262

>gnl|CDD|130078 TIGR01005, eps_transp_fam, exopolysaccharide transport protein family

 Score = 44.2 bits (104), Expect = 9e-05
 Identities = 31/157 (19%), Positives = 60/157 (38%), Gaps = 27/157 (17%)

Query: 152 MSAQPARPIFAEQL---PEGLQKI-----SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGA 203
           ++ QP RP+  E+L    E + +        +V     +  +GKS +  N A  +A  G 
Sbjct: 518 VADQP-RPVAEEELRVKEEAVAEAKSVAEPEVVETQRPRPVLGKSDIEANAAALIASGGK 576

Query: 204 RVGIFDADVYGPSLPTMVSPENR--LLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMR 261
           R  + DAD    +L  ++       LL++    R+++    L +             ++ 
Sbjct: 577 RALLIDADGRKAALSQILVAREVSGLLDLLAGLRSLL----LDLTAS----GAASLPMLD 628

Query: 262 GPMVSGVINQLLTTTEWGEL--------DYLVIDMPP 290
             +    I +LL +     L        D +V+D+  
Sbjct: 629 SGLFPHGITELLASPAMFSLVIHARLYSDCVVVDVGT 665

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export [Transport and binding proteins, Carbohydrates, organic alcohols, and acids]. Length = 754

>gnl|CDD|223082 COG0003, ArsA, Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

 Score = 43.1 bits (102), Expect = 1e-04
 Identities = 46/193 (23%), Positives = 70/193 (36%), Gaps = 45/193 (23%)

Query: 182 KGGVGKSTVAVNLAYTLAGMGARV------------GIFDADVYGPSLPTMVSPENRLLE 229
           KGGVGK+T+A   A  LA  G +V             +FD ++     P  V P    LE
Sbjct: 10  KGGVGKTTIAAATAVKLAESGKKVLLVSTDPAHSLGDVFDLEL--GHDPRKVGPNLDALE 67

Query: 230 MNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTT------------- 276
           ++PEK      EY                ++R   + G+    L T              
Sbjct: 68  LDPEKAL---EEYWDE------VKDYLARLLRTRGLGGIYADELATLPGIDEALALLKIL 118

Query: 277 ---EWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIV---TTPQKLAFIDVAKGVRMFS 330
                GE D +V+D  P TG   L L   +P      +     P++   +   K +   +
Sbjct: 119 EYYVSGEYDVIVVDTAP-TGHT-LRLLS-LPEVLGWYLEKLFKPRRKRMVKALKSLSTAA 175

Query: 331 KLKVPCIAVVENM 343
              +P  AV+E +
Sbjct: 176 GSPLPDDAVLEAL 188

Length = 322

>gnl|CDD|184261 PRK13705, PRK13705, plasmid-partitioning protein SopA; Provisional

 Score = 43.0 bits (101), Expect = 2e-04
 Identities = 57/240 (23%), Positives = 96/240 (40%), Gaps = 46/240 (19%)

Query: 119 ELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVAV 178
            L  P   ++   EQR   V   I  +N +      +  R    +  P        ++ V
Sbjct: 64  RLPHPDMEMRGRVEQR---VGYTIEQINHMRDVFGTRLRRA--EDVFPP-------VIGV 111

Query: 179 SSCKGGVGKSTVAVNLAYTLAGMGARVGIFD-------ADVYGPSLPTM-VSPENRLL-- 228
           ++ KGGV K++V+V+LA  LA  G RV + +       A +Y   +P + +  E+ LL  
Sbjct: 112 AAHKGGVYKTSVSVHLAQDLALKGLRVLLVEGNDPQGTASMYHGWVPDLHIHAEDTLLPF 171

Query: 229 ---EMNPEKRTIIPTEYLGVKLVS------------FGFSGQGRAIMRGPMVSGVINQLL 273
              E +     I PT + G+ ++              G   +G+     P    ++ +L 
Sbjct: 172 YLGEKDDATYAIKPTCWPGLDIIPSCLALHRIETELMGKFDEGKL----PTDPHLMLRLA 227

Query: 274 TTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLK 333
             T   + D +VID  P  G   +    VV     +IV TP +L   D    ++ F  L+
Sbjct: 228 IETVAHDYDVIVIDSAPNLG---IGTINVVCAADVLIVPTPAEL--FDYTSALQFFDMLR 282

Length = 388

>gnl|CDD|130080 TIGR01007, eps_fam, capsular exopolysaccharide family

 Score = 41.3 bits (97), Expect = 3e-04
 Identities = 46/209 (22%), Positives = 71/209 (33%), Gaps = 52/209 (24%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLP-TMVSPENR------- 226
           ++ ++S K G GKST + N+A   A  G +  + D D+    +  T  S           
Sbjct: 19  VLLITSVKPGEGKSTTSANIAVAFAQAGYKTLLIDGDMRNSVMSGTFKSQNKITGLTNFL 78

Query: 227 ---------LLEMNPEKRTII--------PTEYLGVKLVSFGFSGQGRAIMRGPMVSGVI 269
                    + + N E   +I        PTE L                      S   
Sbjct: 79  SGTTDLSDAICDTNIENLFVITSGPVPPNPTELLQ---------------------SSNF 117

Query: 270 NQLLTTTEWGELDYLVIDMPP-GT-GDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVR 327
             L+ T      DY++ID PP GT  D  +         A+++VT   ++   DV K   
Sbjct: 118 KTLIETLR-KYFDYIIIDTPPIGTVTDAAIIARAC---DASILVTDAGEIKKRDVQKAKE 173

Query: 328 MFSKLKVPCIAVVENMCHFDADGKRYYPF 356
              +     + VV N      D   YY +
Sbjct: 174 QLEQTGSNFLGVVLNKVDISVDKYGYYGY 202

This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes [Transport and binding proteins, Carbohydrates, organic alcohols, and acids]. Length = 204

>gnl|CDD|213809 TIGR03406, FeS_long_SufT, probable FeS assembly SUF system protein SufT

 Score = 39.6 bits (93), Expect = 7e-04
 Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 3/79 (3%)

Query: 77  ENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEAL---GEVSFRLELTTPACPIKDMFEQ 133
           E+ V + L  + DP+   +IV  G V   ++ +       V   + LT P C +  +  +
Sbjct: 75  EDQVWEQLRTVYDPEIPVNIVDLGLVYGCRVEKLGEGQFRVDIEMTLTAPGCGMGPVLVE 134

Query: 134 RANEVVLAIPWVNKVNVTM 152
              + VLA+P V++V V +
Sbjct: 135 DVEDKVLAVPNVDEVEVEL 153

The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see pfamam family pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways [Biosynthesis of cofactors, prosthetic groups, and carriers, Other]. Length = 174

>gnl|CDD|234215 TIGR03453, partition_RepA, plasmid partitioning protein RepA

 Score = 40.7 bits (96), Expect = 0.001
 Identities = 58/184 (31%), Positives = 75/184 (40%), Gaps = 40/184 (21%)

Query: 167 EGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGP--SLPTM--VS 222
           E LQ    ++AV++ KGG GK+T A +LA  LA  G RV   D D   P  SL  +    
Sbjct: 102 EHLQ----VIAVTNFKGGSGKTTTAAHLAQYLALRGYRVLAIDLD---PQASLSALFGYQ 154

Query: 223 PE-----NRLL--------EMNPEKRTIIPTEYLGVKLVSFGFSGQ------GRAIMRG- 262
           PE     N  L        E  P    I  T + G+ LV              RA+ RG 
Sbjct: 155 PEFDVGENETLYGAIRYDDERRPISEIIRKTYFPGLDLVPGNLELMEFEHETPRALSRGQ 214

Query: 263 ---PMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAF 319
               +    + + L   E  + D +VID PP  G   LTL  +   T  +I   PQ L  
Sbjct: 215 GGDTIFFARVGEALAEVE-DDYDVVVIDCPPQLG--FLTLSALCAATGVLITVHPQML-- 269

Query: 320 IDVA 323
            DV 
Sbjct: 270 -DVM 272

Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error [Mobile and extrachromosomal element functions, Plasmid functions]. Length = 387

>gnl|CDD|238996 cd02040, NifH, NifH gene encodes component II (iron protein) of nitrogenase

 Score = 40.3 bits (95), Expect = 0.001
 Identities = 27/81 (33%), Positives = 40/81 (49%), Gaps = 13/81 (16%)

Query: 182 KGGVGKSTVAVNLAYTLAGMGARVGIFDAD---------VYGPSLPTMVS--PENRLLEM 230
           KGG+GKST   NL+  LA MG +V I   D         + G ++PT++    E   +E+
Sbjct: 9   KGGIGKSTTTQNLSAALAEMGKKVMIVGCDPKADSTRLLLGGKAIPTVLDTLREKGEVEL 68

Query: 231 NPEKRTIIPTEYLGVKLVSFG 251
             E   +I   + G+K V  G
Sbjct: 69  ELED--VIFEGFGGIKCVESG 87

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia. Length = 270

>gnl|CDD|139929 PRK13869, PRK13869, plasmid-partitioning protein RepA; Provisional

 Score = 40.4 bits (94), Expect = 0.001
 Identities = 58/213 (27%), Positives = 85/213 (39%), Gaps = 46/213 (21%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTM--VSPE-----NRL 227
           ++AV++ KGG GK+T + +LA  LA  G RV   D D    SL  +  V PE     N  
Sbjct: 123 VIAVTNFKGGSGKTTTSAHLAQYLALQGYRVLAVDLDPQA-SLSALLGVLPETDVGANET 181

Query: 228 L--------EMNPEKRTIIPTEYLGVKLVSFGF--------------SGQGRAIMRGPMV 265
           L           P +  I PT + G+ LV                      R  +    V
Sbjct: 182 LYAAIRYDDTRRPLRDVIRPTYFDGLHLVPGNLELMEFEHTTPKALSDKGTRDGLFFTRV 241

Query: 266 SGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKG 325
           +   +++       + D +VID PP  G   LTL  +   T+ VI   PQ L    +++ 
Sbjct: 242 AQAFDEVAD-----DYDVVVIDCPPQLG--FLTLSGLCAATSMVITVHPQMLDIASMSQF 294

Query: 326 VRMFSKLKVPCIAVVENMCHFDADGKRYYPFGR 358
           + M   L    + VV+     +A G   Y F R
Sbjct: 295 LLMTRDL----LGVVK-----EAGGNLQYDFIR 318

Length = 405

>gnl|CDD|224267 COG1348, NifH, Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]

 Score = 40.0 bits (94), Expect = 0.001
 Identities = 27/82 (32%), Positives = 42/82 (51%), Gaps = 14/82 (17%)

Query: 182 KGGVGKSTVAVNLAYTLAGMGARVGIFDAD---------VYGPSLPTMVS---PENRLLE 229
           KGG+GKST + NLA  LA +G +V I   D         + G ++PT++     +  + +
Sbjct: 9   KGGIGKSTTSQNLAAALAELGKKVLIVGCDPKADSTRLLLGGKAIPTVLDTLREKGEVED 68

Query: 230 MNPEKRTIIPTEYLGVKLVSFG 251
           +  E   +I T + GVK V  G
Sbjct: 69  LELE--DVIFTGFGGVKCVESG 88

Length = 278

>gnl|CDD|238995 cd02038, FleN-like, FleN is a member of the Fer4_NifH superfamily

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 21/79 (26%), Positives = 31/79 (39%), Gaps = 15/79 (18%)

Query: 281 LDYLVIDMPPGTGDIQLTLCQVVPLTAA---VIVTTPQKLAFID----VAKGVRMFSKLK 333
            DY++ID   G  D  L         AA   ++VTTP+  +  D    + K  +    L 
Sbjct: 45  YDYIIIDTGAGISDNVLDF-----FLAADEVIVVTTPEPTSITDAYALIKKLAKQLRVLN 99

Query: 334 VPCIAVVENMCHFDADGKR 352
                VV N      +GK+
Sbjct: 100 ---FRVVVNRAESPKEGKK 115

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. Length = 139

>gnl|CDD|239034 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

 Score = 39.1 bits (92), Expect = 0.002
 Identities = 15/30 (50%), Positives = 19/30 (63%)

Query: 182 KGGVGKSTVAVNLAYTLAGMGARVGIFDAD 211
           KGG+GKST + NL+  LA MG +V     D
Sbjct: 8   KGGIGKSTTSQNLSAALAEMGKKVLQVGCD 37

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate. Length = 212

>gnl|CDD|148565 pfam07015, VirC1, VirC1 protein

 Score = 38.7 bits (90), Expect = 0.003
 Identities = 16/38 (42%), Positives = 22/38 (57%)

Query: 174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD 211
            ++   S KGG GK+T  + L   LA  G RV +F+AD
Sbjct: 2   QLITFCSFKGGAGKTTALMGLCSALASDGKRVALFEAD 39

This family consists of several bacterial VirC1 proteins. 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. Length = 231

>gnl|CDD|139909 PRK13849, PRK13849, putative crown gall tumor protein VirC1; Provisional

 Score = 38.7 bits (90), Expect = 0.003
 Identities = 16/38 (42%), Positives = 22/38 (57%)

Query: 174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD 211
            ++   S KGG GK+T  + L   LA  G RV +F+AD
Sbjct: 2   KLLTFCSFKGGAGKTTALMGLCAALASDGKRVALFEAD 39

Length = 231

>gnl|CDD|234188 TIGR03371, cellulose_yhjQ, cellulose synthase operon protein YhjQ

 Score = 38.5 bits (90), Expect = 0.003
 Identities = 16/38 (42%), Positives = 23/38 (60%)

Query: 174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD 211
            ++A+ S +GGVGK+T+  NLA  L  +G  V   D D
Sbjct: 2   KVIAIVSVRGGVGKTTLTANLASALKLLGEPVLAIDLD 39

Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PMID:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined [Cell envelope, Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides]. Length = 246

>gnl|CDD|233343 TIGR01287, nifH, nitrogenase iron protein

 Score = 38.1 bits (89), Expect = 0.004
 Identities = 23/79 (29%), Positives = 37/79 (46%), Gaps = 9/79 (11%)

Query: 182 KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMV--SPENRLLEM-------NP 232
           KGG+GKST   N+A  LA MG +V I   D    S   ++    +  +L++       + 
Sbjct: 8   KGGIGKSTTTQNIAAALAEMGKKVMIVGCDPKADSTRLLLGGKAQPTVLDVLREKGAEDL 67

Query: 233 EKRTIIPTEYLGVKLVSFG 251
           E   +I   + G++ V  G
Sbjct: 68  ELEDVIKEGFGGIRCVESG 86

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase [Central intermediary metabolism, Nitrogen fixation]. Length = 275

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	386
PRK11670	369	antiporter inner membrane protein; Provisional	100.0
KOG3022	300	consensus Predicted ATPase, nucleotide-binding [Ce	100.0
COG0489	265	Mrp ATPases involved in chromosome partitioning [C	99.98
cd02037	169	MRP-like MRP (Multiple Resistance and pH adaptatio	99.97
CHL00175	281	minD septum-site determining protein; Validated	99.96
TIGR01969	251	minD_arch cell division ATPase MinD, archaeal. Thi	99.96
COG2894	272	MinD Septum formation inhibitor-activating ATPase	99.96
COG0455	262	flhG Antiactivator of flagellar biosynthesis FleN,	99.95
TIGR01968	261	minD_bact septum site-determining protein MinD. Th	99.95
PRK13232	273	nifH nitrogenase reductase; Reviewed	99.95
cd02117	212	NifH_like This family contains the NifH (iron prot	99.95
PRK10818	270	cell division inhibitor MinD; Provisional	99.95
PRK13236	296	nitrogenase reductase; Reviewed	99.94
TIGR03371	246	cellulose_yhjQ cellulose synthase operon protein Y	99.94
PRK13233	275	nifH nitrogenase reductase; Reviewed	99.94
PRK13235	274	nifH nitrogenase reductase; Reviewed	99.94
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	99.94
TIGR01007	204	eps_fam capsular exopolysaccharide family. This mo	99.93
CHL00072	290	chlL photochlorophyllide reductase subunit L	99.93
cd02040	270	NifH NifH gene encodes component II (iron protein)	99.93
PRK13869	405	plasmid-partitioning protein RepA; Provisional	99.93
TIGR03815	322	CpaE_hom_Actino helicase/secretion neighborhood Cp	99.93
cd02032	267	Bchl_like This family of proteins contains bchL an	99.93
cd03110	179	Fer4_NifH_child This protein family's function is	99.93
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	99.93
PRK13234	295	nifH nitrogenase reductase; Reviewed	99.92
PRK13230	279	nitrogenase reductase-like protein; Reviewed	99.92
TIGR03018	207	pepcterm_TyrKin exopolysaccharide/PEPCTERM locus t	99.92
TIGR03029	274	EpsG chain length determinant protein tyrosine kin	99.92
cd02033	329	BchX Chlorophyllide reductase converts chlorophyll	99.92
cd02036	179	MinD Bacterial cell division requires the formatio	99.92
TIGR01287	275	nifH nitrogenase iron protein. This model describe	99.92
TIGR03453	387	partition_RepA plasmid partitioning protein RepA.	99.92
PRK13231	264	nitrogenase reductase-like protein; Reviewed	99.91
PHA02519	387	plasmid partition protein SopA; Reviewed	99.91
PRK13705	388	plasmid-partitioning protein SopA; Provisional	99.91
TIGR02016	296	BchX chlorophyllide reductase iron protein subunit	99.91
PRK10037	250	cell division protein; Provisional	99.91
COG1149	284	MinD superfamily P-loop ATPase containing an inser	99.91
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	99.91
COG1192	259	Soj ATPases involved in chromosome partitioning [C	99.9
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	99.89
PF06564	243	YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ p	99.89
PHA02518	211	ParA-like protein; Provisional	99.89
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	99.88
PF01656	195	CbiA: CobQ/CobB/MinD/ParA nucleotide binding domai	99.88
PRK11519	719	tyrosine kinase; Provisional	99.88
PRK13849	231	putative crown gall tumor protein VirC1; Provision	99.86
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	99.85
cd00550	254	ArsA_ATPase Oxyanion-translocating ATPase (ArsA).	99.84
cd03111	106	CpaE_like This protein family consists of proteins	99.82
cd02035	217	ArsA ArsA ATPase functionas as an efflux pump loca	99.81
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	99.81
COG2151	111	PaaD Predicted metal-sulfur cluster biosynthetic e	99.78
PF00142	273	Fer4_NifH: 4Fe-4S iron sulfur cluster binding prot	99.77
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	99.77
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	99.76
COG1348	278	NifH Nitrogenase subunit NifH (ATPase) [Inorganic	99.76
PRK10867	433	signal recognition particle protein; Provisional	99.75
PF09140	261	MipZ: ATPase MipZ; InterPro: IPR015223 Cell divisi	99.73
PF13614	157	AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ	99.72
COG4963	366	CpaE Flp pilus assembly protein, ATPase CpaE [Intr	99.71
TIGR00959	428	ffh signal recognition particle protein. This mode	99.71
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	99.7
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	99.7
PRK00771	437	signal recognition particle protein Srp54; Provisi	99.65
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	99.63
TIGR00064	272	ftsY signal recognition particle-docking protein F	99.6
TIGR03406	174	FeS_long_SufT probable FeS assembly SUF system pro	99.53
cd03115	173	SRP The signal recognition particle (SRP) mediates	99.53
cd03114	148	ArgK-like The function of this protein family is u	99.52
PF01883	72	DUF59: Domain of unknown function DUF59; InterPro:	99.5
PRK10416	318	signal recognition particle-docking protein FtsY;	99.49
PF10609	81	ParA: ParA/MinD ATPase like; InterPro: IPR019591 T	99.49
PRK00090	222	bioD dithiobiotin synthetase; Reviewed	99.46
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	99.38
TIGR00347	166	bioD dethiobiotin synthase. Dethiobiotin synthase	99.38
cd02034	116	CooC The accessory protein CooC, which contains a	99.34
KOG0780	483	consensus Signal recognition particle, subunit Srp	99.33
PF13500	199	AAA_26: AAA domain; PDB: 3OF5_A 2IOJ_A 4A0G_B 4A0R	99.32
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	99.32
PRK13886	241	conjugal transfer protein TraL; Provisional	99.31
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	99.31
PRK12374	231	putative dithiobiotin synthetase; Provisional	99.3
PRK01077	451	cobyrinic acid a,c-diamide synthase; Validated	99.29
TIGR02945	99	SUF_assoc FeS assembly SUF system protein. Members	99.29
PRK14974	336	cell division protein FtsY; Provisional	99.29
cd03109	134	DTBS Dethiobiotin synthetase (DTBS) is the penulti	99.28
KOG2825	323	consensus Putative arsenite-translocating ATPase [	99.28
COG0132	223	BioD Dethiobiotin synthetase [Coenzyme metabolism]	99.26
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	99.24
PRK13768	253	GTPase; Provisional	99.24
TIGR02159	146	PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subu	99.23
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	99.23
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	99.21
TIGR00313	475	cobQ cobyric acid synthase CobQ.	99.21
PRK05632	684	phosphate acetyltransferase; Reviewed	99.2
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	99.14
PRK00784	488	cobyric acid synthase; Provisional	99.13
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	99.11
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	99.07
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	99.05
TIGR00345	284	arsA arsenite-activated ATPase (arsA). The N-termi	99.04
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	99.0
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	98.97
COG1797	451	CobB Cobyrinic acid a,c-diamide synthase [Coenzyme	98.96
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	98.96
TIGR00379	449	cobB cobyrinic acid a,c-diamide synthase. This mod	98.94
PRK13505	557	formate--tetrahydrofolate ligase; Provisional	98.9
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	98.88
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.86
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.84
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	98.8
PRK06278	476	cobyrinic acid a,c-diamide synthase; Validated	98.76
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	98.75
PRK13896	433	cobyrinic acid a,c-diamide synthase; Provisional	98.73
KOG0781	587	consensus Signal recognition particle receptor, al	98.72
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	98.61
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	98.59
COG1492	486	CobQ Cobyric acid synthase [Coenzyme metabolism]	98.44
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	98.25
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	98.19
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	98.06
COG1341	398	Predicted GTPase or GTP-binding protein [General f	97.96
cd00477	524	FTHFS Formyltetrahydrofolate synthetase (FTHFS) ca	97.92
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	97.89
PRK13506	578	formate--tetrahydrofolate ligase; Provisional	97.85
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	97.85
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	97.84
PLN02974	817	adenosylmethionine-8-amino-7-oxononanoate transami	97.84
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	97.8
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	97.77
COG0857	354	Pta BioD-like N-terminal domain of phosphotransace	97.73
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	97.69
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	97.63
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	97.63
PRK14494	229	putative molybdopterin-guanine dinucleotide biosyn	97.58
cd00881	189	GTP_translation_factor GTP translation factor fami	97.57
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	97.52
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	97.51
cd03116	159	MobB Molybdenum is an essential trace element in t	97.46
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	97.43
PRK00089	292	era GTPase Era; Reviewed	97.42
PRK00741	526	prfC peptide chain release factor 3; Provisional	97.39
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	97.36
PRK14495	452	putative molybdopterin-guanine dinucleotide biosyn	97.34
cd03112	158	CobW_like The function of this protein family is u	97.34
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.34
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	97.32
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.3
PRK04296	190	thymidine kinase; Provisional	97.3
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	97.29
TIGR00503	527	prfC peptide chain release factor 3. This translat	97.27
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	97.26
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	97.26
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	97.25
PRK12740	668	elongation factor G; Reviewed	97.22
KOG1533	290	consensus Predicted GTPase [General function predi	97.22
PRK00889	175	adenylylsulfate kinase; Provisional	97.2
PRK00007	693	elongation factor G; Reviewed	97.18
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	97.17
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.17
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.15
COG3367	339	Uncharacterized conserved protein [Function unknow	97.15
PRK08233	182	hypothetical protein; Provisional	97.13
COG1159	298	Era GTPase [General function prediction only]	97.1
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	97.07
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	97.05
PRK00049	396	elongation factor Tu; Reviewed	97.04
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	97.04
PRK00093	435	GTP-binding protein Der; Reviewed	97.03
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	97.02
PF07755	301	DUF1611: Protein of unknown function (DUF1611); In	97.01
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	97.0
PRK12739	691	elongation factor G; Reviewed	96.99
COG2403	449	Predicted GTPase [General function prediction only	96.98
PLN03127	447	Elongation factor Tu; Provisional	96.97
PRK14489	366	putative bifunctional molybdopterin-guanine dinucl	96.95
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	96.95
PRK07667	193	uridine kinase; Provisional	96.94
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.94
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	96.93
PRK06067	234	flagellar accessory protein FlaH; Validated	96.91
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	96.9
cd03113	255	CTGs CTP synthetase (CTPs) is a two-domain protein	96.9
COG1160	444	Predicted GTPases [General function prediction onl	96.89
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	96.86
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	96.86
KOG0635	207	consensus Adenosine 5'-phosphosulfate kinase [Inor	96.82
PRK03846	198	adenylylsulfate kinase; Provisional	96.8
PRK10218	607	GTP-binding protein; Provisional	96.79
PRK13351	687	elongation factor G; Reviewed	96.77
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	96.76
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.76
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	96.76
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.75
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	96.73
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	96.72
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	96.71
PRK15453	290	phosphoribulokinase; Provisional	96.71
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	96.69
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	96.68
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.67
PRK12736	394	elongation factor Tu; Reviewed	96.66
PRK14491	597	putative bifunctional molybdopterin-guanine dinucl	96.65
smart00382	148	AAA ATPases associated with a variety of cellular	96.64
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	96.59
PRK12735	396	elongation factor Tu; Reviewed	96.58
PRK06696	223	uridine kinase; Validated	96.57
TIGR00485	394	EF-Tu translation elongation factor TU. This align	96.56
PRK05973	237	replicative DNA helicase; Provisional	96.55
PRK06762	166	hypothetical protein; Provisional	96.54
PTZ00141	446	elongation factor 1- alpha; Provisional	96.54
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.54
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.53
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	96.53
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	96.52
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	96.52
CHL00071	409	tufA elongation factor Tu	96.5
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.49
PRK07952	244	DNA replication protein DnaC; Validated	96.47
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.47
PF13479	213	AAA_24: AAA domain	96.44
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	96.44
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	96.42
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	96.4
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	96.39
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	96.39
PHA02542	473	41 41 helicase; Provisional	96.37
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	96.37
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.36
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	96.33
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	96.32
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	96.32
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	96.31
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	96.31
PRK05480	209	uridine/cytidine kinase; Provisional	96.31
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	96.3
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	96.28
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	96.27
PRK00652	325	lpxK tetraacyldisaccharide 4'-kinase; Reviewed	96.27
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.27
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.27
PLN03126	478	Elongation factor Tu; Provisional	96.26
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	96.26
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	96.24
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	96.23
PRK15494	339	era GTPase Era; Provisional	96.22
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	96.19
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	96.17
PRK07414	178	cob(I)yrinic acid a,c-diamide adenosyltransferase;	96.17
KOG1534	273	consensus Putative transcription factor FET5 [Tran	96.16
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	96.16
PF00154	322	RecA: recA bacterial DNA recombination protein; In	96.16
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	96.16
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	96.15
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	96.14
PRK11537	318	putative GTP-binding protein YjiA; Provisional	96.13
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	96.13
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	96.12
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	96.12
PLN00043	447	elongation factor 1-alpha; Provisional	96.12
PRK04328	249	hypothetical protein; Provisional	96.1
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.1
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	96.1
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	96.09
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	96.09
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	96.07
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	96.07
PRK05541	176	adenylylsulfate kinase; Provisional	96.06
PRK05433	600	GTP-binding protein LepA; Provisional	96.06
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	96.05
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	96.05
PF13245	76	AAA_19: Part of AAA domain	96.05
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.05
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	96.04
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	96.03
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	96.01
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	96.0
PRK03003	472	GTP-binding protein Der; Reviewed	95.99
PTZ00416	836	elongation factor 2; Provisional	95.99
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	95.98
PHA00729	226	NTP-binding motif containing protein	95.98
TIGR00682	311	lpxK tetraacyldisaccharide 4'-kinase. Also called	95.96
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	95.94
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	95.94
PRK09302	509	circadian clock protein KaiC; Reviewed	95.92
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	95.91
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	95.9
smart00178	184	SAR Sar1p-like members of the Ras-family of small	95.9
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	95.89
COG0523	323	Putative GTPases (G3E family) [General function pr	95.89
COG3598	402	RepA RecA-family ATPase [DNA replication, recombin	95.88
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.88
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	95.87
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	95.87
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	95.84
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	95.82
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	95.81
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	95.81
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	95.8
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	95.8
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	95.78
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	95.78
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	95.77
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	95.77
PRK05439	311	pantothenate kinase; Provisional	95.77
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	95.74
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	95.72
COG1484	254	DnaC DNA replication protein [DNA replication, rec	95.67
PRK12317	425	elongation factor 1-alpha; Reviewed	95.67
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	95.66
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	95.61
PLN03110	216	Rab GTPase; Provisional	95.59
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	95.57
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	95.56
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	95.55
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	95.51
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	95.5
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	95.49
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	95.47
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	95.47
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	95.46
PRK06526	254	transposase; Provisional	95.45
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	95.43
PLN03118	211	Rab family protein; Provisional	95.43
PRK05306	787	infB translation initiation factor IF-2; Validated	95.41
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	95.4
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	95.37
cd00983	325	recA RecA is a bacterial enzyme which has roles in	95.31
PTZ00133	182	ADP-ribosylation factor; Provisional	95.3
COG0050	394	TufB GTPases - translation elongation factors [Tra	95.3
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	95.3
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	95.26
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.26
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	95.25
PRK09183	259	transposase/IS protein; Provisional	95.23
PF02572	172	CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase	95.22
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	95.21
PF01935	229	DUF87: Domain of unknown function DUF87; InterPro:	95.2
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	95.2
KOG2749	415	consensus mRNA cleavage and polyadenylation factor	95.2
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	95.18
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	95.14
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	95.12
CHL00189	742	infB translation initiation factor 2; Provisional	95.11
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	95.1
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	95.07
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	95.07
PRK12377	248	putative replication protein; Provisional	95.06
PRK00093	435	GTP-binding protein Der; Reviewed	95.01
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	95.01
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	95.01
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	94.99
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	94.99
PRK06835	329	DNA replication protein DnaC; Validated	94.99
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	94.98
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	94.96
PRK06217	183	hypothetical protein; Validated	94.95
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	94.92
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	94.88
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	94.88
PRK07560	731	elongation factor EF-2; Reviewed	94.87
PLN00116	843	translation elongation factor EF-2 subunit; Provis	94.86
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	94.86
COG4240	300	Predicted kinase [General function prediction only	94.85
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	94.84
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	94.83
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	94.83
PRK05595	444	replicative DNA helicase; Provisional	94.83
PLN00223	181	ADP-ribosylation factor; Provisional	94.83
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	94.82
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	94.8
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	94.78
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	94.77
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	94.77
PF01268	557	FTHFS: Formate--tetrahydrofolate ligase; InterPro:	94.74
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	94.74
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	94.71
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	94.71
PRK13507	587	formate--tetrahydrofolate ligase; Provisional	94.69
PRK09354	349	recA recombinase A; Provisional	94.68
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	94.67
PRK08506	472	replicative DNA helicase; Provisional	94.65
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	94.64
PRK01906	338	tetraacyldisaccharide 4'-kinase; Provisional	94.63
PRK08118	167	topology modulation protein; Reviewed	94.62
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	94.59
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	94.57
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	94.57
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	94.56
PRK11823	446	DNA repair protein RadA; Provisional	94.54
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	94.53
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	94.51
PLN02759	637	Formate--tetrahydrofolate ligase	94.51
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	94.5
PRK06749	428	replicative DNA helicase; Provisional	94.48
PLN02924	220	thymidylate kinase	94.48
PRK00131	175	aroK shikimate kinase; Reviewed	94.46
PRK08903	227	DnaA regulatory inactivator Hda; Validated	94.43
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	94.39
PRK04004	586	translation initiation factor IF-2; Validated	94.39
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	94.38
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	94.35
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	94.35
PRK08727	233	hypothetical protein; Validated	94.33
PRK09519	790	recA DNA recombination protein RecA; Reviewed	94.33
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	94.29
PRK08939	306	primosomal protein DnaI; Reviewed	94.29
PRK08181	269	transposase; Validated	94.29
PRK08760	476	replicative DNA helicase; Provisional	94.27
PRK05642	234	DNA replication initiation factor; Validated	94.27
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	94.26
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	94.26
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	94.21
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	94.12
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	94.09
PLN03046	460	D-glycerate 3-kinase; Provisional	94.08
PLN03108	210	Rab family protein; Provisional	94.05
TIGR00235	207	udk uridine kinase. Model contains a number of lon	94.03
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	93.99
TIGR00665	434	DnaB replicative DNA helicase. This model describe	93.99
PRK04040	188	adenylate kinase; Provisional	93.98
PRK03003	472	GTP-binding protein Der; Reviewed	93.98
PRK08006	471	replicative DNA helicase; Provisional	93.97
PRK07933	213	thymidylate kinase; Validated	93.96
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	93.95
COG2759	554	MIS1 Formyltetrahydrofolate synthetase [Nucleotide	93.93
COG1084	346	Predicted GTPase [General function prediction only	93.92
PF13173	128	AAA_14: AAA domain	93.92
PRK06893	229	DNA replication initiation factor; Validated	93.88
PRK06921	266	hypothetical protein; Provisional	93.88
KOG0460	449	consensus Mitochondrial translation elongation fac	93.87
PF06418	276	CTP_synth_N: CTP synthase N-terminus; InterPro: IP	93.87
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	93.86
PF05729	166	NACHT: NACHT domain	93.83
PRK11058	426	GTPase HflX; Provisional	93.82
PF12846	304	AAA_10: AAA-like domain	93.8
PTZ00035	337	Rad51 protein; Provisional	93.79
COG1663	336	LpxK Tetraacyldisaccharide-1-P 4'-kinase [Cell env	93.76
PRK06547	172	hypothetical protein; Provisional	93.75
PLN02796	347	D-glycerate 3-kinase	93.74
PRK05748	448	replicative DNA helicase; Provisional	93.72
PRK08840	464	replicative DNA helicase; Provisional	93.68
PRK06904	472	replicative DNA helicase; Validated	93.65
PTZ00386	625	formyl tetrahydrofolate synthetase; Provisional	93.6
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	93.59
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	93.58
PRK06761	282	hypothetical protein; Provisional	93.57
KOG2743	391	consensus Cobalamin synthesis protein [Coenzyme tr	93.56
PRK08116	268	hypothetical protein; Validated	93.55
PRK07261	171	topology modulation protein; Provisional	93.54
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	93.54
PRK12297	424	obgE GTPase CgtA; Reviewed	93.52
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	93.51
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	93.51
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	93.5
PRK03731	171	aroL shikimate kinase II; Reviewed	93.5
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	93.45
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	93.44
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	93.43
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	93.42
PRK14490	369	putative bifunctional molybdopterin-guanine dinucl	93.37
PTZ00301	210	uridine kinase; Provisional	93.37
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	93.36
PRK12298	390	obgE GTPase CgtA; Reviewed	93.35
PRK06321	472	replicative DNA helicase; Provisional	93.34
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	93.32
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	93.31
PRK08084	235	DNA replication initiation factor; Provisional	93.31
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	93.26
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	93.24
PRK00698	205	tmk thymidylate kinase; Validated	93.23
PRK06851	367	hypothetical protein; Provisional	93.22
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	93.16
COG2229	187	Predicted GTPase [General function prediction only	93.14
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	93.11
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	93.11
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	93.1
PRK00081	194	coaE dephospho-CoA kinase; Reviewed	93.09
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	93.08
KOG3381	161	consensus Uncharacterized conserved protein [Funct	93.07
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	93.06
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	93.05
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	93.04
PRK09165	497	replicative DNA helicase; Provisional	93.03
PF00004	132	AAA: ATPase family associated with various cellula	93.02
PHA02530	300	pseT polynucleotide kinase; Provisional	93.01
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	92.99
PRK13946	184	shikimate kinase; Provisional	92.99
TIGR02236	310	recomb_radA DNA repair and recombination protein R	92.99
COG2109	198	BtuR ATP:corrinoid adenosyltransferase [Coenzyme m	92.98
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	92.93
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	92.93
PRK05636	505	replicative DNA helicase; Provisional	92.88
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	92.85
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	92.79
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	92.76
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	92.68
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	92.66

>PRK11670 antiporter inner membrane protein; Provisional

Probab=100.00  E-value=1.5e-46  Score=365.11  Aligned_cols=308  Identities=35%  Similarity=0.561  Sum_probs=251.8

Q ss_pred             cccHHHHHHHhccCCCCCCCCCccccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeEEEEE
Q 016622           74 GTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMS  153 (386)
Q Consensus        74 ~~~~~~i~~~L~~V~dPe~~~div~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~v~l~  153 (386)
                      +..+++|+++|++|+||+++.||+++|+|+++.+++  +.+.+.+.++.++||..+.+++++++++..++|++++++++.
T Consensus        11 ~~~~~~v~~~l~~v~~p~~~~~~~~~~~v~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (369)
T PRK11670         11 EALRAMVAGTLANFQHPTLKHNLTTLKALHHVALLD--DTLHIELVMPFVWNSAFEELKEQCSAELLRITGAKAIDWKLS   88 (369)
T ss_pred             cchHHHHHHHHhcCCCCCCCCChhhhCCeeEEEEeC--CEEEEEEEECCCCchHHHHHHHHHHHHHHhcCCCceEEEEEe
Confidence            357799999999999999999999999999999988  789999999999999999999999999999999999988877


Q ss_pred             eCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCC
Q 016622          154 AQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPE  233 (386)
Q Consensus       154 ~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~  233 (386)
                      ...... ....-...+.++.++|+|+|+|||+||||+|+|||.+||+.|+||++||+|+++++++.+||........ ..
T Consensus        89 ~~~~~~-~~~~~~~~~~~~~~vIaV~S~KGGVGKTT~avNLA~aLA~~G~rVlLID~D~qgps~~~~lg~~~~~~~~-~~  166 (369)
T PRK11670         89 HNIATL-KRVNNQPGVNGVKNIIAVSSGKGGVGKSSTAVNLALALAAEGAKVGILDADIYGPSIPTMLGAEDQRPTS-PD  166 (369)
T ss_pred             eehhhh-ccccccccCCCCCEEEEEeCCCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCCCCCCcchhcCCcccCCcc-cC
Confidence            542210 0001123567788999999999999999999999999999999999999999999999999864321111 11


Q ss_pred             CCceeeeccCCceEEecCCC--CCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEE
Q 016622          234 KRTIIPTEYLGVKLVSFGFS--GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIV  311 (386)
Q Consensus       234 ~~~i~~~~~~~l~vl~~~~~--~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV  311 (386)
                      ...+.+....++...+.+..  ......|++++....+.+++....|++||||||||||++++..+.+.++.++|.+++|
T Consensus       167 ~~~i~p~~~~g~~~~~~~~l~~~~~~~i~~g~~~~~~l~~~l~~~~~~~yDyvIID~PPg~gd~~l~~~~l~aad~viiV  246 (369)
T PRK11670        167 GTHMAPIMAHGLATNSIGYLVTDDNAMVWRGPMASKALMQMLQETLWPDLDYLVLDMPPGTGDIQLTLAQNIPVTGAVVV  246 (369)
T ss_pred             CceeeeeeccCcccccHHHhcCcCcceeecCcchHHHHHHHHHHHhhccCCEEEEeCCCCCchHHHHHhhhccCCeEEEE
Confidence            22344433444443333221  2233557787777788888865556899999999999999987877778888999999


Q ss_pred             eCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCC--CceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          312 TTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDAD--GKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       312 ~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~--~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      ++|+..++.++.+.++++++.+++++|+|+||+++.+.  ++..+.|+++..+++++.++.++++.||+++.++++
T Consensus       247 ~tp~~~s~~da~~~i~~~~~~~~~ilGiV~Nm~~~~~~~~~~~~~if~~~~~~~lae~~~~~ll~~IP~~~~I~ea  322 (369)
T PRK11670        247 TTPQDIALIDAKKGIVMFEKVEVPVLGIVENMSMHICSNCGHHEPIFGTGGAEKLAEKYHTQLLGQMPLHISLRED  322 (369)
T ss_pred             ecCchhHHHHHHHHHHHHhccCCCeEEEEEcCCccccCCccchhhhcccchHHHHHHHcCCcEEEEeCCChHHHHH
Confidence            99999999999999999999999999999999887653  344456788889999999999999999999999876

>KOG3022 consensus Predicted ATPase, nucleotide-binding [Cell cycle control, cell division, chromosome partitioning]

Probab=100.00  E-value=4.3e-40  Score=295.53  Aligned_cols=255  Identities=40%  Similarity=0.632  Sum_probs=211.8

Q ss_pred             CCchHHHHHHHHHHhhcCCCcceeEEEEEeCCCCchh-cccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCC
Q 016622          125 CPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIF-AEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGA  203 (386)
Q Consensus       125 cp~~~~i~~~i~e~l~~l~gv~~v~v~l~~~p~~~~~-~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~  203 (386)
                      ||..+.....-.+.....+.++....    .|..+.. ....+.++.+..++|+|.|+||||||||+|+|||.+||+.|+
T Consensus         2 cpg~~s~~ag~~~~~~g~~~~~~~~~----~~~~~~~~~~~~~~~l~~vk~iI~VlSGKGGVGKSTvt~nla~~La~~g~   77 (300)
T KOG3022|consen    2 CPGVLSSEAGKAEECAGCPNVGYCSS----SPVQPDPDIPAKQENLSGVKHIILVLSGKGGVGKSTVTVNLALALASEGK   77 (300)
T ss_pred             CCCcchhhhcchhhccCCcccccccc----CCcCcCCCcccccccccccceEEEEEeCCCCCchhHHHHHHHHHHhcCCC
Confidence            55555554444555555554443322    2221111 012245788889999999999999999999999999999999


Q ss_pred             cEEEEEcCCCCCCCCccCCCcccccccCCCCCceee-eccCCceEEecCCCC---CcccccCCchHHHHHHHHHHhcCCC
Q 016622          204 RVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIP-TEYLGVKLVSFGFSG---QGRAIMRGPMVSGVINQLLTTTEWG  279 (386)
Q Consensus       204 rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~-~~~~~l~vl~~~~~~---~~~~~~~~~~~~~~l~~ll~~~~~~  279 (386)
                      +|+++|+|..+|+++.++|.+.+....  ......| ....++.+++.++..   ++..+|+++....++++++....|+
T Consensus        78 ~vglLD~Dl~GPSiP~m~g~e~~~~~~--~~~g~~Pv~~~~~l~~mS~gfLl~~~~~~vIwRGpkk~~~I~qflk~vdwg  155 (300)
T KOG3022|consen   78 KVGLLDADLCGPSIPRMMGLEGEVVHQ--SDNGWIPVVVNKNLKLMSMGFLLKPRDDSVIWRGPKKNSMIKQFLKDVDWG  155 (300)
T ss_pred             cEEEEeecccCCCchhhcCCCCceeee--cCCCceeeeecCCeEEEEeeeecCCCCccceeechHHHHHHHHHHhcCCCC
Confidence            999999999999999999998875222  2333444 566799999999764   4568899999999999999999999


Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCC-CeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCC--Cceeccc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPL-TAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDAD--GKRYYPF  356 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~-d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~--~~~~~~~  356 (386)
                      +.||+|||||||++|.++++.+...- |++++|++|+..++.++++.++++++.+++++|+|.||+.+.+.  ++..+.|
T Consensus       156 ~lDyLviDtPPGtsDehls~~~~~~~~~gAviVTTPQ~vAl~Dv~K~i~fc~K~~I~ilGvVENMs~f~Cp~C~~~~~iF  235 (300)
T KOG3022|consen  156 ELDYLVIDTPPGTSDEHLSLVQFLRESDGAVIVTTPQEVALQDVRKEIDFCRKAGIPILGVVENMSGFVCPKCGHSTNIF  235 (300)
T ss_pred             CcCEEEEeCCCCCChhhhheeecccccCceEEEeCchhhhhHHHHhhhhhhhhcCCceEEEEeccccccCCCCCCcceec
Confidence            99999999999999999998877765 88999999999999999999999999999999999999999884  7777889


Q ss_pred             CCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          357 GRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       357 ~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      +.+..+++++.+|+|++|.||.|+.+.++
T Consensus       236 ~~gGg~~l~~~~glp~Lg~iPld~~i~~~  264 (300)
T KOG3022|consen  236 GSGGGERLAEELGLPLLGSLPLDPLIAES  264 (300)
T ss_pred             cCccHHHHHHHcCCCeEeecCCCHHHHHh
Confidence            99999999999999999999999999886

>COG0489 Mrp ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=99.98  E-value=2.2e-31  Score=247.89  Aligned_cols=205  Identities=42%  Similarity=0.632  Sum_probs=170.4

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccc--cccCC---CCCceeeeccCCc
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL--LEMNP---EKRTIIPTEYLGV  245 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~--~~~~~---~~~~i~~~~~~~l  245 (386)
                      +..++|+|+|+|||+||||+|.|||.++|++|+||+++|+|.++|+++.+|+.++..  .....   ....+......++
T Consensus        55 ~~~~~I~V~S~kgGvGKStva~nLA~alA~~G~rVlliDaD~~gps~~~~l~~~~~~g~~~~~~g~~~~~~~~~~~~~~l  134 (265)
T COG0489          55 GVKNVIAVTSGKGGVGKSTVAVNLAAALAQLGKRVLLLDADLRGPSIPRMLGLENLPGLTELLAGEALEPVIQHDGIKVL  134 (265)
T ss_pred             ccceEEEEEeCCCCCcHHHHHHHHHHHHHhcCCcEEEEeCcCCCCchHHHhCCCCCCCcccccCCCccccceecCccceE
Confidence            467899999999999999999999999999999999999999999999999986531  11111   1111222223456


Q ss_pred             eEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHH
Q 016622          246 KLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKG  325 (386)
Q Consensus       246 ~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~  325 (386)
                      ++++.+.   ....|++.+.+..+.+++..++|+.|||||||+||++++..+.+.+... |.+++|++|+.....++++.
T Consensus       135 si~~~~~---~p~~~r~~l~s~~~~qll~~~~~~~~D~vIID~PP~~g~~d~~i~~~~~-~g~viVt~p~~~~~~~v~ka  210 (265)
T COG0489         135 SILPLGP---VPVIPRGLLGSKAMLQLLEDVLWGEYDYVIIDTPPGTGDADATVLQRIP-DGVVIVTTPGKTALEDVKKA  210 (265)
T ss_pred             EEEecCC---CCCCChHhhhhHHHHHHHHHHhccCCCEEEEeCCCCchHHHHHHHhccC-CeEEEEeCCccchHHHHHHH
Confidence            6665554   6677899999999999999999988999999999999998888766554 79999999999999999999


Q ss_pred             HHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          326 VRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       326 ~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      ++++++.+.+++|+|+||.++.+....     ++..+.+.+.++ ++++.+|.++.+++.
T Consensus       211 ~~~~~~~~~~vlGvv~Nm~~~~~~~~~-----~g~~~~~~~~~~-~~~g~~p~~~~~~~~  264 (265)
T COG0489         211 IDMLEKAGIPVLGVVENMSYFICPRCG-----EGGGEKYAERYG-PYLGSIPLDPSAREA  264 (265)
T ss_pred             HHHHHhcCCceEEEEecCccCcccccC-----CCchhhHHHHhc-cccccCCCChhhhhc
Confidence            999999999999999999988774221     456788899999 999999999988764

>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

Probab=99.97  E-value=4.5e-29  Score=218.23  Aligned_cols=167  Identities=57%  Similarity=0.993  Sum_probs=134.9

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSG  254 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~  254 (386)
                      +|+|+|+|||+||||+|.|||.++|+.|+||++||+|+++++++.+.                                 
T Consensus         1 vi~v~s~kgG~GKTt~a~~LA~~la~~g~~vllvD~D~q~~~~~~~~---------------------------------   47 (169)
T cd02037           1 VIAVMSGKGGVGKSTVAVNLALALAKLGYKVGLLDADIYGPSIPKMW---------------------------------   47 (169)
T ss_pred             CEEEecCCCcCChhHHHHHHHHHHHHcCCcEEEEeCCCCCCCchHHH---------------------------------
Confidence            58999999999999999999999999999999999999997664320                                 


Q ss_pred             CcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCC
Q 016622          255 QGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKV  334 (386)
Q Consensus       255 ~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~  334 (386)
                            +++.....++.+++...+++|||||||+||+.++.......+..+|.+++|++|+..++.++.+.++.+++.+.
T Consensus        48 ------~~~~~~~~l~~~~~~~~~~~yD~VIiD~pp~~~~~~~~~~~~~~ad~viiV~~p~~~s~~~~~~~~~~l~~~~~  121 (169)
T cd02037          48 ------RGPMKMGAIKQFLTDVDWGELDYLVIDMPPGTGDEHLTLAQSLPIDGAVIVTTPQEVALDDVRKAIDMFKKVNI  121 (169)
T ss_pred             ------hCcchHHHHHHHHHHhhcCCCCEEEEeCCCCCcHHHHHHHhccCCCeEEEEECCchhhHHHHHHHHHHHHhcCC
Confidence                  01112234555555544478999999999998876654432356799999999999999999999999999999


Q ss_pred             CeEEEEEcCCcCCC--CCceecccCCChHHHHHHHhCCCeEEecCCCh
Q 016622          335 PCIAVVENMCHFDA--DGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRP  380 (386)
Q Consensus       335 ~i~gvVlN~~~~~~--~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~  380 (386)
                      ++.|+|+||+....  ..+....|.....+++++.++.++++.||+++
T Consensus       122 ~~~gvv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ip~~~  169 (169)
T cd02037         122 PILGVVENMSYFVCPHCGKKIYIFGKGGGEKLAEELGVPLLGKIPLDP  169 (169)
T ss_pred             CeEEEEEcCCcccCCCCCCcccccCCccHHHHHHHcCCCEEEeccCCC
Confidence            99999999987632  23333344556889999999999999999986

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.

>CHL00175 minD septum-site determining protein; Validated

Probab=99.96  E-value=3.2e-28  Score=230.01  Aligned_cols=207  Identities=25%  Similarity=0.332  Sum_probs=155.3

Q ss_pred             cccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccc--------cccCCCCCceee
Q 016622          168 GLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL--------LEMNPEKRTIIP  239 (386)
Q Consensus       168 ~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~--------~~~~~~~~~i~~  239 (386)
                      +.++++++|+|+|+|||+||||+|+|||.+|+++|+||++||+|++.++++.++|.+...        .........+..
T Consensus        10 ~~~~~~~vi~v~s~KGGvGKTt~a~nLA~~La~~g~~vlliD~D~~~~~l~~~lg~~~~~~~~~~d~l~~~~~l~~~~~~   89 (281)
T CHL00175         10 KSATMSRIIVITSGKGGVGKTTTTANLGMSIARLGYRVALIDADIGLRNLDLLLGLENRVLYTAMDVLEGECRLDQALIR   89 (281)
T ss_pred             hcCCCceEEEEEcCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCCCChhhhcCCCCCCCCCHHHHHcCCCChhhheee
Confidence            345678999999999999999999999999999999999999999988999888876321        011112222222


Q ss_pred             -eccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcch
Q 016622          240 -TEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLA  318 (386)
Q Consensus       240 -~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s  318 (386)
                       ...++++++|.+...... .+.    ...+.++++.+.+.+||||||||||+.+......  +..+|.+++|++|+..+
T Consensus        90 ~~~~~~l~~l~~~~~~~~~-~~~----~~~l~~~l~~l~~~~yD~VIiDtpp~~~~~~~~~--l~~aD~viiV~~p~~~s  162 (281)
T CHL00175         90 DKRWKNLSLLAISKNRQRY-NVT----RKNMNMLVDSLKNRGYDYILIDCPAGIDVGFINA--IAPAQEAIVVTTPEITA  162 (281)
T ss_pred             cCCCCCeEEEeCCCchhhc-cCC----HHHHHHHHHHHHhCCCCEEEEeCCCCCCHHHHHH--HHhcCeeEEEcCCChHH
Confidence             245799999977543221 122    2245556655542389999999999987544333  55679999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          319 FIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       319 ~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      +.++.++++.+++.+....++|+|++........    .....+++++.++.++++.||+|+.+.++
T Consensus       163 i~~~~~~~~~l~~~~~~~~~lvvN~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~Ip~d~~v~~a  225 (281)
T CHL00175        163 IRDADRVAGLLEANGIYNVKLLVNRVRPDMIQAN----DMMSVRDVQEMLGIPLLGAIPEDENVIIS  225 (281)
T ss_pred             HHHHHHHHHHHHHcCCCceEEEEeccChhhhhhh----ccccHHHHHHHhCCCeEEEccCCHhHHHH
Confidence            9999999999998887788999999875432111    01235778899999999999999998775

>TIGR01969 minD_arch cell division ATPase MinD, archaeal

Probab=99.96  E-value=3.4e-28  Score=225.71  Aligned_cols=196  Identities=26%  Similarity=0.369  Sum_probs=147.9

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc---cccc----CCCCCceeeeccCCce
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR---LLEM----NPEKRTIIPTEYLGVK  246 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~---~~~~----~~~~~~i~~~~~~~l~  246 (386)
                      ++|+|+|+|||+||||+|+|||.+|+++|+||++||+|+++++++.++|.+..   +...    ....+.+. ....|++
T Consensus         1 ~ii~v~~~KGGvGKTt~a~~LA~~la~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~   79 (251)
T TIGR01969         1 RIITIASGKGGTGKTTITANLGVALAKLGKKVLALDADITMANLELILGMEDKPVTLHDVLAGEADIKDAIY-EGPFGVK   79 (251)
T ss_pred             CEEEEEcCCCCCcHHHHHHHHHHHHHHCCCeEEEEeCCCCCccceeEeCCCCCCCCHHHHhcCCCCHHHheE-eCCCCEE
Confidence            48999999999999999999999999999999999999998889988887542   1111    11112222 2346899


Q ss_pred             EEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHH
Q 016622          247 LVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGV  326 (386)
Q Consensus       247 vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~  326 (386)
                      ++|.+..........    ...+.+++..+. +.|||||||+||+.+......  +..+|.+++|++++..++.++.+..
T Consensus        80 ~lp~~~~~~~~~~~~----~~~l~~~l~~l~-~~yD~VIiD~p~~~~~~~~~~--l~~ad~vliv~~~~~~s~~~~~~~~  152 (251)
T TIGR01969        80 VIPAGVSLEGLRKAD----PDKLEDVLKEII-DDTDFLLIDAPAGLERDAVTA--LAAADELLLVVNPEISSITDALKTK  152 (251)
T ss_pred             EEeCCCCHHHHhhcC----HHHHHHHHHHHH-hhCCEEEEeCCCccCHHHHHH--HHhCCeEEEEECCCCchHHHHHHHH
Confidence            999775332221111    224555555554 789999999999998655443  5678999999999999999998888


Q ss_pred             HHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          327 RMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       327 ~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      +.++..+.++.|+|+|+++....        ....+.+.+.++.++++.||+++.+.++
T Consensus       153 ~~~~~~~~~~~~vv~N~~~~~~~--------~~~~~~l~~~~~~~~l~~Ip~~~~~~~a  203 (251)
T TIGR01969       153 IVAEKLGTAILGVVLNRVTRDKT--------ELGREEIETILEVPVLGVVPEDPEVRRA  203 (251)
T ss_pred             HHHHhcCCceEEEEEECCCchhh--------hhHHHHHHHhhCCcEEEEecCCHhHHHH
Confidence            88888888899999999875321        1234677777899999999999998765

This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown.

>COG2894 MinD Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]

Probab=99.96  E-value=1.3e-28  Score=214.18  Aligned_cols=203  Identities=23%  Similarity=0.269  Sum_probs=154.9

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccc--------cCCCCC-ceeeecc
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLE--------MNPEKR-TIIPTEY  242 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~--------~~~~~~-~i~~~~~  242 (386)
                      |+++|.||||||||||||+++||+.+||++|+||++||+|..-.++...+|.+.++..        .....+ .+.....
T Consensus         1 M~~iIVvTSGKGGVGKTTttAnig~aLA~~GkKv~liD~DiGLRNLDlimGlE~RiVYd~vdVi~g~~~l~QALIkDKr~   80 (272)
T COG2894           1 MARIIVVTSGKGGVGKTTTTANIGTALAQLGKKVVLIDFDIGLRNLDLIMGLENRIVYDLVDVIEGEATLNQALIKDKRL   80 (272)
T ss_pred             CceEEEEecCCCCcCccchhHHHHHHHHHcCCeEEEEecCcCchhhhhhhcccceeeeeehhhhcCccchhhHhhccccC
Confidence            5689999999999999999999999999999999999999988889999999877311        111222 2334456


Q ss_pred             CCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHH
Q 016622          243 LGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDV  322 (386)
Q Consensus       243 ~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~  322 (386)
                      ++++++|+....+... +..+.....++++.    ...|||||+|+|.|...-..  .++..+|.+++|++|+..+++++
T Consensus        81 ~nL~lLPAsQtrdKda-lt~E~v~~vv~eL~----~~~fDyIi~DsPAGIE~G~~--~A~~~Ad~AiVVtnPEvSsVRDs  153 (272)
T COG2894          81 ENLFLLPASQTRDKDA-LTPEGVKKVVNELK----AMDFDYIIIDSPAGIEQGFK--NAVYFADEAIVVTNPEVSSVRDS  153 (272)
T ss_pred             CceEecccccccCccc-CCHHHHHHHHHHHH----hcCCCEEEecCcchHHHHHH--hhhhccceEEEEcCCCccccccc
Confidence            8999999886544322 23343444555554    36899999999999864333  33667899999999999999999


Q ss_pred             HHHHHHHHcCC----CC---eEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          323 AKGVRMFSKLK----VP---CIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       323 ~~~~~~l~~~~----~~---i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      .|.+..|+..+    ..   ...+++||+++..-..-..    -..+++.+.+.+|++|.||.|+.+-.+
T Consensus       154 DRiiGlLesk~~rae~~~~~~~~llvnR~~p~~v~~GeM----lsv~Dv~~iL~i~liGiiPed~~Vi~a  219 (272)
T COG2894         154 DRIIGLLESKSRRAEIGEEPKEHLLLNRYRPEMVKRGEM----LSVEDVLEILSIPLIGVIPEDQDVLRA  219 (272)
T ss_pred             hhheeehhcccchhhcCCcccceEEEEccCHHHhccCCc----ccHHHHHHHhCCceEEeecCchhhhee
Confidence            99999997654    22   2678999988765211111    368999999999999999999987553

>COG0455 flhG Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]

Probab=99.95  E-value=4.5e-27  Score=217.35  Aligned_cols=201  Identities=29%  Similarity=0.338  Sum_probs=151.8

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHH-HHHHHHCCCcEEEEEcCCCCCCCCccCCCcccc-------cccCCCCCceeeeccC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNL-AYTLAGMGARVGIFDADVYGPSLPTMVSPENRL-------LEMNPEKRTIIPTEYL  243 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~L-A~~La~~G~rVllID~D~~~~sl~~~lg~~~~~-------~~~~~~~~~i~~~~~~  243 (386)
                      ++++|+|+|+|||+||||+|+|| |..++.+|++|++||+|+..++++.++|.....       .+.....+.+......
T Consensus         1 ~~~~Iav~SgKGGvGKTtitanlga~~~~~~~k~V~~iDaD~g~~nL~~~~g~~~~~~~l~dvL~~~~~~~Di~~~~~~~   80 (262)
T COG0455           1 MTKVIAVVSGKGGVGKTTITANLGAALAALGGKVVLLIDADLGLGNLSLLLGVESKPTTLHDVLAGEASIEDIIYETPQD   80 (262)
T ss_pred             CCEEEEEEecCCCccHHHHHHhHHHHHHhhCCCeEEEEecCCCCCcHHHHhCCCCCcccHHHHHhCCCCHhHeeeecCcC
Confidence            46899999999999999999999 555556788889999999999999999987642       2223334455555558


Q ss_pred             CceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHH
Q 016622          244 GVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVA  323 (386)
Q Consensus       244 ~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~  323 (386)
                      |++++|.+........+........+.++.     ..|||||+|||+|++......  +..+|.+++|++|+..++.++.
T Consensus        81 gl~vipg~~~~~~~~~~~~~~~~~~~~~l~-----~~~D~iliD~~aGl~~~~~~~--~~~sd~~viVt~pe~~si~~A~  153 (262)
T COG0455          81 GLYVLPGGSGLEDLAKLDPEDLEDVIKELE-----ELYDYILIDTGAGLSRDTLSF--ILSSDELVIVTTPEPTSITDAY  153 (262)
T ss_pred             CEEEeeCCCChHHHhhcCHHHHHHHHHHHH-----hcCCEEEEeCCCCccHHHHHH--HHhcCcEEEEeCCCcchHHHHH
Confidence            999999887666555555554555555554     778999999999998665544  5556999999999999999999


Q ss_pred             HHHHHHHcCCCCeEE--EEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          324 KGVRMFSKLKVPCIA--VVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       324 ~~~~~l~~~~~~i~g--vVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      .+++++.+.+....+  +|+||+....+.....    ....+..+  ..+.+..||+++.++++
T Consensus       154 ~~i~~~~~~~~~~~~~~vV~N~v~~~~e~~~~~----~~~~~~~~--~~~~~~~i~~~~~v~~a  211 (262)
T COG0455         154 KTIKILSKLGLDLLGRRVVLNRVRSTKEGVDVA----ALLIQVVK--QVPVLQVIPFDPEVRRA  211 (262)
T ss_pred             HHHHHHHHcCCccccceEEEEecccccchhHHH----HHHHHHHH--hCCceeEeccChHHHHH
Confidence            999999999999888  9999997443321110    12233333  34578889999966654

>TIGR01968 minD_bact septum site-determining protein MinD

Probab=99.95  E-value=7.7e-27  Score=217.83  Aligned_cols=201  Identities=24%  Similarity=0.342  Sum_probs=149.0

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccc----cc----cCCCCCceee-eccC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL----LE----MNPEKRTIIP-TEYL  243 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~----~~----~~~~~~~i~~-~~~~  243 (386)
                      +|+|+|+|+|||+||||+|+|||.+|+++|+||++||+|+++++++.++|.+...    .+    .....+.+.. ...+
T Consensus         1 ~~ii~v~s~kGGvGKTt~a~~lA~~la~~g~~vlliD~D~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~   80 (261)
T TIGR01968         1 ARVIVITSGKGGVGKTTTTANLGTALARLGKKVVLIDADIGLRNLDLLLGLENRIVYTLVDVVEGECRLQQALIKDKRLK   80 (261)
T ss_pred             CeEEEEecCCCCccHHHHHHHHHHHHHHcCCeEEEEECCCCCCCeeEEeCCCCcCCCCHHHHhcCcCcHHHHhhcCCCCC
Confidence            3799999999999999999999999999999999999999988898888865321    00    0011111211 1346


Q ss_pred             CceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHH
Q 016622          244 GVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVA  323 (386)
Q Consensus       244 ~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~  323 (386)
                      +++++|.+..... ....    ...+.++++.+. +.|||||||+||+.+.....  .+..+|.+++|++|+..++.++.
T Consensus        81 ~l~~l~~~~~~~~-~~~~----~~~l~~~l~~l~-~~~D~viiD~p~~~~~~~~~--~l~~aD~viiv~~~~~~s~~~~~  152 (261)
T TIGR01968        81 NLYLLPASQTRDK-DAVT----PEQMKKLVNELK-EEFDYVIIDCPAGIESGFRN--AVAPADEAIVVTTPEVSAVRDAD  152 (261)
T ss_pred             CeEEEeCCCchhh-hhCC----HHHHHHHHHHHH-HhCCEEEEeCCCCcCHHHHH--HHHhCCeEEEEcCCCcHHHHHHH
Confidence            8999987753221 1111    223455555554 68999999999998754433  35678999999999999999999


Q ss_pred             HHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          324 KGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       324 ~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      ++++.+++.+....++|+|+++........    ....+++.+.++.++++.||++..+.++
T Consensus       153 ~~~~~l~~~~~~~~~iviN~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~Ip~~~~~~~a  210 (261)
T TIGR01968       153 RVIGLLEAKGIEKIHLIVNRLRPEMVKKGD----MLSVDDVLEILSIPLIGVIPEDEAIIVS  210 (261)
T ss_pred             HHHHHHHHcCCCceEEEEeCcCchhccccc----ccCHHHHHHHhCCceeEEccCCHHHHHH
Confidence            999999988776789999998754321110    1236788888999999999999988765

This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=99.95  E-value=5.8e-27  Score=220.50  Aligned_cols=202  Identities=20%  Similarity=0.174  Sum_probs=142.0

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc--ccc--------cCCCCCceeeecc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR--LLE--------MNPEKRTIIPTEY  242 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~--~~~--------~~~~~~~i~~~~~  242 (386)
                      ||+|+|+ +||||||||+++|||.+||++|+||++||+|+++++...++|....  +.+        .....+.+.+ ..
T Consensus         1 ~~~iav~-gKGGVGKTT~a~nLA~~La~~G~rVllvD~Dpq~~~~~~l~g~~~~~~~~d~l~~~~~~~~~~~~~i~~-~~   78 (273)
T PRK13232          1 MRQIAIY-GKGGIGKSTTTQNLTAALSTMGNKILLVGCDPKADSTRMLLGGLNQKTVLDTLRSEGDEGVDLDVVMQP-GF   78 (273)
T ss_pred             CCEEEEE-CCCCCcHHHHHHHHHHHHHhhCCCeEEEecccccccchhhcCCCCCCcHHHHHHhcCCCCCCHHHEEEe-CC
Confidence            3799999 9999999999999999999999999999999999988877664211  110        0111122333 35


Q ss_pred             CCceEEecCCCCCcc-cccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHH
Q 016622          243 LGVKLVSFGFSGQGR-AIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFI  320 (386)
Q Consensus       243 ~~l~vl~~~~~~~~~-~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~  320 (386)
                      +|++++|++...... ...++......+.+.++.+. ++||||||||+++.... ......+.++|.+++|++|+..++.
T Consensus        79 ~~i~~i~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-~~yD~vlID~~~~~~~~~~~~~~al~aad~vlip~~p~~~sl~  157 (273)
T PRK13232         79 GDIKCVESGGPEPGVGCAGRGIITSIGLLENLGAYT-DDLDYVFYDVLGDVVCGGFAMPIREGKAKEIYIVASGELMAIY  157 (273)
T ss_pred             CCeEEEeCCCCCCCCCCCCCchhHHHHHHHHccccc-ccCCEEEEecCCCeeECCEeccccccccceEEEecCchHHHHH
Confidence            799999976532211 11222222223555555444 78999999998765311 1111112367999999999999999


Q ss_pred             HHHHHHHHHHc---CCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          321 DVAKGVRMFSK---LKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       321 ~~~~~~~~l~~---~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      ++.++++.++.   .+.++.|+|+|+.....        .+...+++.+.++.++++.||+++.+.++
T Consensus       158 ~~~~~~k~l~~~~~~~l~~~GiV~n~~~~~~--------~~~~~e~l~~~~~~~vl~~Ip~~~~v~~A  217 (273)
T PRK13232        158 AANNICKGLAKFAKGGARLGGIICNSRNVDG--------ERELLEAFAKKLGSQLIHFVPRDNIVQRA  217 (273)
T ss_pred             HHHHHHHHHHHHhCCCCceeEEEEeCCCCCc--------cHHHHHHHHHHhCCCeEEECCCCHHHHHH
Confidence            98888877765   36778899999864211        12346888899999999999999998876

>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=99.95  E-value=2e-26  Score=208.90  Aligned_cols=193  Identities=21%  Similarity=0.184  Sum_probs=135.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc--cc---------ccCCCCCceeeecc
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR--LL---------EMNPEKRTIIPTEY  242 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~--~~---------~~~~~~~~i~~~~~  242 (386)
                      ++|+|+ +|||+||||+++|||.+||++|+||++||+|+++++...+++....  +.         ......+ +.....
T Consensus         1 ~~iav~-gKGGvGKTt~~~nLA~~la~~G~rvLliD~D~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~   78 (212)
T cd02117           1 RQIAIY-GKGGIGKSTTSQNLSAALAEMGKKVLQVGCDPKADSTRLLLGGKAPTTILELAAEDGHVEDLELED-VIFEGF   78 (212)
T ss_pred             CEEEEE-CCCcCcHHHHHHHHHHHHHHCCCcEEEEeCCCCCCccccccCCCCCCCHHHHHhhhCCcCCcChhH-eeEeCC
Confidence            479999 5999999999999999999999999999999998776665553321  11         1111122 333456


Q ss_pred             CCceEEecCCCCCcccccCCch--HHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhc--CCCeEEEEeCCCcch
Q 016622          243 LGVKLVSFGFSGQGRAIMRGPM--VSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVV--PLTAAVIVTTPQKLA  318 (386)
Q Consensus       243 ~~l~vl~~~~~~~~~~~~~~~~--~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~--~~d~vviV~~~~~~s  318 (386)
                      +|++++|++.............  ....++ .+..+. ++||||||||++....... ...+.  .+|.+++|++|+..+
T Consensus        79 ~~l~vlp~~~~~~~~~~~~~~~~~~~~~l~-~l~~~~-~~yD~ilID~~g~~~~~~~-~~~l~~~~ad~vliv~~p~~~s  155 (212)
T cd02117          79 GGVKCVESGGPEPGVGCAGRGVITAVNLLE-KEGFAE-DDLDVVLYDVLGDVVCGGF-AMPIREGKADEIYIVTSGEFMA  155 (212)
T ss_pred             CCcEEEeCCCCCCCcccCCcchhhHHHHHH-hccccc-cCCCEEEEecCCCceeccc-ccccccccCcEEEEEecccHHH
Confidence            8999999886543322111111  112233 344443 7899999999765421111 11233  679999999999999


Q ss_pred             HHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCC
Q 016622          319 FIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIR  379 (386)
Q Consensus       319 ~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d  379 (386)
                      +.++.++++.++..    +.++.|+|+||++.+.        .+...+++++.++.++++.||+|
T Consensus       156 l~~~~~l~~~i~~~~~~~~~~~~gvv~N~~~~~~--------~~~~~~~~~~~~~~~vl~~IP~d  212 (212)
T cd02117         156 LYAANNICKGIRKYAKSGGVRLGGLICNSRNTDR--------ETELIDAFAERLGTQVIHFVPRD  212 (212)
T ss_pred             HHHHHHHHHHHHHhCcccCCcEEEEEEeCCCCcc--------HHHHHHHHHHHcCCCEEEecCCC
Confidence            99998888877764    5668999999988541        12357899999999999999986

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PRK10818 cell division inhibitor MinD; Provisional

Probab=99.95  E-value=1.8e-26  Score=216.75  Aligned_cols=203  Identities=18%  Similarity=0.222  Sum_probs=147.6

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccc----c----ccCCCCCceeee-cc
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL----L----EMNPEKRTIIPT-EY  242 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~----~----~~~~~~~~i~~~-~~  242 (386)
                      |+|+|+|+|+|||+||||+|+|||.+|+++|++|++||+|+++++++.++|.+...    .    ......+.+... ..
T Consensus         1 m~kviav~s~KGGvGKTt~a~nlA~~la~~g~~vllvD~D~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (270)
T PRK10818          1 MARIIVVTSGKGGVGKTTSSAAIATGLAQKGKKTVVIDFDIGLRNLDLIMGCERRVVYDFVNVIQGDATLNQALIKDKRT   80 (270)
T ss_pred             CceEEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEEEEECCCCCCChhhhhCCCcccccCHHHHhcCCCcHHHhccccCCc
Confidence            56899999999999999999999999999999999999999988898888865321    1    011111222222 35


Q ss_pred             CCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHH
Q 016622          243 LGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDV  322 (386)
Q Consensus       243 ~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~  322 (386)
                      +|++++|.+.... ...+.    ...+.++++.+++..|||||||+||+.+......  +..+|.+++|++|+..++..+
T Consensus        81 ~~~~~lp~~~~~~-~~~~~----~~~~~~~l~~l~~~~yd~viiD~p~~~~~~~~~~--l~~ad~vivv~~p~~~sl~~~  153 (270)
T PRK10818         81 ENLYILPASQTRD-KDALT----REGVAKVLDDLKAMDFEFIVCDSPAGIETGALMA--LYFADEAIITTNPEVSSVRDS  153 (270)
T ss_pred             CCEEEecCCCCcc-hhhhC----HHHHHHHHHHHhhcCCCEEEEeCCCCccHHHHHH--HHhCCeEEEEcCCCchHHHhH
Confidence            7899999775432 11111    2234555555543479999999999998655443  667899999999999999999


Q ss_pred             HHHHHHHHcC-------CCC-eEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          323 AKGVRMFSKL-------KVP-CIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       323 ~~~~~~l~~~-------~~~-i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      .++++.+...       +.+ ..++|+|+++.......    .....+++.+.+|.++++.||+++.+.++
T Consensus       154 ~~~l~~i~~~~~~~~~~~~~~~~~vv~n~~~~~~~~~~----~~~~~~~~~~~~g~~~~~~Ip~~~~v~~a  220 (270)
T PRK10818        154 DRILGILASKSRRAENGEEPIKEHLLLTRYNPGRVSRG----DMLSMEDVLEILRIKLVGVIPEDQSVLRA  220 (270)
T ss_pred             HHHHHHHHHhhccccccccccceEEEEeccCHhhhhhc----ccccHHHHHHHhCCcEEEEecCCHHHHHH
Confidence            9999987632       112 25899999875431110    01236788889999999999999988875

>PRK13236 nitrogenase reductase; Reviewed

Probab=99.94  E-value=6.6e-26  Score=215.31  Aligned_cols=202  Identities=21%  Similarity=0.174  Sum_probs=141.0

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc--cccc---------CCCCCceeeec
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR--LLEM---------NPEKRTIIPTE  241 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~--~~~~---------~~~~~~i~~~~  241 (386)
                      +++|+| +|||||||||+|+|||..||++|+||++||+|+++++...+++....  +.+.         ....+.+ ...
T Consensus         6 ~~~~~~-~GKGGVGKTt~a~NLA~~La~~G~rVLliD~D~q~~~~~~l~~~~~~~tl~d~~~~~~~~~~~~l~~~i-~~~   83 (296)
T PRK13236          6 IRQIAF-YGKGGIGKSTTSQNTLAAMAEMGQRILIVGCDPKADSTRLMLHSKAQTTVLHLAAERGAVEDLELHEVM-LTG   83 (296)
T ss_pred             ceEEEE-ECCCcCCHHHHHHHHHHHHHHCCCcEEEEEccCCCCccchhccCCCCCCHHHHHHhcCCccCCCHHHhh-eeC
Confidence            489999 68999999999999999999999999999999999999888775432  1111         1112222 344


Q ss_pred             cCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHH-hhhhhcCCCeEEEEeCCCcchHH
Q 016622          242 YLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL-TLCQVVPLTAAVIVTTPQKLAFI  320 (386)
Q Consensus       242 ~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~-~~~~~~~~d~vviV~~~~~~s~~  320 (386)
                      ..|++++|++...... ...+......++.+.....|++||||+|||++....... ....+.++|.+++|++|+..++.
T Consensus        84 ~~gv~llpa~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~yD~vliD~~~~~~~~~~~~~~~l~aAD~vIIvttpe~~sl~  162 (296)
T PRK13236         84 FRGVKCVESGGPEPGV-GCAGRGIITAINFLEENGAYQDLDFVSYDVLGDVVCGGFAMPIREGKAQEIYIVTSGEMMAMY  162 (296)
T ss_pred             CCCeEEEECCCCCCCC-CCcceeehhhhHHHHhcCccccCCEEEEeccccceeccccccchhccCCEEEEecCcchHHHH
Confidence            5799999987433221 122222222455555444568999999999644321111 11113478999999999999998


Q ss_pred             HHHHHHHHH----HcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          321 DVAKGVRMF----SKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       321 ~~~~~~~~l----~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      ++.+.++.+    +..+.++.|+|+||.+...        .....+++.+.++.++++.||+++.+.++
T Consensus       163 g~~~~~~~l~k~~~~~~l~i~gIv~Nr~~~~~--------~~~ile~l~~~~g~~vl~~Ip~~~~v~eA  223 (296)
T PRK13236        163 AANNIARGILKYAHTGGVRLGGLICNSRNVDR--------EIELIETLAKRLNTQMIHFVPRDNIVQHA  223 (296)
T ss_pred             HHHHHHHHHHHHhhCCCceeEEEEecCCCCcc--------hHHHHHHHHHHhCccceeeCCCChHHHHH
Confidence            887554433    3446788999999842211        01246888899999999999999998876

>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ

Probab=99.94  E-value=3.4e-26  Score=211.87  Aligned_cols=203  Identities=20%  Similarity=0.238  Sum_probs=138.8

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccccc----c----cCCCCCceeeeccCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLL----E----MNPEKRTIIPTEYLG  244 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~----~----~~~~~~~i~~~~~~~  244 (386)
                      +++|+|+|+|||+||||+|+|||..||++|+||++||+|+++ +++.++|.+....    .    .....+.+. ....|
T Consensus         1 m~iI~v~s~KGGvGKTt~a~nla~~la~~g~~VlliD~D~q~-~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~~~~   78 (246)
T TIGR03371         1 MKVIAIVGVKGGVGKTTLTANLASALKLLGEPVLAIDLDPQN-LLRLHFGMDWSVRDGWARALLNGEPWAAAAY-RSSDG   78 (246)
T ss_pred             CcEEEEEeCCCCccHHHHHHHHHHHHHhCCCcEEEEeCCCcc-hHHHHhCCCCccCCcHHHHHhcCCChHHhHh-hcCCC
Confidence            469999999999999999999999999999999999999986 4666666543211    0    001111121 23468


Q ss_pred             ceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHH
Q 016622          245 VKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAK  324 (386)
Q Consensus       245 l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~  324 (386)
                      ++++|.+.................++++++.+.+..||||||||||+.+......  +..+|.+++|+.|+..++..+.+
T Consensus        79 l~~ip~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~D~viiD~pp~~~~~~~~~--l~~ad~vii~~~~~~~s~~~~~~  156 (246)
T TIGR03371        79 VLFLPFGDLSADEREAYQAHDAGWLARLLQQLDLAARDWVLIDVPRGPSPITRQA--LAAADLVLVVVNADAACYATLHQ  156 (246)
T ss_pred             eEEecCCCCcHHHHHHHhhcCHHHHHHHHHhcccCCCCEEEEECCCCchHHHHHH--HHhCCeEEEEeCCCHHHHHHHHH
Confidence            9999976433211111111123456677777754457999999999888655443  66789999999999999998884


Q ss_pred             -HHHHHHcCCC-CeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCC-eEEecCCChhhhhc
Q 016622          325 -GVRMFSKLKV-PCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIP-HLFDLPIRPTVSYM  385 (386)
Q Consensus       325 -~~~~l~~~~~-~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~p-vl~~IP~d~~i~~a  385 (386)
                       +.++++..+. ...++|+|+++....      ..+...+.+.+.++.+ +.+.||++..+.++
T Consensus       157 ~~~~l~~~~~~~~~~~iv~n~~~~~~~------~~~~~~~~~~~~~~~~~~~~~I~~~~~~~~a  214 (246)
T TIGR03371       157 QALALFAGSGPRIGPHFLINQFDPARQ------LSRDVRAVLRQTLGSRLLPFVIHRDEAVSEA  214 (246)
T ss_pred             HHHHHhhcccccccceEEeeccCcchh------hHHHHHHHHHHHhcccccCCcccchhhHHHH
Confidence             4455553322 237899999875432      1123345677778887 45789999888765

Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=99.94  E-value=7.8e-26  Score=213.07  Aligned_cols=203  Identities=17%  Similarity=0.175  Sum_probs=138.4

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHH-CCCcEEEEEcCCCCCCCCccCCCccc--cccc-------CCCCCceeeec
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAG-MGARVGIFDADVYGPSLPTMVSPENR--LLEM-------NPEKRTIIPTE  241 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~-~G~rVllID~D~~~~sl~~~lg~~~~--~~~~-------~~~~~~i~~~~  241 (386)
                      |+++|+|+ +||||||||+|+|||.+||+ .|+||++||+|+|+++...++|....  +.+.       ....+.+....
T Consensus         1 M~~vIav~-~KGGVGKTT~a~nLA~~La~~~G~rvLliD~Dpq~~~t~~~~g~~~~~~l~~~l~~~~~~~~~~~~~~~~~   79 (275)
T PRK13233          1 MTRKIAIY-GKGGIGKSTTTQNTAAAMAYFHDKKVFIHGCDPKADSTRLILGGKPQTTMMDTLRELGEEKVTPDKVIKTG   79 (275)
T ss_pred             CceEEEEE-cCCCCcHHHHHHHHHHHHHHhcCCeEEEeccCcCcChHHHHhCCCCCCcHHHHHHHhCCCCCCHHHHeeeC
Confidence            56899999 89999999999999999997 69999999999999766555554422  1110       01112344555


Q ss_pred             cCCceEEecCCCCCccccc-CCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhh--cCCCeEEEEeCCCcch
Q 016622          242 YLGVKLVSFGFSGQGRAIM-RGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQV--VPLTAAVIVTTPQKLA  318 (386)
Q Consensus       242 ~~~l~vl~~~~~~~~~~~~-~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~--~~~d~vviV~~~~~~s  318 (386)
                      .+|++++|++......... +.......+.+.++.+. ++||||||||++.+....+. ..+  .++|.+++|++|+..+
T Consensus        80 ~~~l~~ipa~~~~~~~~~~~~~~~~~~~l~~~l~~~~-~~yD~iliD~~~~~~~~al~-~~~~~~aad~viIp~~p~~~s  157 (275)
T PRK13233         80 FKDIRCVESGGPEPGVGCAGRGVITAIDLMEENGAYT-DDLDFVFFDVLGDVVCGGFA-MPIRDGKAQEVYIVASGEMMA  157 (275)
T ss_pred             CCCcEEEECCCCCCCCCCCCcchhHHHHHHHHcCCcc-CCCCEEEEecCCceeecccc-ccchhccCceEEEeccccHHH
Confidence            6899999987543211111 11111112444444444 78999999995433211111 000  1679999999999999


Q ss_pred             HHHHHHHHHHH----HcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          319 FIDVAKGVRMF----SKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       319 ~~~~~~~~~~l----~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      +.++.++++.+    +..++++.|+|+|+.....        .+...+++.+.++.++++.||+++.+.++
T Consensus       158 l~g~~~l~~~i~~~~~~~~l~~~Giv~n~~~~~~--------~~~~~e~l~~~~~~~~l~~Ip~~~~v~~A  220 (275)
T PRK13233        158 IYAANNICKGLVKYAEQSGVRLGGIICNSRNVDG--------ELELLEEFTDAIGTQMIHFVPRDNIVQKA  220 (275)
T ss_pred             HHHHHHHHHHHHHHHhcCCCceeEEEeeCCCCCc--------HHHHHHHHHHHcCCceeeecCcchHHHHH
Confidence            99999887666    3457889999999743111        11346888889999999999999998875

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=99.94  E-value=1.6e-25  Score=210.76  Aligned_cols=204  Identities=22%  Similarity=0.185  Sum_probs=134.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc--c---ccc---CCCCCceeeeccCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR--L---LEM---NPEKRTIIPTEYLG  244 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~--~---~~~---~~~~~~i~~~~~~~  244 (386)
                      ||+|+|+ +||||||||+|+|||.+||++|+|||+||+|+|+.+...+++....  +   ...   ......+.....+|
T Consensus         1 m~~iav~-~KGGVGKTT~~~nLA~~La~~G~rVLlID~Dpq~~~t~~l~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~   79 (274)
T PRK13235          1 MRKVAIY-GKGGIGKSTTTQNTVAGLAEMGKKVMVVGCDPKADSTRLLLGGLAQKTVLDTLREEGEDVELEDIRKEGYGG   79 (274)
T ss_pred             CCEEEEe-CCCCccHHHHHHHHHHHHHHCCCcEEEEecCCcccccccccCCCCCccHHHHHHhcCCCCCHHHHhhcCCCC
Confidence            3799999 7999999999999999999999999999999999877666543211  1   000   01112233444679


Q ss_pred             ceEEecCCCCCccccc-CCchHH-HHHHHHHHhcCCCCCcEEEEcCCCCCChHHH-hhhhhcCCCeEEEEeCCCcchHHH
Q 016622          245 VKLVSFGFSGQGRAIM-RGPMVS-GVINQLLTTTEWGELDYLVIDMPPGTGDIQL-TLCQVVPLTAAVIVTTPQKLAFID  321 (386)
Q Consensus       245 l~vl~~~~~~~~~~~~-~~~~~~-~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~-~~~~~~~~d~vviV~~~~~~s~~~  321 (386)
                      ++++|++......... +..... ..++++...-..++||||||||++.+....+ ....+.++|.+++|++|+..++.+
T Consensus        80 l~~ip~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~yD~ilID~~~~~~~~~l~~~~a~~aad~vlIp~~~e~~sl~g  159 (274)
T PRK13235         80 TRCTESGGPEPGVGCAGRGIITSVNLLEQLGAYDDEWNLDYVFYDVLGDVVCGGFAMPIRDGKAEEIYIVCSGEMMAMYA  159 (274)
T ss_pred             CEEEeCCCCCCCCCCCCCceeehhHHHHhhchhhccCCCCEEEEECCCCCccCCcccccccccccEEEEEecCchhHHHH
Confidence            9999876322211000 011111 2233321110026799999999765431111 111123679999999999999999


Q ss_pred             HHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          322 VAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       322 ~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      +.++++.+++    .++++.|+|+|+.....        .+...+++.+.++.++++.||++..+.++
T Consensus       160 ~~~ll~~i~~~~~~~~l~i~giv~n~~~~~~--------~~e~~~~l~~~~~~~ll~~Ip~~~~v~~A  219 (274)
T PRK13235        160 ANNICKGILKYADAGGVRLGGLICNSRKVDN--------EREMIEELARKIGTQMIHFVPRDNFVQRA  219 (274)
T ss_pred             HHHHHHHHHHHhhcCCCceeEEEEecCCCCc--------hHHHHHHHHHHcCCceEEeCCCCHHHHHH
Confidence            9888876643    35667899999743111        12356788888998899999999998876

>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional

Probab=99.94  E-value=2.6e-25  Score=208.92  Aligned_cols=196  Identities=18%  Similarity=0.153  Sum_probs=134.7

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc--ccc----------cCCCCCceee
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR--LLE----------MNPEKRTIIP  239 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~--~~~----------~~~~~~~i~~  239 (386)
                      |+++|+|. +||||||||+++|||.+||++|+||++||+|+|+.. ...++....  +.+          .....+.+ .
T Consensus         1 m~~iIav~-~KGGVGKTT~~~nLA~~la~~G~kVLliD~Dpq~~~-t~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~i-~   77 (270)
T PRK13185          1 MALVLAVY-GKGGIGKSTTSSNLSAAFAKLGKKVLQIGCDPKHDS-TFTLTGKLVPTVIDILEEVDFHSEELRPEDFV-Y   77 (270)
T ss_pred             CceEEEEE-CCCCCCHHHHHHHHHHHHHHCCCeEEEEeccCCcch-hhhhcCCCCCcHHHHHHhccccccCCCHHHhe-e
Confidence            56899998 799999999999999999999999999999998744 444432211  100          00111223 2


Q ss_pred             eccCCceEEecCCCCCcccc--cCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc
Q 016622          240 TEYLGVKLVSFGFSGQGRAI--MRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL  317 (386)
Q Consensus       240 ~~~~~l~vl~~~~~~~~~~~--~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~  317 (386)
                      ...+|++++|++........  .........++++  .+ +++||||||||+++.....+ ...+..+|.+++|++|+..
T Consensus        78 ~~~~~l~~ip~~~~~~~~~~~~~~~~~~~~~l~~~--~~-~~~yD~viIDt~g~~~~~~~-~~~l~~AD~viip~~~~~~  153 (270)
T PRK13185         78 EGYNGVDCVEAGGPPAGTGCGGYVVGETVKLLKEH--HL-LDDYDVILFDVLGDVVCGGF-AAPLQYADYALIVTANDFD  153 (270)
T ss_pred             eCCCCcEEEECCCCCCCCCccchhHHHHHHHHHhc--Cc-cccCCEEEEecCCCcccCcc-cchhhhCcEEEEEecCchh
Confidence            34579999998764322111  1111111222221  12 26899999999876542221 1225567999999999999


Q ss_pred             hHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          318 AFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       318 s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      ++..+.++++.+++    .++++.|+|+||++..           ...+++.+.++.++++.||++..+.++
T Consensus       154 sl~~~~~~~~~i~~~~~~~~l~i~giv~N~~~~~-----------~~~~~~~~~~g~~vl~~Ip~~~~i~~A  214 (270)
T PRK13185        154 SIFAANRIAAAIQAKAKNYKVRLAGVIANRSAGT-----------DLIDKFNEAVGLKVLAHVPDLDAIRRS  214 (270)
T ss_pred             hHHHHHHHHHHHHhhhhccCCCceEEEEeccChH-----------HHHHHHHHHcCCCEEEECCCCcccChH
Confidence            99999888887653    3567789999996521           245788888999999999999888765

>TIGR01007 eps_fam capsular exopolysaccharide family

Probab=99.93  E-value=3e-25  Score=199.98  Aligned_cols=172  Identities=21%  Similarity=0.299  Sum_probs=127.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc---ccc----cCCCCCceeeeccCCc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR---LLE----MNPEKRTIIPTEYLGV  245 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~---~~~----~~~~~~~i~~~~~~~l  245 (386)
                      +|+|+|+|+|||+||||++.|||.+||+.|+||++||+|++++.++.+++....   +..    .....+.+.....+++
T Consensus        17 ~kvI~v~s~kgG~GKTt~a~~LA~~la~~G~rVllID~D~~~~~l~~~~~~~~~~~~l~~~l~~~~~l~~~i~~~~~~~l   96 (204)
T TIGR01007        17 IKVLLITSVKPGEGKSTTSANIAVAFAQAGYKTLLIDGDMRNSVMSGTFKSQNKITGLTNFLSGTTDLSDAICDTNIENL   96 (204)
T ss_pred             CcEEEEecCCCCCCHHHHHHHHHHHHHhCCCeEEEEeCCCCChhHHHHhCCCCCCCCHHHHhcCCCCHHHhcccCCCCCE
Confidence            689999999999999999999999999999999999999999988877765441   111    1111223333344799


Q ss_pred             eEEecCCCCCc-ccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHH
Q 016622          246 KLVSFGFSGQG-RAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAK  324 (386)
Q Consensus       246 ~vl~~~~~~~~-~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~  324 (386)
                      +++|.+..... ...+...    .+.++++.++ .+|||||||+||......... ....+|.+++|+.++..+..++.+
T Consensus        97 ~~l~~g~~~~~~~~~l~~~----~l~~~l~~l~-~~yD~ViiD~pp~~~~~~~~~-~~~~~D~vilV~~~~~~~~~~~~~  170 (204)
T TIGR01007        97 FVITSGPVPPNPTELLQSS----NFKTLIETLR-KYFDYIIIDTPPIGTVTDAAI-IARACDASILVTDAGEIKKRDVQK  170 (204)
T ss_pred             EEEeCCCCCCCHHHHhCcH----HHHHHHHHHH-hcCCEEEEeCCCccccchHHH-HHHhCCeEEEEEECCCCCHHHHHH
Confidence            99998764322 2223333    3455555554 799999999998432111111 122469999999999999999999


Q ss_pred             HHHHHHcCCCCeEEEEEcCCcCCCCC
Q 016622          325 GVRMFSKLKVPCIAVVENMCHFDADG  350 (386)
Q Consensus       325 ~~~~l~~~~~~i~gvVlN~~~~~~~~  350 (386)
                      .++.+++.+.+++|+|+||++.....
T Consensus       171 ~~~~l~~~~~~~~gvVlN~~~~~~~~  196 (204)
T TIGR01007       171 AKEQLEQTGSNFLGVVLNKVDISVDK  196 (204)
T ss_pred             HHHHHHhCCCCEEEEEEeCcccccCC
Confidence            99999999999999999999876543

This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.

>CHL00072 chlL photochlorophyllide reductase subunit L

Probab=99.93  E-value=9.3e-25  Score=206.56  Aligned_cols=193  Identities=20%  Similarity=0.139  Sum_probs=134.9

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcc-cccc----------cCCCCCceeeeccCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPEN-RLLE----------MNPEKRTIIPTEYLG  244 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~-~~~~----------~~~~~~~i~~~~~~~  244 (386)
                      |+|+ +||||||||+++|||.+||++|+||++||+|+|+.....+.|... .+.+          .....+.+ ....+|
T Consensus         3 ia~~-gKGGVGKTTta~nLA~~La~~G~rVLlID~DpQ~n~t~~l~g~~~~~i~~~~~~~~~~~~~~~~~~~i-~~~~~~   80 (290)
T CHL00072          3 LAVY-GKGGIGKSTTSCNISIALARRGKKVLQIGCDPKHDSTFTLTGFLIPTIIDTLQSKDYHYEDVWPEDVI-YKGYGG   80 (290)
T ss_pred             EEEE-CCCCCcHHHHHHHHHHHHHHCCCeEEEEeccCCCcccccccCcCCCCHHHHHhhcccccccCChhheE-EeCCCC
Confidence            8888 599999999999999999999999999999999865544434321 1110          01112233 333679


Q ss_pred             ceEEecCCCCCcccc--cCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHH
Q 016622          245 VKLVSFGFSGQGRAI--MRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDV  322 (386)
Q Consensus       245 l~vl~~~~~~~~~~~--~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~  322 (386)
                      ++++|++........  .........++.+ ...  ++||||||||+++.....+ ...+..+|.+++|+.|+..++.++
T Consensus        81 l~lip~~~~~~~~~~~~~~~~~~~~ll~~l-~~~--~~yD~IiIDt~~~l~~~a~-~aal~~AD~viIp~~p~~~sl~~~  156 (290)
T CHL00072         81 VDCVEAGGPPAGAGCGGYVVGETVKLLKEL-NAF--YEYDIILFDVLGDVVCGGF-AAPLNYADYCIIITDNGFDALFAA  156 (290)
T ss_pred             eEEEeCCCCCCccchhhcccHHHHHHHHHh-hcc--ccCCEEEEecCCcceechh-hhhhhcCCEEEEEecCCHHHHHHH
Confidence            999998865432211  1111111233332 222  4799999999877543222 122556899999999999999999


Q ss_pred             HHHHHHHHcC----CCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          323 AKGVRMFSKL----KVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       323 ~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      .++++.++..    +.++.|+|+||++..           ...+++.+.++.++++.||++..+.++
T Consensus       157 ~~l~~~i~~~~~~~~l~~~gvv~n~~~~~-----------~~~~~~~~~~~~~vl~~Ip~~~~v~~A  212 (290)
T CHL00072        157 NRIAASVREKARTHPLRLAGLVGNRTSKR-----------DLIDKYVEACPMPVLEVLPLIEDIRVS  212 (290)
T ss_pred             HHHHHHHHHHhccCCCceEEEEEeCCCch-----------hHHHHHHHHcCCceEEECCCChHHHHH
Confidence            9998877654    566889999997631           346778888999999999999998875

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=99.93  E-value=3.6e-25  Score=207.87  Aligned_cols=201  Identities=21%  Similarity=0.219  Sum_probs=134.4

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc--cccc------C--CCCCceeeecc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR--LLEM------N--PEKRTIIPTEY  242 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~--~~~~------~--~~~~~i~~~~~  242 (386)
                      ||+|+|. +||||||||+|+|||.+|+++|+||++||+|+|++....+.+....  +...      .  ...+. .....
T Consensus         1 m~~iav~-~KGGvGKTT~~~nLA~~La~~G~kVlliD~Dpq~n~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~-~~~~~   78 (270)
T cd02040           1 MRQIAIY-GKGGIGKSTTTQNLSAALAEMGKKVMIVGCDPKADSTRLLLGGKAIPTVLDTLREKGEVELELEDV-IFEGF   78 (270)
T ss_pred             CcEEEEE-eCCcCCHHHHHHHHHHHHHhCCCeEEEEEcCCCCCchhhhcCCCCCCcHHHHHHhhcccccchhhh-eeecC
Confidence            4789999 6999999999999999999999999999999998766555442211  0000      0  11222 23345


Q ss_pred             CCceEEecCCCCCccccc-CCchH-HHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHh-hhhhcCCCeEEEEeCCCcchH
Q 016622          243 LGVKLVSFGFSGQGRAIM-RGPMV-SGVINQLLTTTEWGELDYLVIDMPPGTGDIQLT-LCQVVPLTAAVIVTTPQKLAF  319 (386)
Q Consensus       243 ~~l~vl~~~~~~~~~~~~-~~~~~-~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~-~~~~~~~d~vviV~~~~~~s~  319 (386)
                      +|++++|++......... ..... ...++. ++.+. ++||||||||++......+. ...+..+|.+++|++|+..++
T Consensus        79 ~~l~~ip~~~~~~~~~~~~~~~~~~~~~l~~-l~~~~-~~yD~viID~~g~~~~~~~~~~~~~~aaD~vlip~~p~~~sl  156 (270)
T cd02040          79 GGIKCVESGGPEPGVGCAGRGVITAINLLEE-LGAYE-DDLDFVIYDVLGDVVCGGFAMPIREGKAQEIYIVTSGEMMAL  156 (270)
T ss_pred             CCeEEEeCCCCCCCCCCcCcchhhHHHHHHh-cCccc-cCCCEEEEecccCcccCCcccccccccccEEEEEecCchHHH
Confidence            799999987543221111 11111 112232 23333 68999999997654211111 111225799999999999999


Q ss_pred             HHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          320 IDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       320 ~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      .++.++++.+.+.    +.++.|+|.|+....        ..+...+++++.+|.++++.||++..+.++
T Consensus       157 ~~~~~l~~~i~~~~~~~~~~l~gVv~n~~~~~--------~~~~~~~~l~~~~g~~vl~~Ip~~~~v~~A  218 (270)
T cd02040         157 YAANNICKGILKYAKSGGVRLGGLICNSRNTD--------REDELIDAFAKRLGTQMIHFVPRDNVVQRA  218 (270)
T ss_pred             HHHHHHHHHHHHhCccCCCceEEEEEecCCCh--------hHHHHHHHHHHHcCCCeEeecCCcHHHHHH
Confidence            9888877666443    577888998874321        122356788889999999999999988775

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.

>PRK13869 plasmid-partitioning protein RepA; Provisional

Probab=99.93  E-value=1.3e-25  Score=221.43  Aligned_cols=204  Identities=24%  Similarity=0.242  Sum_probs=144.5

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccc--------c-------ccCCCCCc
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL--------L-------EMNPEKRT  236 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~--------~-------~~~~~~~~  236 (386)
                      .+++|+|+|.|||+||||+|+|||..||++|+||++||+|+|+ +++.+||.....        .       ......+.
T Consensus       120 ~~~vIav~n~KGGvGKTTta~nLA~~LA~~G~rVLlIDlDpQ~-~lt~~~g~~~~~~~~~~~tl~~~l~~~~~~~~~~~~  198 (405)
T PRK13869        120 HLQVIAVTNFKGGSGKTTTSAHLAQYLALQGYRVLAVDLDPQA-SLSALLGVLPETDVGANETLYAAIRYDDTRRPLRDV  198 (405)
T ss_pred             CceEEEEEcCCCCCCHHHHHHHHHHHHHhcCCceEEEcCCCCC-CHHHHcCCCccccccccccHHHHHhccccCCCHHHh
Confidence            4689999999999999999999999999999999999999985 677777754321        0       01122234


Q ss_pred             eeeeccCCceEEecCCCCCcccc----------cCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCC
Q 016622          237 IIPTEYLGVKLVSFGFSGQGRAI----------MRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLT  306 (386)
Q Consensus       237 i~~~~~~~l~vl~~~~~~~~~~~----------~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d  306 (386)
                      +.+..++|++++|++........          .........+++.++.+. ++||||||||||+++..  +...+.++|
T Consensus       199 i~~t~~~~ldliPa~~~l~~~e~~~~~~~~~~~~~~~~~~~~L~~~L~~~~-~~yD~IiIDtpP~l~~~--t~~al~aAd  275 (405)
T PRK13869        199 IRPTYFDGLHLVPGNLELMEFEHTTPKALSDKGTRDGLFFTRVAQAFDEVA-DDYDVVVIDCPPQLGFL--TLSGLCAAT  275 (405)
T ss_pred             eeccCCCCeeEecCCHHHHHHHHHhHHHHhhhcccchhHHHHHHHHHHHhh-ccCCEEEEECCCchhHH--HHHHHHHcC
Confidence            55666789999997743221110          011112234666776665 78999999999999854  445577889


Q ss_pred             eEEEEeCCCcchHHHHHHHHHHH-------HcC----CCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeE-E
Q 016622          307 AAVIVTTPQKLAFIDVAKGVRMF-------SKL----KVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHL-F  374 (386)
Q Consensus       307 ~vviV~~~~~~s~~~~~~~~~~l-------~~~----~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl-~  374 (386)
                      .+++++.|+..++..+.++++++       ++.    +..++|+|+|+++.....      .+...+.+.+.+|-.++ .
T Consensus       276 ~viiPv~p~~~~~~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~il~t~~~~~~~~------~~~~~~~l~~~~~~~vl~~  349 (405)
T PRK13869        276 SMVITVHPQMLDIASMSQFLLMTRDLLGVVKEAGGNLQYDFIRYLLTRYEPQDAP------QTKVAALLRNMFEDHVLTN  349 (405)
T ss_pred             EEEEecCCcHHHHHHHHHHHHHHHHHHHHHHHhCCCCCcceeEEEEEeECCCCcH------HHHHHHHHHHHhhhhhccC
Confidence            99999999999988888887532       222    234679999998865421      12346677777875555 4


Q ss_pred             ecCCChhhhhc
Q 016622          375 DLPIRPTVSYM  385 (386)
Q Consensus       375 ~IP~d~~i~~a  385 (386)
                      .||.+..+.++
T Consensus       350 ~I~~s~ai~~a  360 (405)
T PRK13869        350 PMVKSAAVSDA  360 (405)
T ss_pred             cCcchHHHHhh
Confidence            78888877765

>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein

Probab=99.93  E-value=1.3e-24  Score=209.17  Aligned_cols=194  Identities=20%  Similarity=0.259  Sum_probs=146.5

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccccc----ccC---CC-C----Ccee
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLL----EMN---PE-K----RTII  238 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~----~~~---~~-~----~~i~  238 (386)
                      ..+++|+|+|+|||+||||+|+|||.+|+++|+||++||+|+++++++.+||.+....    ...   .. .    ....
T Consensus        91 ~~~~vIav~~~KGGvGkTT~a~nLA~~la~~g~~VlLvD~D~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~l~~~~  170 (322)
T TIGR03815        91 ARGVVVAVIGGRGGAGASTLAAALALAAARHGLRTLLVDADPWGGGLDLLLGAEDVPGLRWPDLSQARGRLPAGALRDAL  170 (322)
T ss_pred             CCceEEEEEcCCCCCcHHHHHHHHHHHHHhcCCCEEEEecCCCCCCeeeeecCCCCCCcCHHHHhhcCCCcCHHHHHHhC
Confidence            4578999999999999999999999999999999999999999999888888754210    000   00 0    0112


Q ss_pred             eeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcch
Q 016622          239 PTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLA  318 (386)
Q Consensus       239 ~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s  318 (386)
                      +. .+|+++++.+....  ...    ....++++++.+. +.|||||||+|++.+.....  .+..+|.+++|++++..+
T Consensus       171 ~~-~~~l~vl~~~~~~~--~~~----~~~~l~~~l~~l~-~~~D~VIID~p~~~~~~~~~--~L~~AD~vliV~~~~~~s  240 (322)
T TIGR03815       171 PR-RGGLSVLSWGRAVG--AAL----PPAAVRAVLDAAR-RGGDLVVVDLPRRLTPAAET--ALESADLVLVVVPADVRA  240 (322)
T ss_pred             CC-cCCeEEEecCCCCc--CCC----CHHHHHHHHHHHH-hcCCEEEEeCCCCCCHHHHH--HHHHCCEEEEEcCCcHHH
Confidence            22 46899998775431  111    2345566666655 79999999999998765443  366789999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          319 FIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       319 ~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      +..+.++++.+++.+.+ +++|+|+....          ....+++++.+|.++++.||+++.+.++
T Consensus       241 l~~a~r~l~~l~~~~~~-~~lVv~~~~~~----------~~~~~~i~~~lg~~v~~~Ip~d~~v~~a  296 (322)
T TIGR03815       241 VAAAARVCPELGRRNPD-LRLVVRGPAPA----------GLDPEEIAESLGLPLLGEVRDQRGLARA  296 (322)
T ss_pred             HHHHHHHHHHHhhhCCC-eEEEEeCCCCC----------CCCHHHHHHHhCCCceeeCCCChhHHHH
Confidence            99999999999876543 56777864321          1246889999999999999999988765

Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=99.93  E-value=1.9e-24  Score=202.79  Aligned_cols=193  Identities=21%  Similarity=0.179  Sum_probs=133.1

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCc--cccc----------ccCCCCCceeeecc
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPE--NRLL----------EMNPEKRTIIPTEY  242 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~--~~~~----------~~~~~~~~i~~~~~  242 (386)
                      +|+|+ +||||||||+|+|||.+||++|+||++||+|+++. +...++..  ..+.          ......+.+ ...+
T Consensus         2 ~i~v~-gKGGvGKTT~a~nLA~~la~~G~rvlliD~Dpq~~-~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~~i-~~~~   78 (267)
T cd02032           2 VLAVY-GKGGIGKSTTSSNLSVALAKRGKKVLQIGCDPKHD-STFTLTGFLIPTVIDILEEVDFHYEELWPEDVI-YEGY   78 (267)
T ss_pred             EEEEe-cCCCCCHHHHHHHHHHHHHHCCCcEEEEecCCCCC-cceeccCCCCCCHHHHHHhccccccCCChhheE-EECC
Confidence            68898 69999999999999999999999999999999864 44444321  1111          011122233 3456


Q ss_pred             CCceEEecCCCCCcccc--cCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHH
Q 016622          243 LGVKLVSFGFSGQGRAI--MRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFI  320 (386)
Q Consensus       243 ~~l~vl~~~~~~~~~~~--~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~  320 (386)
                      +|++++|++........  .........++++ . .. .+||||||||+++....... ..+..+|.+++|++|+..++.
T Consensus        79 ~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~-~~yD~vIIDt~g~~~~~~~~-~al~~aD~vlip~~p~~~~l~  154 (267)
T cd02032          79 GGVDCVEAGGPPAGAGCGGYVVGETVKLLKEL-N-LF-EEYDVILFDVLGDVVCGGFA-APLNYADYALIVTDNDFDSIF  154 (267)
T ss_pred             CCcEEEEcCCCCCCccccchHHHHHHHHHHHc-c-cc-ccCCEEEEeCCCCcccccch-hhhhhcCEEEEEecCCcccHH
Confidence            79999998764322111  1011111233331 1 22 68999999998766432211 225567999999999999999


Q ss_pred             HHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          321 DVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       321 ~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      .+.++++.+++    .++++.|+|+||++..           ...+++.+.++.++++.||+++.+.++
T Consensus       155 ~~~~~~~~i~~~~~~~~l~~~giV~Nr~~~~-----------~~i~~~~~~~~~~vl~~Ip~~~~v~~A  212 (267)
T cd02032         155 AANRIAAAVREKAKTYKVRLAGLIANRTDKT-----------DLIDKFVEAVGMPVLAVLPLIEDIRRS  212 (267)
T ss_pred             HHHHHHHHHHHHhhccCCceEEEEEeCCCHH-----------HHHHHHHHhCCCCEEEEecCCccccHH
Confidence            98888877653    3677889999998632           235677888999999999999988765

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.

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=99.93  E-value=9.4e-25  Score=192.62  Aligned_cols=178  Identities=27%  Similarity=0.339  Sum_probs=124.4

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSG  254 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~  254 (386)
                      .|+|+|+|||+||||+|+|||..|    +||++||+|+++++++.+||.+.........  .......+...+.+.+.. 
T Consensus         1 ~I~v~s~kgG~GKSt~a~nLA~~l----~~vlliD~D~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~-   73 (179)
T cd03110           1 QIAVISGKGGTGKTTVTAALAALL----KNVVLADCDVDAPNLHLFLKPEIEEEEDFIV--GGKKAVIDPELCISCGLC-   73 (179)
T ss_pred             CEEEEcCCCCCCHHHHHHHHHHHH----hCcEEEECCCCCCchhhhcCCCcccccccee--cCCceEEchhhhccccch-
Confidence            489999999999999999999999    7999999999999999999876532110000  000000111111111100 


Q ss_pred             CcccccCCchHHHHHHHHH-HhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCC
Q 016622          255 QGRAIMRGPMVSGVINQLL-TTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLK  333 (386)
Q Consensus       255 ~~~~~~~~~~~~~~l~~ll-~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~  333 (386)
                             +... ..+.+.+ ....++.||||||||||+.++.....  +..+|.+++|++|+..++.++.+.++.+++.+
T Consensus        74 -------~~~~-~~~~~~~~~~~~~~~~d~viiDtpp~~~~~~~~~--l~~aD~vliv~~~~~~~~~~~~~~~~~l~~~~  143 (179)
T cd03110          74 -------GKLV-TEVRKHAKEIAKAEGAELIIIDGPPGIGCPVIAS--LTGADAALLVTEPTPSGLHDLERAVELVRHFG  143 (179)
T ss_pred             -------HHHH-HHHHHHHHHhhhhcCCCEEEEECcCCCcHHHHHH--HHcCCEEEEEecCCcccHHHHHHHHHHHHHcC
Confidence                   1111 1222222 11223789999999999988654433  56689999999999999999999999999888


Q ss_pred             CCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecC
Q 016622          334 VPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLP  377 (386)
Q Consensus       334 ~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP  377 (386)
                      .+ .++|+|+++.....       ....+++.+.+|+|+++.||
T Consensus       144 ~~-~~vV~N~~~~~~~~-------~~~~~~~~~~~~~~vl~~ip  179 (179)
T cd03110         144 IP-VGVVINKYDLNDEI-------AEEIEDYCEEEGIPILGKIP  179 (179)
T ss_pred             CC-EEEEEeCCCCCcch-------HHHHHHHHHHcCCCeEEeCC
Confidence            77 47999998764321       12466778888999999998

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=99.93  E-value=1.3e-24  Score=203.93  Aligned_cols=193  Identities=20%  Similarity=0.171  Sum_probs=133.3

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcc--cc---c------cc-CCCCCceeeecc
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPEN--RL---L------EM-NPEKRTIIPTEY  242 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~--~~---~------~~-~~~~~~i~~~~~  242 (386)
                      +|+|. +||||||||+|+|||.+||++|+||++||+|++++. ...++...  .+   .      .. ....+ +.....
T Consensus         2 ~i~~~-gKGGVGKTT~~~nLA~~La~~g~rVLliD~D~q~~~-~~~l~~~~~~~i~~~~~~~~~~~~~~~~~~-~i~~~~   78 (268)
T TIGR01281         2 ILAVY-GKGGIGKSTTSSNLSVAFAKLGKRVLQIGCDPKHDS-TFTLTGRLIPTVIDVLQAVNYHYEDVRPED-VIYTGY   78 (268)
T ss_pred             EEEEE-cCCcCcHHHHHHHHHHHHHhCCCeEEEEecCccccc-cceecCCCCCcHHHHHHhccccccCCCHHH-eeEeCC
Confidence            68888 899999999999999999999999999999998744 44443211  11   1      00 11112 223445


Q ss_pred             CCceEEecCCCCCccc--ccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHH
Q 016622          243 LGVKLVSFGFSGQGRA--IMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFI  320 (386)
Q Consensus       243 ~~l~vl~~~~~~~~~~--~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~  320 (386)
                      +|++++|++.......  ..........++++  .. +++||||||||+++....... ..+.++|.+++|+.++..++.
T Consensus        79 ~~l~~i~~~~~~~~~~~~~~~~~~~~~~l~~~--~~-~~~yD~ViID~~~~~~~~~~~-~~l~aAD~vlip~~~~~~sl~  154 (268)
T TIGR01281        79 GGVDCVEAGGPPAGSGCGGYVVGETVKLLKEH--HI-LDDYDVILFDVLGDVVCGGFA-TPLQYADYALVVAANDFDALF  154 (268)
T ss_pred             CCeEEEecCCCCCCCcccceehhhhHHHhhhc--cc-cccCCEEEEecCCccccCccc-cchhhcCEEEEEecCchhHHH
Confidence            7999999876432211  11111111233331  12 268999999998765432211 225567999999999999999


Q ss_pred             HHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          321 DVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       321 ~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      .+.++++.+++    .++++.|+|+||++..           ...+++.+.++.++++.||++..+.++
T Consensus       155 ~~~~l~~~i~~~~~~~~l~~~gIV~N~~~~~-----------~~~~~~~~~~~~~vl~~I~~~~~v~~A  212 (268)
T TIGR01281       155 AANRIAASVQEKAKNYDVRLAGIIGNRSDAT-----------DLIERFNERVGMPVLGVVPDLEVIRRS  212 (268)
T ss_pred             HHHHHHHHHHHHhhcCCCceEEEEEeCCChH-----------HHHHHHHHHcCCCEEEEcCCChHHHHH
Confidence            99888877754    3577899999998753           235677888999999999999988775

The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.

>PRK13234 nifH nitrogenase reductase; Reviewed

Probab=99.92  E-value=7.7e-25  Score=207.92  Aligned_cols=200  Identities=18%  Similarity=0.170  Sum_probs=135.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc--ccc---------cCCCCCceeeec
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR--LLE---------MNPEKRTIIPTE  241 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~--~~~---------~~~~~~~i~~~~  241 (386)
                      +++|+|. +|||+||||+++|||..|+++|+|||+||+|+++++...+++....  +.+         .....+. ....
T Consensus         4 ~~~iai~-~KGGvGKTt~~~nLa~~la~~g~kVLliD~D~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-i~~~   81 (295)
T PRK13234          4 LRQIAFY-GKGGIGKSTTSQNTLAALVEMGQKILIVGCDPKADSTRLILNAKAQDTVLSLAAEAGSVEDLELEDV-MKIG   81 (295)
T ss_pred             ceEEEEE-CCCCccHHHHHHHHHHHHHHCCCeEEEEecccccccccccccCCCCCcHHHHHHhcCCcccccHHHH-heec
Confidence            4899997 9999999999999999999999999999999999887655543221  110         0111222 2345


Q ss_pred             cCCceEEecCCCCCcccccCCchHHHHHH-HHHHhcC-CCCCcEEEEcCCCCCChHHHh-hhhhcCCCeEEEEeCCCcch
Q 016622          242 YLGVKLVSFGFSGQGRAIMRGPMVSGVIN-QLLTTTE-WGELDYLVIDMPPGTGDIQLT-LCQVVPLTAAVIVTTPQKLA  318 (386)
Q Consensus       242 ~~~l~vl~~~~~~~~~~~~~~~~~~~~l~-~ll~~~~-~~~yD~VIIDtpp~~~~~~~~-~~~~~~~d~vviV~~~~~~s  318 (386)
                      .+|++++|++......   ........++ ..++.+. .++||||||||+++.....+. .....++|.+++|++|+..+
T Consensus        82 ~~gl~lipa~~~~~~~---~~~~~~~~l~~~~l~~~~~~~~yD~IlID~~~~~~~nal~~~~~~~aAD~vIIPv~pe~~S  158 (295)
T PRK13234         82 YKGIKCVESGGPEPGV---GCAGRGVITSINFLEENGAYDDVDYVSYDVLGDVVCGGFAMPIRENKAQEIYIVMSGEMMA  158 (295)
T ss_pred             CCCeEEEECCCCCCCC---CCCcceeeeHHHHHHHcCCCccCCEEEEEcCCCceECCCccccccccCceEEEecCccHHH
Confidence            6799999986432221   0000011222 2333321 268999999996543211111 00012679999999999999


Q ss_pred             HHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          319 FIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       319 ~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      +.++.++++.+++.    ++++.|+|+|+.+...        .+...+++.+.++.++++.||++..+.++
T Consensus       159 l~gl~~l~~~i~~~~~~~~l~~~gIV~N~~rt~~--------~~~~~e~l~e~~g~~ll~~Ip~d~~V~eA  221 (295)
T PRK13234        159 LYAANNIAKGILKYANSGGVRLGGLICNERQTDR--------ELELAEALAARLGSKLIHFVPRDNIVQHA  221 (295)
T ss_pred             HHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCch--------HHHHHHHHHHHhCCceEEECCCchHHHHH
Confidence            99999998777653    4678899999654222        12346788888999999999999998875

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=99.92  E-value=2.4e-24  Score=203.41  Aligned_cols=202  Identities=18%  Similarity=0.127  Sum_probs=131.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcc-c---ccc-----cCCCCCceeeeccC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPEN-R---LLE-----MNPEKRTIIPTEYL  243 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~-~---~~~-----~~~~~~~i~~~~~~  243 (386)
                      |++|+|+ +||||||||+|+|||.+||++|+||++||+|+|++....+.+... .   ...     .....+.+. ..++
T Consensus         1 ~~~i~~~-gKGGVGKTT~a~nLA~~La~~G~rVLliD~Dpq~n~t~~l~~~~~~~l~d~~~~~~~~~~~~~~~i~-~~~~   78 (279)
T PRK13230          1 MRKFCFY-GKGGIGKSTTVCNIAAALAESGKKVLVVGCDPKADCTRNLVGEKIPTVLDVLREKGIDNLGLEDIIY-EGFN   78 (279)
T ss_pred             CcEEEEE-CCCCCcHHHHHHHHHHHHHhCCCEEEEEeeCCcccccccccCccCCCHHHHHHhcCCCCCCHHHhee-eCCC
Confidence            5799999 799999999999999999999999999999999865554433211 1   000     011123333 3468


Q ss_pred             CceEEecCCCCCcccccCCch-H-HHHHHHHHHhcCCCCCcEEEEcCCCCCChHHH-hhhhhcCCCeEEEEeCCCcchHH
Q 016622          244 GVKLVSFGFSGQGRAIMRGPM-V-SGVINQLLTTTEWGELDYLVIDMPPGTGDIQL-TLCQVVPLTAAVIVTTPQKLAFI  320 (386)
Q Consensus       244 ~l~vl~~~~~~~~~~~~~~~~-~-~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~-~~~~~~~~d~vviV~~~~~~s~~  320 (386)
                      |++++|++............. . ...++. +..+.+.+||||||||+++.....+ ....+..+|.+++|++|+..++.
T Consensus        79 ~l~lipa~~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~yD~viID~~~~~~~~~l~~~~~~~aAD~vlIp~~p~~~si~  157 (279)
T PRK13230         79 GIYCVESGGPEPGYGCAGRGVITAIDLLKK-LGVFEELGPDVVIYDILGDVVCGGFAMPLQKGLADDVYIVTTCDPMAIY  157 (279)
T ss_pred             CcEEEECCCCCCCCCcCCcchhhHHHHHHH-cCcccccCCCEEEEecCCccccCCccccccccccceEEEeccchHHHHH
Confidence            999999875432211100000 0 111221 2122224799999999765421111 11123457999999999999999


Q ss_pred             HHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          321 DVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       321 ~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      ++.++++.+++    .+.++.|++.|+-. ...       .....+++++.++.++++.||++..+.++
T Consensus       158 ~~~~ll~~i~~~~~~~~~~i~gIv~n~r~-~~~-------~~~~~e~l~~~~g~~vl~~Ip~~~~v~eA  218 (279)
T PRK13230        158 AANNICKGIKRFAKRGKSALGGIIYNGRS-VID-------APDIVEEFAKKIGTNVIGKIPMSNIITEA  218 (279)
T ss_pred             HHHHHHHHHHHHhhcCCCcceEEEEeccC-CCc-------hhHHHHHHHHHhCCcEEEECCCChHHHHH
Confidence            99888776643    35667788766321 110       12357888899999999999999988765

>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase

Probab=99.92  E-value=2e-24  Score=194.93  Aligned_cols=163  Identities=24%  Similarity=0.270  Sum_probs=122.6

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHH-CCCcEEEEEcCCCCCCCCccCCCcccc--cc----cC-CCCCceeeecc
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAG-MGARVGIFDADVYGPSLPTMVSPENRL--LE----MN-PEKRTIIPTEY  242 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~-~G~rVllID~D~~~~sl~~~lg~~~~~--~~----~~-~~~~~i~~~~~  242 (386)
                      ..+++|+|+|+|||+||||+++|||++||+ .|+||++||+|+++++++.+++.+...  .+    .. ...+.+.....
T Consensus        33 ~~~~vi~v~s~kgG~GkSt~a~nLA~~la~~~g~~VLlvD~D~~~~~~~~~~~~~~~~~l~~~l~~~~~~l~~~i~~~~~  112 (207)
T TIGR03018        33 KNNNLIMVTSSLPGEGKSFTAINLAISLAQEYDKTVLLIDADLRRPSLHRTLGLEAEPGLSDCLLDPVLDLADVLVPTNI  112 (207)
T ss_pred             CCCeEEEEECCCCCCCHHHHHHHHHHHHHHhcCCeEEEEECCCCChhhhheeCCCCCCCHHHHHcCCCCCHHHHhccCCC
Confidence            356899999999999999999999999996 699999999999999998888765431  11    11 12233333345


Q ss_pred             CCceEEecCCCCCcc-cccCCchHHHHHHHHHHhcCCCCC--cEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcch
Q 016622          243 LGVKLVSFGFSGQGR-AIMRGPMVSGVINQLLTTTEWGEL--DYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLA  318 (386)
Q Consensus       243 ~~l~vl~~~~~~~~~-~~~~~~~~~~~l~~ll~~~~~~~y--D~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s  318 (386)
                      ++++++|.+...... ......    .+.++++.++ .+|  ||||||+||+.... ...+  ...+|.+++|++++..+
T Consensus       113 ~~l~vl~~g~~~~~~~~~~~~~----~l~~~l~~l~-~~y~~D~IiiD~pp~~~~~~~~~l--~~~aD~viiV~~~~~~~  185 (207)
T TIGR03018       113 GRLSLLPAGRRHPNPTELLASQ----RMRSLLHELA-RRYPDRIIIIDTPPLLVFSEARAL--ARLVGQIVLVVEEGRTT  185 (207)
T ss_pred             CCEEEEeCCCCCCCHHHHhCcH----HHHHHHHHHH-hhCCCCEEEEECCCCcchhHHHHH--HHhCCEEEEEEECCCCC
Confidence            789999988654332 122223    4455555544 567  99999999988632 2222  33579999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCeEEEEEc
Q 016622          319 FIDVAKGVRMFSKLKVPCIAVVEN  342 (386)
Q Consensus       319 ~~~~~~~~~~l~~~~~~i~gvVlN  342 (386)
                      ...+.+.++.++  +.+++|+|+|
T Consensus       186 ~~~~~~~~~~l~--~~~~~G~v~N  207 (207)
T TIGR03018       186 QEAVKEALSALE--SCKVLGVVLN  207 (207)
T ss_pred             HHHHHHHHHHhc--CCCeEEEEeC
Confidence            999999999998  6789999998

Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.

>TIGR03029 EpsG chain length determinant protein tyrosine kinase EpsG

Probab=99.92  E-value=1.8e-24  Score=203.72  Aligned_cols=165  Identities=19%  Similarity=0.262  Sum_probs=125.5

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccc-----cccCCCCCceee-eccCCc
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL-----LEMNPEKRTIIP-TEYLGV  245 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~-----~~~~~~~~~i~~-~~~~~l  245 (386)
                      ..++|+|+|+|||+||||+|.|||.++|+.|+||++||+|++++.++.+++.+...     .......+.+.. ...+|+
T Consensus       102 ~~~vi~vts~~~g~Gktt~a~nLA~~la~~g~~VllID~D~~~~~~~~~~~~~~~~gl~~~l~~~~~~~~i~~~~~~~~l  181 (274)
T TIGR03029       102 GRKALAVVSAKSGEGCSYIAANLAIVFSQLGEKTLLIDANLRDPVQHRNFKLSEQRGLSDILAGRSDLEVITHIPALENL  181 (274)
T ss_pred             CCeEEEEECCCCCCCHHHHHHHHHHHHHhcCCeEEEEeCCCCCccHHHhcCCCCCCCHHHHhCCCCCHHHeeecCCCCCE
Confidence            45799999999999999999999999999999999999999999988888765331     111111222222 234799


Q ss_pred             eEEecCCCCCcc-cccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh-HHHhhhhhcCCCeEEEEeCCCcchHHHHH
Q 016622          246 KLVSFGFSGQGR-AIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD-IQLTLCQVVPLTAAVIVTTPQKLAFIDVA  323 (386)
Q Consensus       246 ~vl~~~~~~~~~-~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~-~~~~~~~~~~~d~vviV~~~~~~s~~~~~  323 (386)
                      +++|+|...... ..+..+    .+.++++.++ +.||||||||||.... ....+  ...+|.+++|++++..+..++.
T Consensus       182 ~~lp~g~~~~~~~~~~~~~----~~~~~l~~l~-~~yD~ViiD~pp~~~~~d~~~~--~~~~d~vilV~~~~~t~~~~~~  254 (274)
T TIGR03029       182 SVLPAGAIPPNPQELLARP----AFTDLLNKVM-GDYDVVIVDTPSAEHSSDAQIV--ATRARGTLIVSRVNETRLHELT  254 (274)
T ss_pred             EEEeCcCCCCCHHHHhCcH----HHHHHHHHHH-hcCCEEEEeCCCcccccHHHHH--HHhCCeEEEEEECCCCCHHHHH
Confidence            999998754322 334433    3455555554 7999999999997642 12222  2346999999999999999999


Q ss_pred             HHHHHHHcCCCCeEEEEEcC
Q 016622          324 KGVRMFSKLKVPCIAVVENM  343 (386)
Q Consensus       324 ~~~~~l~~~~~~i~gvVlN~  343 (386)
                      +.++.+++.+.+++|+|+|+
T Consensus       255 ~~~~~l~~~~~~~~G~VlN~  274 (274)
T TIGR03029       255 SLKEHLSGVGVRVVGAVLNQ  274 (274)
T ss_pred             HHHHHHHhCCCCEEEEEeCC
Confidence            99999999999999999996

The proteins in this family are homologs of the EpsG protein found in Methylobacillus strain 12S and are generally found in operons with other Eps homologs. The protein is believed to function as the protein tyrosine kinase component of the chain length regulator (along with the transmembrane component EpsF).

>cd02033 BchX Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring

Probab=99.92  E-value=7.2e-24  Score=202.04  Aligned_cols=196  Identities=24%  Similarity=0.368  Sum_probs=138.7

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc--cccc---CC-CC-----Cceee
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR--LLEM---NP-EK-----RTIIP  239 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~--~~~~---~~-~~-----~~i~~  239 (386)
                      +..++|+|+ +|||+||||+++|||.+||++|+||++||+|+++++++.+||....  +.+.   .. ..     ..+..
T Consensus        29 ~~~~ii~v~-gkgG~GKSt~a~nLa~~la~~g~rVllid~D~~~~~~~~~~g~~~~~~i~d~~~~~~l~~~~~~~~dv~~  107 (329)
T cd02033          29 KKTQIIAIY-GKGGIGKSFTLANLSYMMAQQGKRVLLIGCDPKSDTTSLLFGGKACPTIIETSAKKKLAGEEVQIGDVCF  107 (329)
T ss_pred             CCCeEEEEE-CCCCCCHHHHHHHHHHHHHHCCCcEEEEEeeecccccchhccccCCCcccccccccccCcccceeeceEE
Confidence            456899999 6999999999999999999999999999999999999999886432  1111   00 00     11111


Q ss_pred             eccCCceEEecCCCCCcccccCCchHHHHHH--HHHHh---cCCCCCcEEEEcCCCCCC--hHHHhhhhhcCCCeEEEEe
Q 016622          240 TEYLGVKLVSFGFSGQGRAIMRGPMVSGVIN--QLLTT---TEWGELDYLVIDMPPGTG--DIQLTLCQVVPLTAAVIVT  312 (386)
Q Consensus       240 ~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~--~ll~~---~~~~~yD~VIIDtpp~~~--~~~~~~~~~~~~d~vviV~  312 (386)
                       ...|++++..+    ....|+++.....+.  ++++.   ..| +|||||||++++..  ...+... ...+|.+++|+
T Consensus       108 -~~~gv~~~~~g----~p~~~~G~~~~~~i~~~~~l~~l~~~~w-~~DyVliD~~gdv~~ggf~l~i~-~~~ad~VIVVt  180 (329)
T cd02033         108 -KRDGVFAMELG----GPEVGRGCGGRGIIHGFELLEKLGFHDW-DFDYVLLDFLGDVVCGGFGLPIA-RDMAQKVIVVG  180 (329)
T ss_pred             -EeCCEEEecCC----CCeecccccchHHHHHHHHHHHccCccc-cCCEEEEecCCcceeccccchhh-hcCCceEEEeC
Confidence             23477776543    233455554332222  34443   466 89999999976442  1112222 12357899999


Q ss_pred             CCCcchHHH---HHHHHHHHHcCC--CCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          313 TPQKLAFID---VAKGVRMFSKLK--VPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       313 ~~~~~s~~~---~~~~~~~l~~~~--~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      +++..++.+   +.+.++++++.+  .+++|+|+||++.           ....+++++.+++++++.||+|+.++++
T Consensus       181 ~pe~~si~~A~~v~kai~~~~~lg~~~~i~GlViNr~d~-----------~~~ie~~ae~lgi~vLg~IP~D~~V~~a  247 (329)
T cd02033         181 SNDLQSLYVANNVCNAVEYFRKLGGNVGVAGMVINKDDG-----------TGEAQAFAAHAGIPILAAIPADEELRRK  247 (329)
T ss_pred             CchHHHHHHHHHHHHHHHHHHHhCCCCCceEEEEeCcCC-----------cchHHHHHHHhCCCEEEECCCCHHHHHH
Confidence            999999865   556668888774  6789999999753           2357899999999999999999999876

This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L subunit (bchL and chlL) and nitrogenase Fe protein (nifH gene) suggest their functional similarity. Members of the BchX family serve as the unique electron donors to their respective catalytic subunits (bchN-bchB, bchY-bchZ and nitrogenase component 1). Mechanistically, they hydrolyze ATP and transfer electrons through a Fe4-S4 cluster.

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=99.92  E-value=5.4e-24  Score=187.23  Aligned_cols=159  Identities=31%  Similarity=0.490  Sum_probs=125.4

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSG  254 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~  254 (386)
                      +|+|+|+|||+||||+|+|||.+|+++|+||++||+|+++++++.+++.+...             .. +          
T Consensus         1 ~i~v~~~kgG~GKtt~a~~la~~l~~~g~~vllvD~D~~~~~~~~~~~~~~~~-------------~~-~----------   56 (179)
T cd02036           1 VIVVTSGKGGVGKTTTTANLGTALAQLGYKVVLIDADLGLRNLDLILGLENRV-------------VY-T----------   56 (179)
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHHHHhCCCeEEEEeCCCCCCCchhhccccccC-------------Cc-c----------
Confidence            58999999999999999999999999999999999999988887665533210             00 0          


Q ss_pred             CcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCC
Q 016622          255 QGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKV  334 (386)
Q Consensus       255 ~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~  334 (386)
                                    +.+++   . +  ||||||+||+.+.....  .+..+|.+++|+.|+..++..+.++++.+++.+.
T Consensus        57 --------------~~~~~---~-~--d~viiD~p~~~~~~~~~--~l~~ad~viiv~~~~~~s~~~~~~~~~~~~~~~~  114 (179)
T cd02036          57 --------------LHDVL---A-G--DYILIDSPAGIERGFIT--AIAPADEALLVTTPEISSLRDADRVKGLLEALGI  114 (179)
T ss_pred             --------------hhhcc---c-C--CEEEEECCCCCcHHHHH--HHHhCCcEEEEeCCCcchHHHHHHHHHHHHHcCC
Confidence                          00011   0 1  99999999988765443  3567899999999999999999999999998888


Q ss_pred             CeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          335 PCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       335 ~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      +..++|+|+++.....      .....+++.+.++.++++.||+++.+.++
T Consensus       115 ~~~~iv~N~~~~~~~~------~~~~~~~~~~~~~~~v~~~Ip~~~~~~~a  159 (179)
T cd02036         115 KVVGVIVNRVRPDMVE------GGDMVEDIEEILGVPLLGVIPEDPAVIRA  159 (179)
T ss_pred             ceEEEEEeCCcccccc------hhhHHHHHHHHhCCCEEEEecCCHHHHHH
Confidence            8999999998765421      11225678888999999999999988765

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.

>TIGR01287 nifH nitrogenase iron protein

Probab=99.92  E-value=6.4e-24  Score=200.06  Aligned_cols=200  Identities=22%  Similarity=0.227  Sum_probs=132.6

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc------cccc----CCCCCceeeeccC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR------LLEM----NPEKRTIIPTEYL  243 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~------~~~~----~~~~~~i~~~~~~  243 (386)
                      ++|+|+ +||||||||+|.|||.+||++|+||++||+|+|++....+++....      +...    ....+ +......
T Consensus         1 ~~ia~~-gKGGVGKTT~a~nLA~~La~~G~~VlliD~D~q~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~-~i~~~~~   78 (275)
T TIGR01287         1 RQIAIY-GKGGIGKSTTTQNIAAALAEMGKKVMIVGCDPKADSTRLLLGGKAQPTVLDVLREKGAEDLELED-VIKEGFG   78 (275)
T ss_pred             CeeEEe-CCCcCcHHHHHHHHHHHHHHCCCeEEEEeCCCCCCccccccCCCCCCCHHHHHhhcCCCCCCHHH-eeeeCCC
Confidence            479998 6999999999999999999999999999999999776655443222      1000    11122 3344567


Q ss_pred             CceEEecCCCCCcccc-cCCchH-HHHHHHHHHhcCCCCCcEEEEcCCCCCChHHH-hhhhhcCCCeEEEEeCCCcchHH
Q 016622          244 GVKLVSFGFSGQGRAI-MRGPMV-SGVINQLLTTTEWGELDYLVIDMPPGTGDIQL-TLCQVVPLTAAVIVTTPQKLAFI  320 (386)
Q Consensus       244 ~l~vl~~~~~~~~~~~-~~~~~~-~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~-~~~~~~~~d~vviV~~~~~~s~~  320 (386)
                      |++++|++........ ...... ...++. +..+. ++||||||||++......+ ......++|.+++|++|+..++.
T Consensus        79 ~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~-l~~l~-~~yD~iiIDt~~~~~~~~~~~~~~~~aAD~viip~~p~~~sl~  156 (275)
T TIGR01287        79 GIRCVESGGPEPGVGCAGRGVITAINLLEE-LGAYE-DDLDFVFYDVLGDVVCGGFAMPIREGKAQEIYIVTSGEMMALY  156 (275)
T ss_pred             CEEEEeCCCCCccCCCccchhhhHHHHHHH-hhhhh-ccCCEEEEeccCcceecceeeccccccccEEEEEecchHHHHH
Confidence            9999997643321110 011110 113333 23333 6899999999764421111 11112357999999999999999


Q ss_pred             HHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          321 DVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       321 ~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      ++.++++.+++    .+.++.|+|.|+.....        .+...+++.+.++.++++.||++..+.+|
T Consensus       157 ~~~~l~~~i~~~~~~~~~~~~giv~n~~~~~~--------~~~~~e~l~~~~~~~vl~~Ip~~~~v~~A  217 (275)
T TIGR01287       157 AANNICKGILKYAKSGGVRLGGLICNSRNVDD--------EKELIDEFAKKLGTQLIHFVPRSNIVQKA  217 (275)
T ss_pred             HHHHHHHHHHHHHhcCCCeeeEEEEcCCCCch--------HHHHHHHHHHHhCCceEEECCCChHHHHH
Confidence            98888765433    36678889988732111        11346788888999999999999998876

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>TIGR03453 partition_RepA plasmid partitioning protein RepA

Probab=99.92  E-value=2.3e-24  Score=212.44  Aligned_cols=205  Identities=23%  Similarity=0.252  Sum_probs=141.1

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccccc---------------ccCCCCC
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLL---------------EMNPEKR  235 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~---------------~~~~~~~  235 (386)
                      ..+++|+|+|.|||+||||+|+|||.+|+++|+||++||+|+|+ +++.++|......               ......+
T Consensus       102 ~~~~vI~v~n~KGGvGKTT~a~nLA~~La~~G~rVLlID~DpQ~-~ls~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~  180 (387)
T TIGR03453       102 EHLQVIAVTNFKGGSGKTTTAAHLAQYLALRGYRVLAIDLDPQA-SLSALFGYQPEFDVGENETLYGAIRYDDERRPLSE  180 (387)
T ss_pred             CCceEEEEEccCCCcCHHHHHHHHHHHHHhcCCCEEEEecCCCC-CHHHHcCCCcccccccCccHHHHHhccccccCHHh
Confidence            35689999999999999999999999999999999999999975 6777777543210               0111223


Q ss_pred             ceeeeccCCceEEecCCCCCcccc------cC----CchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCC
Q 016622          236 TIIPTEYLGVKLVSFGFSGQGRAI------MR----GPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPL  305 (386)
Q Consensus       236 ~i~~~~~~~l~vl~~~~~~~~~~~------~~----~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~  305 (386)
                      .+.+...+|++++|++........      ..    .......+.+.++.+. ..||||||||||+++...  ...+.++
T Consensus       181 ~i~~~~~~~l~lip~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~-~~yD~IiiD~pp~~~~~~--~~al~aa  257 (387)
T TIGR03453       181 IIRKTYFPGLDLVPGNLELMEFEHETPRALSRGQGGDTIFFARVGEALAEVE-DDYDVVVIDCPPQLGFLT--LSALCAA  257 (387)
T ss_pred             hcccCCCCCeEEEeCCHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHH-hcCCEEEEeCCccHhHHH--HHHHHHc
Confidence            444556689999997643211100      00    1111234566666665 799999999999987543  4457788


Q ss_pred             CeEEEEeCCCcchHHHHHHHHHH-------HHcC----CCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeE-
Q 016622          306 TAAVIVTTPQKLAFIDVAKGVRM-------FSKL----KVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHL-  373 (386)
Q Consensus       306 d~vviV~~~~~~s~~~~~~~~~~-------l~~~----~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl-  373 (386)
                      |.+|+++.|+..++..+..+++.       +++.    +....++|+|+++.....      .+...+.+.+.+|..++ 
T Consensus       258 d~viipv~p~~~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~~~~~~~~~~------~~~~~~~l~~~~~~~vl~  331 (387)
T TIGR03453       258 TGVLITVHPQMLDVMSMSQFLLMTGDLLGVVREAGGNLSYDFMRYLVTRYEPNDGP------QAQMVAFLRSLFGDHVLT  331 (387)
T ss_pred             CeeEEcCCCchhhHHHHHHHHHHHHHHHHHHHHhcCCCCCceeEEEEeeECCCCcc------HHHHHHHHHHHhcccccc
Confidence            99999999988877766554433       3332    245689999998754321      12345667777887666 


Q ss_pred             EecCCChhhhhc
Q 016622          374 FDLPIRPTVSYM  385 (386)
Q Consensus       374 ~~IP~d~~i~~a  385 (386)
                      ..||.+..+.++
T Consensus       332 ~~I~~~~~~~~a  343 (387)
T TIGR03453       332 NPMLKSTAISDA  343 (387)
T ss_pred             ccccccHHHHhh
Confidence            478988887765

Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error.

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=99.91  E-value=4.7e-24  Score=199.79  Aligned_cols=202  Identities=21%  Similarity=0.181  Sum_probs=136.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc-c---ccc--CCCCCceeeeccCCce
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR-L---LEM--NPEKRTIIPTEYLGVK  246 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~-~---~~~--~~~~~~i~~~~~~~l~  246 (386)
                      ||+|+|. +|||+||||+|+|||.+|++.| ||++||+|++++....+++.... +   ...  ....+.+....++|++
T Consensus         2 ~~~iav~-~KGGvGKTT~a~nLA~~La~~G-rVLliD~Dpq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~   79 (264)
T PRK13231          2 MKKIAIY-GKGGIGKSTTVSNMAAAYSNDH-RVLVIGCDPKADTTRTLCGKRIPTVLDTLKDNRKPELEDIIHEGFNGIL   79 (264)
T ss_pred             ceEEEEE-CCCCCcHHHHHHHHhcccCCCC-EEEEEeEccCcccchhhhcCCccHHHHHHhhcCCCChhHhheeCCCCeE
Confidence            5799999 7999999999999999999999 99999999998665544443211 1   000  0011223344567999


Q ss_pred             EEecCCCCCcccc-cCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHh-hhhhcCCCeEEEEeCCCcchHHHHHH
Q 016622          247 LVSFGFSGQGRAI-MRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLT-LCQVVPLTAAVIVTTPQKLAFIDVAK  324 (386)
Q Consensus       247 vl~~~~~~~~~~~-~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~-~~~~~~~d~vviV~~~~~~s~~~~~~  324 (386)
                      ++|.+........ .........+.+.+..+. ++||||||||++......+. .....++|.+++|++|+..++.++.+
T Consensus        80 ~i~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~-~~yD~ViIDt~~~~~~~~~~~~~~~~aaD~vlip~~p~~~si~~~~~  158 (264)
T PRK13231         80 CVESGGPEPGVGCAGRGVIVAMNLLENLGVFD-EDIDVVIYDVLGDVVCGGFSVPLREDYADEVYIVTSGEYMSLYAANN  158 (264)
T ss_pred             EEEcCCCCCCCCCcCceeeehhhhHHhhcccc-CCCCEEEEecCCCceEccccccccccccceeEEEecCchhHHHHHHH
Confidence            9987743221110 011101111222333343 78999999997654211111 01113679999999999999999999


Q ss_pred             HHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          325 GVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       325 ~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      +++.++..+....|+|.|+.+...        .....+++.+.++.++++.||+++.+.++
T Consensus       159 ~~~~i~~~~~~~~~vv~~~~~~~~--------~~~~~~~l~~~~~~~vl~~I~~~~~v~~a  211 (264)
T PRK13231        159 IARGIKKLKGKLGGIICNCRGIDN--------EVEIVSEFASRIGSRIIGVIPRSNLVQES  211 (264)
T ss_pred             HHHHHHHcCCcceEEEEcCCCCcc--------HHHHHHHHHHHhCCCeEEeCCCCHHHHHH
Confidence            999998877777888888754221        12356788888999889999999988875

>PHA02519 plasmid partition protein SopA; Reviewed

Probab=99.91  E-value=4.5e-24  Score=208.91  Aligned_cols=205  Identities=21%  Similarity=0.233  Sum_probs=139.8

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc-CCCCCCCCccCCCccccc------------c-cCCCCCce
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA-DVYGPSLPTMVSPENRLL------------E-MNPEKRTI  237 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~-D~~~~sl~~~lg~~~~~~------------~-~~~~~~~i  237 (386)
                      .+++|+|+|.||||||||+|+|||..||.+|+|||+||+ |+|+ +++.+||......            . .......+
T Consensus       105 ~~~vIav~n~KGGVGKTTta~nLA~~LA~~G~rVLlIDl~DpQ~-nlt~~~g~~~~~~~~~~~tl~~~~~~~~~~~~~~i  183 (387)
T PHA02519        105 NPVVLAVMSHKGGVYKTSSAVHTAQWLALQGHRVLLIEGNDPQG-TASMYHGYVPDLHIHADDTLLPFYLGERDNAEYAI  183 (387)
T ss_pred             CceEEEEecCCCCCcHHHHHHHHHHHHHhCCCcEEEEeCCCCCC-CcccccCcCccccccccccHHHHHhCCCcchHhhe
Confidence            468999999999999999999999999999999999996 9987 5666676543210            0 01123345


Q ss_pred             eeeccCCceEEecCCCCCccc--c---c-CC---chHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeE
Q 016622          238 IPTEYLGVKLVSFGFSGQGRA--I---M-RG---PMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAA  308 (386)
Q Consensus       238 ~~~~~~~l~vl~~~~~~~~~~--~---~-~~---~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~v  308 (386)
                      .+..++|++++|++.......  .   . .+   ......+...++.+. .+||||||||||+++..  +...+.++|.+
T Consensus       184 ~~t~~~~ldliPa~~~l~~~e~~l~~~~~~~~~~~~~~~~L~~~L~~l~-~~YD~IlID~pPslg~l--t~nAL~AAd~v  260 (387)
T PHA02519        184 KPTCWPGLDIIPSCLALHRIETDLMQYHDAGKLPHPPHLMLRAAIESVW-DNYDIIVIDSAPNLGTG--TINVVCAADVI  260 (387)
T ss_pred             ecCCCCCEEEEECChHHHHHHHHHHHhhhccccccCHHHHHHHHHHHhh-ccCCEEEEECCCCccHH--HHHHHHHhCEE
Confidence            556678999999874321110  0   0 00   112345666666665 78999999999999854  44557788999


Q ss_pred             EEEeCCCcchHHHHHHHHHHHHcC-------C-CCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeE-EecCCC
Q 016622          309 VIVTTPQKLAFIDVAKGVRMFSKL-------K-VPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHL-FDLPIR  379 (386)
Q Consensus       309 viV~~~~~~s~~~~~~~~~~l~~~-------~-~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl-~~IP~d  379 (386)
                      ++++.++..++..+.++++++.+.       + .+.+.+++||++......     .+...+.+.+.||-.++ ..||..
T Consensus       261 liPv~~~~~s~~s~~~~~~~i~~~~~~~~~~~~~~~l~il~t~~~~~~~~~-----~~~i~~~l~~~~g~~vl~~~I~~s  335 (387)
T PHA02519        261 VVATPAELFDYVSVLQFFTMLLDLLATVDLGGFEPVVRLLLTKYSLTVGNQ-----SRWMEEQIRNTWGSMVLRQVVRVT  335 (387)
T ss_pred             EEecCCcHHHHHHHHHHHHHHHHHHHHHHhcccCCCeEEEEeeECCCCchH-----HHHHHHHHHHHhccccccccCcCc
Confidence            999999999888777766555321       1 224568999987542111     11234677888886655 467777


Q ss_pred             hhhhhc
Q 016622          380 PTVSYM  385 (386)
Q Consensus       380 ~~i~~a  385 (386)
                      ..+.+|
T Consensus       336 ~~i~~a  341 (387)
T PHA02519        336 DEVGKG  341 (387)
T ss_pred             chHhhc
Confidence            666553

>PRK13705 plasmid-partitioning protein SopA; Provisional

Probab=99.91  E-value=3.6e-24  Score=210.03  Aligned_cols=206  Identities=20%  Similarity=0.228  Sum_probs=139.8

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc-CCCCCCCCccCCCcccc------------c-ccCCCCCc
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA-DVYGPSLPTMVSPENRL------------L-EMNPEKRT  236 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~-D~~~~sl~~~lg~~~~~------------~-~~~~~~~~  236 (386)
                      .++++|+|+|.||||||||+|+|||.+||++|+|||+||+ |+|+ +++.++|.....            . ........
T Consensus       104 ~~~~vIai~n~KGGVGKTT~a~nLA~~LA~~G~rVLlID~~DpQ~-nlt~~~g~~~~~~~~~~~~l~~~~~~~~~~~~~~  182 (388)
T PRK13705        104 VFPPVIGVAAHKGGVYKTSVSVHLAQDLALKGLRVLLVEGNDPQG-TASMYHGWVPDLHIHAEDTLLPFYLGEKDDATYA  182 (388)
T ss_pred             CCCeEEEEECCCCCchHHHHHHHHHHHHHhcCCCeEEEcCCCCCC-chhhhcCcCccccccccccHHHHHhcCCCchhhh
Confidence            3568999999999999999999999999999999999996 9988 455566643211            0 00112234


Q ss_pred             eeeeccCCceEEecCCCCCccc--c---c-CC---chHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCe
Q 016622          237 IIPTEYLGVKLVSFGFSGQGRA--I---M-RG---PMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTA  307 (386)
Q Consensus       237 i~~~~~~~l~vl~~~~~~~~~~--~---~-~~---~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~  307 (386)
                      +.+..++|++++|++.......  .   . .+   ......++..++.+. .+||||||||||+++...  ...+.++|.
T Consensus       183 i~~t~~~~ldliPa~~~l~~~e~~l~~~~~~~~~~~~~~~~L~~~l~~l~-~~YD~IiIDtpP~l~~~t--~nal~AaD~  259 (388)
T PRK13705        183 IKPTCWPGLDIIPSCLALHRIETELMGKFDEGKLPTDPHLMLRLAIETVA-HDYDVIVIDSAPNLGIGT--INVVCAADV  259 (388)
T ss_pred             eecCCCCCEEEEeCCHHHHHHHHHHHHhhhcccccccHHHHHHHHHHhhh-ccCCEEEEECCCchhHHH--HHHHHHcCE
Confidence            4556678999999764321110  0   0 00   112345666666665 789999999999998544  445778899


Q ss_pred             EEEEeCCCcchHHHHHHHHHHHHcC-------C-CCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeE-EecCC
Q 016622          308 AVIVTTPQKLAFIDVAKGVRMFSKL-------K-VPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHL-FDLPI  378 (386)
Q Consensus       308 vviV~~~~~~s~~~~~~~~~~l~~~-------~-~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl-~~IP~  378 (386)
                      +++++.++..++..+.++++++...       + .+.+.+++|+++......     .+...+.+.+.+|-.++ ..||.
T Consensus       260 viiP~~~~~~s~~g~~~~~~~i~~~~~~~~~~~~~~~l~il~t~~~~~~~~~-----~~~~~~~l~~~~~~~vl~~~I~~  334 (388)
T PRK13705        260 LIVPTPAELFDYTSALQFFDMLRDLLKNVDLKGFEPDVRILLTKYSNSNGSQ-----SPWMEEQIRDAWGSMVLKNVVRE  334 (388)
T ss_pred             EEEecCCcHHHHHHHHHHHHHHHHHHHHHhhccCCCCeEEEEEEecCCCchH-----HHHHHHHHHHHhccccccccCcc
Confidence            9999999999988887776666432       1 123568999987543110     01134667777876555 36888


Q ss_pred             Chhhhhc
Q 016622          379 RPTVSYM  385 (386)
Q Consensus       379 d~~i~~a  385 (386)
                      ...+.++
T Consensus       335 s~~i~~a  341 (388)
T PRK13705        335 TDEVGKG  341 (388)
T ss_pred             cchHhhh
Confidence            7777654

>TIGR02016 BchX chlorophyllide reductase iron protein subunit X

Probab=99.91  E-value=2.6e-23  Score=197.15  Aligned_cols=196  Identities=20%  Similarity=0.272  Sum_probs=122.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcc--cccccC----------CCCCceeeec
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPEN--RLLEMN----------PEKRTIIPTE  241 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~--~~~~~~----------~~~~~i~~~~  241 (386)
                      ++|+|+ +|||+||||+|+|||.+||++|+||++||+|++.+++..++|...  .+.+..          ...+.+....
T Consensus         1 ~vIav~-gKGGvGKTT~a~nLA~~La~~g~rVLlID~Dpq~~~~~~l~g~~~~~~l~dv~~~~~~~~~~~~~~~vi~~~~   79 (296)
T TIGR02016         1 RIIAIY-GKGGSGKSFTTTNLSHMMAEMGKRVLQLGCDPKHDSTSLLFGGISLPTIIEVATEKKLAGEEVKVGDVCFKTT   79 (296)
T ss_pred             CEEEEE-CCCCCCHHHHHHHHHHHHHHCCCeEEEEEecCCCCccchhccCCCCCCHHHHHHhhccccCCCCHHHheeecc
Confidence            489999 899999999999999999999999999999999988888766322  111100          0111122111


Q ss_pred             cCCceEEecCCCCCcccccCC---ch--H-HHHHHHHHHhcCCCCCcEEEEcCCCCC--ChHHHhhhhhcCCCeEEEEeC
Q 016622          242 YLGVKLVSFGFSGQGRAIMRG---PM--V-SGVINQLLTTTEWGELDYLVIDMPPGT--GDIQLTLCQVVPLTAAVIVTT  313 (386)
Q Consensus       242 ~~~l~vl~~~~~~~~~~~~~~---~~--~-~~~l~~ll~~~~~~~yD~VIIDtpp~~--~~~~~~~~~~~~~d~vviV~~  313 (386)
                      ..+.................+   ..  . ...++.+ ..+. .+||||||||++..  +... .......+|.+++|+.
T Consensus        80 ~~~~~~~~~~~e~~~~~~~~gc~~~~~~~~~~~l~~l-~~~~-~~yD~IliD~~~~~~~~g~~-~~~a~~~Ad~viVvt~  156 (296)
T TIGR02016        80 IMNGSGGVYGMELGGPEVGRGCGGRGIIHGFDLLEKL-GFHD-WDFDFVLMDFLGDVVCGGFA-TPLARSLAEEVIVIGS  156 (296)
T ss_pred             ccCcCCCcceeecCCCCcccccCcchhhHHHHHHHHh-hhhc-ccCCEEEEecCCCccccccc-cchhhhhCCeEEEEec
Confidence            111110000000000000000   10  0 1222221 1222 47999999996543  1111 1111335799999999


Q ss_pred             CCcchHHHHHHHH---HHHHcCC--CCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhh
Q 016622          314 PQKLAFIDVAKGV---RMFSKLK--VPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSY  384 (386)
Q Consensus       314 ~~~~s~~~~~~~~---~~l~~~~--~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~  384 (386)
                      ++..++.++.++.   +++++.+  .+++|+|+||+..           ....+++++.+++|+++.||+|+.+++
T Consensus       157 ~e~~sl~~a~~l~k~v~~~~~~~~~v~i~GVV~N~~~~-----------~~~~~~~~~~~~i~vLg~IP~d~~i~~  221 (296)
T TIGR02016       157 NDRQSLYVANNICNAVEYFRKLGGRVGLLGLVVNRDDG-----------SGEAQAFAREVGIPVLAAIPADEELRR  221 (296)
T ss_pred             chHHHHHHHHHHHHHHHHHHHcCCCCcceEEEEeCCCC-----------ccHHHHHHHHcCCCeEEECCCCHHHHH
Confidence            9999887665554   4666653  6789999999753           135688899999999999999999986

This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.

>PRK10037 cell division protein; Provisional

Probab=99.91  E-value=9e-24  Score=196.27  Aligned_cols=193  Identities=15%  Similarity=0.179  Sum_probs=122.4

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc--------ccccCCCCCceeeeccCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR--------LLEMNPEKRTIIPTEYLG  244 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~--------~~~~~~~~~~i~~~~~~~  244 (386)
                      |++|+|.|.|||+||||+|+|||.+||++|+||++||+|+|+ ++...||....        +.......+.+.+. .+|
T Consensus         1 ~~~iav~n~KGGvGKTT~a~nLA~~La~~G~rVLlID~D~q~-~~s~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~   78 (250)
T PRK10037          1 MAILGLQGVRGGVGTTSITAALAWSLQMLGENVLVIDACPDN-LLRLSFNVDFTHRQGWARALLDGQDWRDAGLRY-TSQ   78 (250)
T ss_pred             CcEEEEecCCCCccHHHHHHHHHHHHHhcCCcEEEEeCChhh-hHHHHhCCCccccchHHHHHhcCCCchhhhccc-cCC
Confidence            469999999999999999999999999999999999999986 55555554321        11111122222332 469


Q ss_pred             ceEEecCCCCCcc-cccCC-chHHHHHHHHHHhcCC-CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHH
Q 016622          245 VKLVSFGFSGQGR-AIMRG-PMVSGVINQLLTTTEW-GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFID  321 (386)
Q Consensus       245 l~vl~~~~~~~~~-~~~~~-~~~~~~l~~ll~~~~~-~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~  321 (386)
                      ++++|.+...... ..... ......+...++.+.. .+||||||||||+.+....  ..+.++|.+++|++|+..+.  
T Consensus        79 l~iip~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~yD~iiIDtpp~~~~~~~--~al~aaD~vlvpv~~~~~~~--  154 (250)
T PRK10037         79 LDLLPFGQLSIEEQENPQHWQTRLGDICSALQQLKASGRYQWILLDLPRGASPLTR--QLLSLCDHSLAIVNVDANCH--  154 (250)
T ss_pred             eEEEcCCCCCHHHHHHHHHHHHhHHHHHHHHHHhcccCCCCEEEEECCCCccHHHH--HHHHhCCEEEEEcCcCHHHH--
Confidence            9999976221110 00000 0011234555555531 5799999999999875433  44677899999999986642  


Q ss_pred             HHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHh---CCCeEE-ecCCChhhhhc
Q 016622          322 VAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQF---GIPHLF-DLPIRPTVSYM  385 (386)
Q Consensus       322 ~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~---g~pvl~-~IP~d~~i~~a  385 (386)
                          ++..++.......+++|+++...          ...+++.+.+   +.+++. .||.+..+.++
T Consensus       155 ----i~~~~~~~~~~~~i~~n~~~~~~----------~~~~~~~~~~~~~~~~~l~~~I~~~~~~~~a  208 (250)
T PRK10037        155 ----IRLHQQALPAGAHILINDLRIGS----------QLQDDLYQLWLQSQRRLLPMLIHRDEAMAEC  208 (250)
T ss_pred             ----HhhhccccCCCeEEEEecCCccc----------HHHHHHHHHHHHhcccccCccccCchhHHHH
Confidence                33333322223567889876322          1233444433   556664 68999888876

>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

Probab=99.91  E-value=4.9e-23  Score=185.82  Aligned_cols=198  Identities=26%  Similarity=0.361  Sum_probs=137.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccc---------cCCC----------
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLE---------MNPE----------  233 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~---------~~~~----------  233 (386)
                      |+.|+|+|||||+||||+|+|||..|+.. +|++|+|+|...|+++.+|+.+.....         .+..          
T Consensus         1 mm~vAV~sGKGGtGKTTva~~la~~l~~~-~~~~l~DcDVe~PNl~l~l~~e~~~~~e~~~~~~p~i~~e~C~~CG~C~~   79 (284)
T COG1149           1 MMQVAVASGKGGTGKTTVAANLAVLLGDK-YKLVLADCDVEAPNLHLLLGVEVLEEEEVIRGEIPEIDPEKCIRCGKCAE   79 (284)
T ss_pred             CcEEEEeecCCCCChhhHHHHHHHHhccc-cceEEEecCCCCCCcceEeccchhhhhHHHHhhccccChhhccccCcHHH
Confidence            35899999999999999999999999865 899999999999999999987643100         0000          


Q ss_pred             ---CCcee----------eeccCC--ceEE--e----------cC-----CCCCc-c-----cccCCchHHHHHHHHHHh
Q 016622          234 ---KRTII----------PTEYLG--VKLV--S----------FG-----FSGQG-R-----AIMRGPMVSGVINQLLTT  275 (386)
Q Consensus       234 ---~~~i~----------~~~~~~--l~vl--~----------~~-----~~~~~-~-----~~~~~~~~~~~l~~ll~~  275 (386)
                         -..+.          +..-+|  .-.+  |          .|     ....+ .     .....+.....+..+.+.
T Consensus        80 vC~f~Ai~~~~~~~~~~~~~lC~GCgaC~~~CP~~AI~~~~~~~G~i~~~k~~~g~~li~g~l~vGe~~s~~lV~~~kk~  159 (284)
T COG1149          80 VCRFGAIVVLPGGKPVLNPDLCEGCGACSIVCPEPAIEEEPVVIGKIYESKTDYGFPLISGRLNVGEEESGKLVTALKKH  159 (284)
T ss_pred             hCCCCeEEEcCCCceecCcccccCcccceeeCCCcccccccceeeEEEEEEcCCCceeEEeeccCCccccchHHHHHHHh
Confidence               01110          000000  0000  0          00     00000 0     001112223455555555


Q ss_pred             cCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecc
Q 016622          276 TEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       276 ~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .. +..|++|||+|||++-....  .+..+|.+++|+.|+..++.+++++++.++.++++ .++|+||.+..        
T Consensus       160 a~-E~~~~~IIDsaaG~gCpVi~--sl~~aD~ai~VTEPTp~glhD~kr~~el~~~f~ip-~~iViNr~~~g--------  227 (284)
T COG1149         160 AK-ELADLLIIDSAAGTGCPVIA--SLKGADLAILVTEPTPFGLHDLKRALELVEHFGIP-TGIVINRYNLG--------  227 (284)
T ss_pred             hh-hhcceeEEecCCCCCChHHH--hhccCCEEEEEecCCccchhHHHHHHHHHHHhCCc-eEEEEecCCCC--------
Confidence            43 34699999999999865543  37788999999999999999999999999999999 56899997321        


Q ss_pred             cCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          356 FGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                        ....+++++..|+|+++.||||..+.++
T Consensus       228 --~s~ie~~~~e~gi~il~~IPyd~~i~~~  255 (284)
T COG1149         228 --DSEIEEYCEEEGIPILGEIPYDKDIPEA  255 (284)
T ss_pred             --chHHHHHHHHcCCCeeEECCcchhHHHH
Confidence              1258899999999999999999998765

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=99.91  E-value=3.5e-23  Score=182.98  Aligned_cols=193  Identities=21%  Similarity=0.257  Sum_probs=145.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCC-CcEEEEEcCCCCCCCCccCCCcccccc-------------c-CC-------
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMG-ARVGIFDADVYGPSLPTMVSPENRLLE-------------M-NP-------  232 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G-~rVllID~D~~~~sl~~~lg~~~~~~~-------------~-~~-------  232 (386)
                      +|+|+ ||||+||||+|+.|+..|..+| ++|++||+|+ ..+++..+|.+.....             . ..       
T Consensus         2 kIaI~-GKGG~GKTtiaalll~~l~~~~~~~VLvVDaDp-d~nL~~~LGve~~~~~lg~~~e~~~k~~~a~~~~~~~~~f   79 (255)
T COG3640           2 KIAIT-GKGGVGKTTIAALLLKRLLSKGGYNVLVVDADP-DSNLPEALGVEEPMKYLGGKRELLKKRTGAEPGGPPGEMF   79 (255)
T ss_pred             eEEEe-cCCCccHHHHHHHHHHHHHhcCCceEEEEeCCC-CCChHHhcCCCCCCcccccHHHHHHHHhccCCCCCccccc
Confidence            68887 9999999999999888877665 9999999999 7799999988763100             0 00       


Q ss_pred             ----CCCcee---eeccCCceEEecCCCC---CcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhh
Q 016622          233 ----EKRTII---PTEYLGVKLVSFGFSG---QGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQV  302 (386)
Q Consensus       233 ----~~~~i~---~~~~~~l~vl~~~~~~---~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~  302 (386)
                          ....+.   ....++++++..|...   .++.+.-    ..+++++++.+...+||+||+||-.|+.....  -..
T Consensus        80 k~~~~~~di~~e~~~e~~~~~LLvmGkie~~GeGC~Cp~----~allR~~l~~l~~~~~e~VivDtEAGiEHfgR--g~~  153 (255)
T COG3640          80 KENPLVSDLPDEYLVENGDIDLLVMGKIEEGGEGCACPM----NALLRRLLRHLILNRYEVVIVDTEAGIEHFGR--GTI  153 (255)
T ss_pred             ccCcchhhhhHHHhhhcCCccEEEeccccCCCCcccchH----HHHHHHHHHHHhcccCcEEEEecccchhhhcc--ccc
Confidence                000010   1223568888888653   3444433    34566666666557799999999998864333  335


Q ss_pred             cCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhh
Q 016622          303 VPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTV  382 (386)
Q Consensus       303 ~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i  382 (386)
                      -.+|.+++|++|+..++..++++.++.++.+++.+++|+||++...          ..........+.++++.||+|+.+
T Consensus       154 ~~vD~vivVvDpS~~sl~taeri~~L~~elg~k~i~~V~NKv~e~e----------~~~~~~~~~~~~~vlg~iP~d~~v  223 (255)
T COG3640         154 EGVDLVIVVVDPSYKSLRTAERIKELAEELGIKRIFVVLNKVDEEE----------ELLRELAEELGLEVLGVIPYDPEV  223 (255)
T ss_pred             cCCCEEEEEeCCcHHHHHHHHHHHHHHHHhCCceEEEEEeeccchh----------HHHHhhhhccCCeEEEEccCCHHH
Confidence            5679999999999999999999999999999999999999988541          346677888899999999999998


Q ss_pred             hhc
Q 016622          383 SYM  385 (386)
Q Consensus       383 ~~a  385 (386)
                      .++
T Consensus       224 ~~~  226 (255)
T COG3640         224 VEA  226 (255)
T ss_pred             Hhc
Confidence            764

>COG1192 Soj ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=99.90  E-value=2e-23  Score=195.03  Aligned_cols=203  Identities=25%  Similarity=0.324  Sum_probs=136.1

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCCCCCCCccCCCccc----c---cccCCCC---Cceeee
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVYGPSLPTMVSPENR----L---LEMNPEK---RTIIPT  240 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~~~~sl~~~lg~~~~----~---~~~~~~~---~~i~~~  240 (386)
                      ++++|+|+|.|||+||||+|.|||.+|| ..|+||++||+|+|+ ++...+|....    .   .......   ..... 
T Consensus         1 ~~~iI~v~n~KGGvGKTT~a~nLa~~La~~~~~kVLliDlDpQ~-s~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-   78 (259)
T COG1192           1 MMKIIAVANQKGGVGKTTTAVNLAAALAKRGGKKVLLIDLDPQG-SLTSWLGLRPDLEGDLYNLLSGLKERPDILDYTV-   78 (259)
T ss_pred             CCEEEEEEecCCCccHHHHHHHHHHHHHHhcCCcEEEEeCCCcc-hhhHhcCCCcccchhHHHHHhcccccccchhccc-
Confidence            4689999999999999999999999999 667999999999995 66666666443    1   1110011   11112 


Q ss_pred             ccCCceEEecCCCCCc-ccc-cCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcch
Q 016622          241 EYLGVKLVSFGFSGQG-RAI-MRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLA  318 (386)
Q Consensus       241 ~~~~l~vl~~~~~~~~-~~~-~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s  318 (386)
                      ..++++++|....... ... .........++++++.+. ++||||||||||+.+.  +....+.++|.+++++.++..+
T Consensus        79 ~~~~ld~ips~~~l~~~~~~~~~~~~~~~~l~~~~~~~~-~~yD~iiID~pp~l~~--l~~nal~asd~vlIP~~~~~~~  155 (259)
T COG1192          79 VIEGLDLIPSNIDLAEGAEIELNAVAKELLLKRLLDPVK-DDYDYIIIDTPPSLGV--LTLNALAAADHVLIPVQPEFLD  155 (259)
T ss_pred             CCCCceEecCChHHHhHHHHHHhhhhHHHHHHHHhhhhc-cCCCEEEECCCCchhH--HHHHHHHHcCeeEEecCchHHH
Confidence            4578999987644321 110 101122344555554333 7999999999999864  4445577889999999999999


Q ss_pred             HHHHHHHHHHHHcCC------CCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCe-EEecCCChhhhhc
Q 016622          319 FIDVAKGVRMFSKLK------VPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPH-LFDLPIRPTVSYM  385 (386)
Q Consensus       319 ~~~~~~~~~~l~~~~------~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pv-l~~IP~d~~i~~a  385 (386)
                      +..+..+++.+.+..      ..+.+++.|+++.....      .....+.+.+.++.++ ...||.+..++++
T Consensus       156 ~~~~~~~~~~i~~~~~~~~~~~~~~~i~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~i~~~~~~~~a  223 (259)
T COG1192         156 LEGLEQLLNTLEDLLKLRRNKLIVVGILITRFDSRTKL------ADEVLQELKQLLGDPVLKTKIPRRVAYREA  223 (259)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCcceEEEeeceEcCCcch------HHHHHHHHHHHhccccccccCcccccHHhH
Confidence            998888777665431      26788999998765421      1234556666665443 3467777666654

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=99.89  E-value=5.1e-23  Score=219.32  Aligned_cols=175  Identities=15%  Similarity=0.141  Sum_probs=132.9

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccc------cccCCCCCceeeeccCC
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL------LEMNPEKRTIIPTEYLG  244 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~------~~~~~~~~~i~~~~~~~  244 (386)
                      ...++|+|+|.|||+||||+|+|||..||+.|+||++||+|+++++++.+||.....      .........+.....+|
T Consensus       544 ~~~kvi~vts~~~G~GKTt~a~nLA~~lA~~g~rvLlID~D~~~~~l~~~~~~~~~~gl~~~l~~~~~~~~~i~~~~~~~  623 (754)
T TIGR01005       544 AEPEVVETQRPRPVLGKSDIEANAAALIASGGKRALLIDADGRKAALSQILVAREVSGLLDLLAGLRSLLLDLTASGAAS  623 (754)
T ss_pred             CCceEEEeecCCCCCChhHHHHHHHHHHHhCCCeEEEEeCCCCchhHHHHhCCcccCChHHHHcCCccHHHHhccCCCCC
Confidence            356899999999999999999999999999999999999999999998888765331      11112223344455689


Q ss_pred             ceEEecCCCCC-cccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHH
Q 016622          245 VKLVSFGFSGQ-GRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVA  323 (386)
Q Consensus       245 l~vl~~~~~~~-~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~  323 (386)
                      ++++|++.... ....+..+.    +.++++.++ +.||||||||||..+....... ...+|.+++|+.++..+...+.
T Consensus       624 l~~l~~g~~~~~~~~ll~~~~----~~~~l~~l~-~~yD~IiID~pp~~~~~d~~~l-~~~~D~vl~v~~~~~~~~~~~~  697 (754)
T TIGR01005       624 LPMLDSGLFPHGITELLASPA----MFSLVIHAR-LYSDCVVVDVGTADPVRDMRAA-ARLAIIMLLVTAYDRVVVECGR  697 (754)
T ss_pred             eeEecCCCCCCCHHHHhccHH----HHHHHHHHH-hhCCEEEEcCCCcchhHHHHHh-hhhCCeEEEEEEeCceeHHHHH
Confidence            99999885432 223334443    344444444 7999999999998863332221 2246999999999999999999


Q ss_pred             HHHHHHHcCCCCeEEEEEcCCcCCCCCc
Q 016622          324 KGVRMFSKLKVPCIAVVENMCHFDADGK  351 (386)
Q Consensus       324 ~~~~~l~~~~~~i~gvVlN~~~~~~~~~  351 (386)
                      +.++.+++.+.++.|+|+|+++....+.
T Consensus       698 ~~~~~l~~~~~~~~GvvlN~~~~~~~~~  725 (754)
T TIGR01005       698 ADAQGISRLNGEVTGVFLNMLDPNDEVK  725 (754)
T ss_pred             HHHHHHHhcCCceEEEEecCCChhhhcc
Confidence            9999999999999999999998765433

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon

Probab=99.89  E-value=1.3e-22  Score=184.34  Aligned_cols=195  Identities=20%  Similarity=0.220  Sum_probs=133.7

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccc--------cccCCCCCceeeeccCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL--------LEMNPEKRTIIPTEYLG  244 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~--------~~~~~~~~~i~~~~~~~  244 (386)
                      |++|+|.|.|||+||||+|+|||..|++.|++|++||+|+++ .+...||.....        .......+. .....+|
T Consensus         1 M~~iai~s~kGGvG~TTltAnLA~aL~~~G~~VlaID~dpqN-~Lrlhfg~~~~~~~G~a~a~l~~~~W~~~-~~~~~~g   78 (243)
T PF06564_consen    1 MKVIAIVSPKGGVGKTTLTANLAWALARLGESVLAIDLDPQN-LLRLHFGLPLDDRDGWARALLDGADWQQA-AYRYSDG   78 (243)
T ss_pred             CcEEEEecCCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCcHH-HHHHhcCCCCcccccHHHHHhCCCCHHHH-hhccCCC
Confidence            579999999999999999999999999999999999999976 777778766431        111111112 2334579


Q ss_pred             ceEEecCCCCCcccc----cCCchHHHHHHHHHHhcC-CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchH
Q 016622          245 VKLVSFGFSGQGRAI----MRGPMVSGVINQLLTTTE-WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAF  319 (386)
Q Consensus       245 l~vl~~~~~~~~~~~----~~~~~~~~~l~~ll~~~~-~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~  319 (386)
                      ++++|.|........    +.. . ...+.+.+..+. ...||+||||+|++.+......  +..+|.+++|+.|+..+.
T Consensus        79 ~~~LPfG~l~~~~~~~~~~l~~-~-~~~l~~~l~~l~~~~~~~~iliD~P~g~~~~~~~a--l~~aD~vL~V~~~Da~s~  154 (243)
T PF06564_consen   79 VDFLPFGQLTEAEREAFEQLAQ-D-PQWLARALAALKALGPYDWILIDTPPGPSPYTRQA--LAAADLVLVVVNPDAASH  154 (243)
T ss_pred             CEEEcCCCCCHHHHHHHHHhhc-C-HHHHHHHHHHHhccCCCCEEEEeCCCCCcHHHHHH--HHhCCeEEEEeCCCHHHH
Confidence            999999865432211    111 1 123333333443 4789999999999887554443  556799999999999887


Q ss_pred             HHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          320 IDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       320 ~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      ..+.+.  .+.   . -..+|+|+++....      .+++...-+.+.++--+.+.|+.|+.+.||
T Consensus       155 ~~L~q~--~l~---~-~~~~liNq~~~~s~------l~~D~~~~~~~~l~~llp~~IHrDeAv~EA  208 (243)
T PF06564_consen  155 ARLHQR--ALP---A-GHRFLINQYDPASQ------LQRDLLQVWRQSLGRLLPGVIHRDEAVAEA  208 (243)
T ss_pred             HHHHHh--ccc---C-CcEEEEeccCccch------HHHHHHHHHHHhhccccceeeecchHHHHH
Confidence            655431  111   1 24789999887652      223334445556665566789999999887

It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>PHA02518 ParA-like protein; Provisional

Probab=99.89  E-value=2e-22  Score=182.08  Aligned_cols=171  Identities=24%  Similarity=0.294  Sum_probs=115.1

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFS  253 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~  253 (386)
                      ++|+|+|.|||+||||+|+|||.+|+++|+||++||+|+|++...+ ++...       .          +..+++... 
T Consensus         1 ~ii~v~~~KGGvGKTT~a~~la~~la~~g~~vlliD~D~q~~~~~~-~~~~~-------~----------~~~~i~~~~-   61 (211)
T PHA02518          1 KIIAVLNQKGGAGKTTVATNLASWLHADGHKVLLVDLDPQGSSTDW-AEARE-------E----------GEPLIPVVR-   61 (211)
T ss_pred             CEEEEEcCCCCCCHHHHHHHHHHHHHhCCCeEEEEeCCCCCChHHH-HHhcc-------c----------CCCCCchhh-
Confidence            4899999999999999999999999999999999999999855432 21110       0          001111110 


Q ss_pred             CCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcC-
Q 016622          254 GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKL-  332 (386)
Q Consensus       254 ~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~-  332 (386)
                             .+.    .+.+.+..+. ..||||||||||+.+....  ..+..+|.+++|+.|+..++..+.++.+.++.. 
T Consensus        62 -------~~~----~~~~~l~~~~-~~~d~viiD~p~~~~~~~~--~~l~~aD~viip~~ps~~~~~~~~~~~~~~~~~~  127 (211)
T PHA02518         62 -------MGK----SIRADLPKVA-SGYDYVVVDGAPQDSELAR--AALRIADMVLIPVQPSPFDIWAAPDLVELIKARQ  127 (211)
T ss_pred             -------ccH----HHHHHHHHHh-ccCCEEEEeCCCCccHHHH--HHHHHCCEEEEEeCCChhhHHHHHHHHHHHHHHH
Confidence                   011    2233333333 7899999999998775544  336678999999999999999888888777543 


Q ss_pred             ----CCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecC-CChhhhh
Q 016622          333 ----KVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLP-IRPTVSY  384 (386)
Q Consensus       333 ----~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP-~d~~i~~  384 (386)
                          +.+..++|.|++.......       ....+..+.++.+++..++ .+..+.+
T Consensus       128 ~~~~~~~~~~iv~n~~~~~~~~~-------~~~~~~l~~~~~~~~~~~i~~~~~~~~  177 (211)
T PHA02518        128 EVTDGLPKFAFIISRAIKNTQLY-------REARKALAGYGLPILRNGTTQRVAYAD  177 (211)
T ss_pred             hhCCCCceEEEEEeccCCcchHH-------HHHHHHHHHcCchhhhchhhhHHHHHH
Confidence                4667889999875432110       1234444556777776544 4455544

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=99.88  E-value=4.8e-22  Score=210.01  Aligned_cols=170  Identities=17%  Similarity=0.167  Sum_probs=130.8

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc------ccccCCCCCceeeeccCCc
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR------LLEMNPEKRTIIPTEYLGV  245 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~------~~~~~~~~~~i~~~~~~~l  245 (386)
                      ..|+|+|+|.++|+||||+|.|||.+||..|+||++||+|+++|.++.+|+....      +.......+.+.....+|+
T Consensus       530 ~~kvI~vtS~~~g~GKTtva~nLA~~la~~G~rVLlID~D~r~~~l~~~~~~~~~~gl~~~l~~~~~~~~~i~~~~~~~l  609 (726)
T PRK09841        530 ENNILMITGATPDSGKTFVSSTLAAVIAQSDQKVLFIDADLRRGYSHNLFTVSNEHGLSEYLAGKDELNKVIQHFGKGGF  609 (726)
T ss_pred             CCeEEEEecCCCCCCHHHHHHHHHHHHHhCCCeEEEEeCCCCCCcHHHHcCCCCCCCHHHHhCCCCCHHHheeccCCCCE
Confidence            4579999999999999999999999999999999999999999998888776533      1111122334445556799


Q ss_pred             eEEecCCCCC-cccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHHHHH
Q 016622          246 KLVSFGFSGQ-GRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDVA  323 (386)
Q Consensus       246 ~vl~~~~~~~-~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~~~~  323 (386)
                      +++|.|.... ....+...    .+.++++.++ .+||||||||||..... ...++  ..+|.+++|+.++.+...++.
T Consensus       610 ~vl~~g~~~~~p~ell~~~----~~~~ll~~l~-~~yD~IIIDtPP~~~~~Da~~la--~~ad~~llVvr~~~t~~~~~~  682 (726)
T PRK09841        610 DVITRGQVPPNPSELLMRD----RMRQLLEWAN-DHYDLVIVDTPPMLAVSDAAVVG--RSVGTSLLVARFGLNTAKEVS  682 (726)
T ss_pred             EEEeCCCCCCCHHHHhCcH----HHHHHHHHHH-hcCCEEEEeCCCccccchHHHHH--HhCCeEEEEEeCCCCCHHHHH
Confidence            9999886433 22333333    4555555555 79999999999977531 12222  245999999999999999999


Q ss_pred             HHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          324 KGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       324 ~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      +.++.+++.+.++.|+|+|+++...
T Consensus       683 ~~~~~l~~~~~~~~G~VlN~~~~~~  707 (726)
T PRK09841        683 LSMQRLEQAGVNIKGAILNGVIKRA  707 (726)
T ss_pred             HHHHHHHhCCCceEEEEEeCcccCc
Confidence            9999999999999999999997544

>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases

Probab=99.88  E-value=3e-23  Score=184.91  Aligned_cols=190  Identities=25%  Similarity=0.323  Sum_probs=123.4

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQ  255 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~~  255 (386)
                      |+|+|+|||+||||+|++||.+|+++|+||+++|+|++++....+++........   .......        +......
T Consensus         1 I~v~~~kGG~GKTt~a~~la~~la~~g~~VlliD~D~~~~~~~~~~~~~~~~~~~---~~~~~~~--------~~~~~~~   69 (195)
T PF01656_consen    1 IAVTSGKGGVGKTTIAANLAQALARKGKKVLLIDLDPQAPNLSILFGVYDILREG---LENANAI--------LKNFESQ   69 (195)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEESTTSHHHHHHTTCHHHHTTS---SHGHHCH--------HESCCHH
T ss_pred             CEEEcCCCCccHHHHHHHHHhccccccccccccccCcccccHHHHhcchhhcccc---ceehhhh--------hhccchh
Confidence            7899999999999999999999999999999999999998877766541100000   0000000        0000000


Q ss_pred             cccc-cCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCC-
Q 016622          256 GRAI-MRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLK-  333 (386)
Q Consensus       256 ~~~~-~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~-  333 (386)
                      .... -.+ .....++++++.+....||||||||||+.+.....  .+..+|.+++|+.++..++..+.++++.+++.+ 
T Consensus        70 ~~~~~~~~-~~~~~l~~~l~~l~~~~yD~iiiD~~~~~~~~~~~--~l~~ad~viv~~~~~~~~i~~~~~~~~~l~~~~~  146 (195)
T PF01656_consen   70 DIYQGEEY-LDPELLREILESLIKSDYDYIIIDTPPGLSDPVRN--ALAAADYVIVPIEPDPSSIEGAERLIELLKRLGK  146 (195)
T ss_dssp             HHHHHCHC-HHHHHHHHHHHHHHHTTSSEEEEEECSSSSHHHHH--HHHTSSEEEEEEESSHHHHHHHHHHHHHHHHHTH
T ss_pred             hhhhhhhh-hHHHHHHHHHHHhhhccccceeecccccccHHHHH--HHHhCceeeeecCCcHHHHHHHHHHHHHHHHhcc
Confidence            0000 001 23345666665543245999999999999866443  366789999999999999999999999999887 


Q ss_pred             -CCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCC-eE-EecCCChhhhh
Q 016622          334 -VPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIP-HL-FDLPIRPTVSY  384 (386)
Q Consensus       334 -~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~p-vl-~~IP~d~~i~~  384 (386)
                       .++.++|+||++........     ...+.....++.+ ++ +.||++.++.+
T Consensus       147 ~~~~~~vv~N~v~~~~~~~~~-----~~~~~~~~~~~~~~vl~~~Ip~~~~v~~  195 (195)
T PF01656_consen  147 KLKIIGVVINRVDPGNESKLQ-----EEIEEIERELYVPVVLPGVIPYSEAVSE  195 (195)
T ss_dssp             TEEEEEEEEEEETSCCHHHHH-----HHHHHHHHHCECCCBESEEEE--HHHHH
T ss_pred             ccceEEEEEeeeCCCccchHH-----HHHHHHHHHhCCCcCcCCcCCCCCCCCC
Confidence             55899999999754311100     1123333444433 33 78999998865

These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....

>PRK11519 tyrosine kinase; Provisional

Probab=99.88  E-value=6.4e-22  Score=208.90  Aligned_cols=169  Identities=19%  Similarity=0.255  Sum_probs=132.3

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc------ccccCCCCCceeeeccCCc
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR------LLEMNPEKRTIIPTEYLGV  245 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~------~~~~~~~~~~i~~~~~~~l  245 (386)
                      ..++|+|+|.+||+||||++.|||..||..|+||++||+|+++|+++.++|....      +.......+.+.....+|+
T Consensus       525 ~~kvi~vts~~~geGKTt~a~nLA~~la~~g~rvLlID~Dlr~~~~~~~~~~~~~~gl~~~l~~~~~l~~~i~~~~~~~l  604 (719)
T PRK11519        525 QNNVLMMTGVSPSIGKTFVCANLAAVISQTNKRVLLIDCDMRKGYTHELLGTNNVNGLSDILIGQGDITTAAKPTSIANF  604 (719)
T ss_pred             CceEEEEECCCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCCCCCcHHHHhCCCCCCCHHHHhCCCCCHHHhecccCcCCE
Confidence            4579999999999999999999999999999999999999999999988876543      1111222344555566899


Q ss_pred             eEEecCCCCCcc-cccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC--hHHHhhhhhcCCCeEEEEeCCCcchHHHH
Q 016622          246 KLVSFGFSGQGR-AIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG--DIQLTLCQVVPLTAAVIVTTPQKLAFIDV  322 (386)
Q Consensus       246 ~vl~~~~~~~~~-~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~--~~~~~~~~~~~~d~vviV~~~~~~s~~~~  322 (386)
                      +++|.|...... ..+.    ...+.++++.++ .+||||||||||...  |.. .+  ...+|.+++|+.++.+....+
T Consensus       605 ~~lp~g~~~~~~~ell~----s~~~~~ll~~l~-~~yD~ViiDtpP~~~v~Da~-~l--~~~~d~~l~Vvr~~~t~~~~~  676 (719)
T PRK11519        605 DLIPRGQVPPNPSELLM----SERFAELVNWAS-KNYDLVLIDTPPILAVTDAA-IV--GRHVGTTLMVARYAVNTLKEV  676 (719)
T ss_pred             EEEeCCCCCCCHHHHhh----HHHHHHHHHHHH-hcCCEEEEeCCCcccchHHH-HH--HHHCCeEEEEEeCCCCCHHHH
Confidence            999988643322 3333    345666666665 799999999999664  332 22  223599999999999999999


Q ss_pred             HHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          323 AKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       323 ~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ...++.+++.+.+++|+|+|+++...
T Consensus       677 ~~~~~~l~~~~~~~~G~VlN~v~~~~  702 (719)
T PRK11519        677 ETSLSRFEQNGIPVKGVILNSIFRRA  702 (719)
T ss_pred             HHHHHHHHhCCCCeEEEEEeCCccCc
Confidence            99999999999999999999996544

>PRK13849 putative crown gall tumor protein VirC1; Provisional

Probab=99.86  E-value=2.8e-21  Score=176.75  Aligned_cols=178  Identities=20%  Similarity=0.254  Sum_probs=113.4

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF  252 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~  252 (386)
                      |++|+|.|.|||+||||++.|||.+|+++|++|++||+|+|++... +++....        ...    .+......   
T Consensus         1 M~iI~v~n~KGGvGKTT~a~nLA~~la~~G~~VlliD~DpQ~s~~~-w~~~~~~--------~~~----~~~~~~~~---   64 (231)
T PRK13849          1 MKLLTFCSFKGGAGKTTALMGLCAALASDGKRVALFEADENRPLTR-WKENALR--------SNT----WDPACEVY---   64 (231)
T ss_pred             CeEEEEECCCCCccHHHHHHHHHHHHHhCCCcEEEEeCCCCCCHHH-HHHhhcc--------ccC----CCccceec---
Confidence            4799999999999999999999999999999999999999885432 2221100        000    00000000   


Q ss_pred             CCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHc-
Q 016622          253 SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSK-  331 (386)
Q Consensus       253 ~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~-  331 (386)
                              .. .....++..++...++.||||||||||+.+.....  .+..+|.+++++.|+..++..+.+.++.+.+ 
T Consensus        65 --------~~-~~~~~l~~~l~~~~~~~yD~iiID~pp~~~~~~~~--al~~aD~vliP~~ps~~d~~~~~~~~~~v~~~  133 (231)
T PRK13849         65 --------AA-DELPLLEAAYEDAELQGFDYALADTHGGSSELNNT--IIASSNLLLIPTMLTPLDIDEALSTYRYVIEL  133 (231)
T ss_pred             --------CC-CHHHHHHHHHHHHhhCCCCEEEEeCCCCccHHHHH--HHHHCCEEEEeccCcHHHHHHHHHHHHHHHHH
Confidence                    00 01123444444443368999999999988855443  3667799999999999999888888766543 


Q ss_pred             -----CCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE-ecCCChhhhhc
Q 016622          332 -----LKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF-DLPIRPTVSYM  385 (386)
Q Consensus       332 -----~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~-~IP~d~~i~~a  385 (386)
                           .+++ ..+|+||++......     ......++.+  +++++- .|+....+.++
T Consensus       134 ~~~~~~~l~-~~iv~~~~~~~~~~~-----~~~~~~~~~~--~~~vl~t~I~~r~~~~~a  185 (231)
T PRK13849        134 LLSENLAIP-TAILRQRVPVGRLTT-----SQRAMSDMLE--SLPVVDSPMHERDAFAAM  185 (231)
T ss_pred             HHHhCCCCC-eEEEEEecccccCCH-----HHHHHHHHHh--cCCCCCccccchHHHHHH
Confidence                 2444 459999986432110     0011233333  455553 46766665543

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=99.85  E-value=9.8e-21  Score=160.06  Aligned_cols=135  Identities=33%  Similarity=0.489  Sum_probs=106.7

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSG  254 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~  254 (386)
                      +|+|+|+|||+||||++.++|..++.+|++|+++|+|++++++.                                    
T Consensus         1 ~i~~~~~kgg~gkt~~~~~~a~~~~~~~~~~~~vd~D~~~~~~~------------------------------------   44 (139)
T cd02038           1 IIAVTSGKGGVGKTNISANLALALAKLGKRVLLLDADLGLANLD------------------------------------   44 (139)
T ss_pred             CEEEEcCCCCCcHHHHHHHHHHHHHHCCCcEEEEECCCCCCCCC------------------------------------
Confidence            58999999999999999999999999999999999999775541                                    


Q ss_pred             CcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcC-C
Q 016622          255 QGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKL-K  333 (386)
Q Consensus       255 ~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~-~  333 (386)
                                                |||||||+||+.++....+  +..+|.+++|+.++..+++++.+.++.+.+. +
T Consensus        45 --------------------------yd~VIiD~p~~~~~~~~~~--l~~aD~vviv~~~~~~s~~~~~~~l~~l~~~~~   96 (139)
T cd02038          45 --------------------------YDYIIIDTGAGISDNVLDF--FLAADEVIVVTTPEPTSITDAYALIKKLAKQLR   96 (139)
T ss_pred             --------------------------CCEEEEECCCCCCHHHHHH--HHhCCeEEEEcCCChhHHHHHHHHHHHHHHhcC
Confidence                                      8999999999988665544  5567999999999999999999999888553 4


Q ss_pred             CCeEEEEEcCCcCCCCCceecccCCChHHHHHHH---hCCCeEEecC
Q 016622          334 VPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQ---FGIPHLFDLP  377 (386)
Q Consensus       334 ~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~---~g~pvl~~IP  377 (386)
                      ...+++|+||+.........+    ..+++++++   .++|++|.||
T Consensus        97 ~~~~~lVvN~~~~~~~~~~~~----~~~~~~~~r~~~~~l~~~~~~~  139 (139)
T cd02038          97 VLNFRVVVNRAESPKEGKKVF----KRLSNVSNRFLGLSLDYLGFIP  139 (139)
T ss_pred             CCCEEEEEeCCCCHHHHHHHH----HHHHHHHHHHhCCChhhceecC
Confidence            556889999987544322111    123444333   3678888887

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.

>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA)

Probab=99.84  E-value=3.6e-21  Score=178.92  Aligned_cols=204  Identities=18%  Similarity=0.180  Sum_probs=123.6

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc--ccccCCCCC----------ceeeeccC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR--LLEMNPEKR----------TIIPTEYL  243 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~--~~~~~~~~~----------~i~~~~~~  243 (386)
                      |.|+++|||+||||+|+++|..+|++|+||++||+|++ ++++..|+.+-.  ........+          .+......
T Consensus         2 ~~~~~gkgG~GKtt~a~~la~~~a~~g~~vLlvd~D~~-~sl~~~~~~~~~~~~~~~~g~~~L~~~~id~~~~~~~~~~~   80 (254)
T cd00550           2 YIFFGGKGGVGKTTISAATAVRLAEQGKKVLLVSTDPA-HSLSDSFNQEFGKGPTPVKGVENLSAMEIDPQEALEEYRQE   80 (254)
T ss_pred             EEEEECCCCchHHHHHHHHHHHHHHCCCCceEEeCCCc-ccHHHHhCCccCCCCcccccCCCceEEecCHHHHHHHHHHH
Confidence            45566999999999999999999999999999999997 588888876521  000000000          00000000


Q ss_pred             CceEEecCCCCC-----cccc--cCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH-HHhhh--------hhc--CC
Q 016622          244 GVKLVSFGFSGQ-----GRAI--MRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI-QLTLC--------QVV--PL  305 (386)
Q Consensus       244 ~l~vl~~~~~~~-----~~~~--~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~-~~~~~--------~~~--~~  305 (386)
                      .++.+..+....     ....  ..+....-.+..+.+.+.+.+||+|||||||..... .+.+.        .+.  ..
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~Pg~~e~l~~~~~~~~l~~~~yD~VVvDtpPtg~tlrlL~lp~~l~~~~~~l~d~~~  160 (254)
T cd00550          81 VLEPIEANLLLEMLKGILEEELESPGIEEIAAFDEFSRYIDEAEYDVVVFDTAPTGHTLRLLSLPTVLSWAREILSDPER  160 (254)
T ss_pred             HHHHHHhhccchhHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCCCCEEEECCCCcHHHHHHHHhHHHHHHHHHHhcCCcc
Confidence            111111110000     0000  112222223444444444478999999999942211 11111        111  13


Q ss_pred             CeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCC-Ccee----cccCCChHHHHHHHhCCCeEEecCCCh
Q 016622          306 TAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDAD-GKRY----YPFGRGSGSQVVQQFGIPHLFDLPIRP  380 (386)
Q Consensus       306 d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~-~~~~----~~~~~~~~~~i~~~~g~pvl~~IP~d~  380 (386)
                      +.+++|++|+..++.++++.++.+++.|+++.|+|+||+..... ...+    ....+..++++.+.|+-.-+..||+.+
T Consensus       161 ~~~vlV~~p~~~~~~e~~r~~~~L~~~g~~v~gvV~N~v~~~~~~~~~~~~~~~~~q~~~l~~~~~~~~~~~i~~vp~~~  240 (254)
T cd00550         161 TSFRLVCIPEKMSLYETERAIQELAKYGIDVDAVIVNQLLPEDVTNCPFLEARREIQQKYLEEIEELFSDLPVAKLPLLP  240 (254)
T ss_pred             eEEEEEeCCChhHHHHHHHHHHHHHHCCCCCCEEEEecCcccccCCCHHHHHHHHHHHHHHHHHHHHhcCCCEEEeecCC
Confidence            57999999999999999999999999999999999999887553 1111    112234677777777544455677553

This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.

>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=99.82  E-value=1.8e-19  Score=145.00  Aligned_cols=102  Identities=28%  Similarity=0.396  Sum_probs=90.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHC-CCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFS  253 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~-G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~  253 (386)
                      +|+++|+|||+||||++.+||.++++. |++|+++|+|++.+.                                     
T Consensus         1 ~i~~~~~kgg~gkt~~~~~la~~~~~~~~~~~~l~d~d~~~~~-------------------------------------   43 (106)
T cd03111           1 VIAFIGAKGGVGATTLAANLAVALAKEAGRRVLLVDLDLQFGD-------------------------------------   43 (106)
T ss_pred             CEEEECCCCCCcHHHHHHHHHHHHHhcCCCcEEEEECCCCCCC-------------------------------------
Confidence            589999999999999999999999998 999999999998743                                     


Q ss_pred             CCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCC
Q 016622          254 GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLK  333 (386)
Q Consensus       254 ~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~  333 (386)
                                                  ||||||+||+.+......  +..+|.+++|+.++..++..+.+.++.+++.+
T Consensus        44 ----------------------------D~IIiDtpp~~~~~~~~~--l~~aD~vlvvv~~~~~s~~~~~~~~~~l~~~~   93 (106)
T cd03111          44 ----------------------------DYVVVDLGRSLDEVSLAA--LDQADRVFLVTQQDLPSIRNAKRLLELLRVLD   93 (106)
T ss_pred             ----------------------------CEEEEeCCCCcCHHHHHH--HHHcCeEEEEecCChHHHHHHHHHHHHHHHcC
Confidence                                        899999999998654443  56779999999999999999999999998876


Q ss_pred             CC---eEEEEEcC
Q 016622          334 VP---CIAVVENM  343 (386)
Q Consensus       334 ~~---i~gvVlN~  343 (386)
                      .+   .+.+|+||
T Consensus        94 ~~~~~~~~lVvNr  106 (106)
T cd03111          94 YSLPAKIELVLNR  106 (106)
T ss_pred             CCCcCceEEEecC
Confidence            54   78899996

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.

>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell

Probab=99.81  E-value=6.4e-20  Score=166.78  Aligned_cols=167  Identities=23%  Similarity=0.240  Sum_probs=108.6

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCC-------CCCccCCCcccccccCCCCCceeee-----c--
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGP-------SLPTMVSPENRLLEMNPEKRTIIPT-----E--  241 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~-------sl~~~lg~~~~~~~~~~~~~~i~~~-----~--  241 (386)
                      |.++++|||+||||++++||..++++|+||++||+|++.+       ++..+++..............+...     .  
T Consensus         1 ~~~~~g~~g~Gkt~~~~~la~~~a~~g~~~~l~~~d~~~~~~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (217)
T cd02035           1 VIFFTGKGGVGKTTIAAATAVRLAEEGKKVLLVSTDPAHNLSDKGLPNLSDAFIVEDPEIAPNLYREEVDATRRVERAWG   80 (217)
T ss_pred             CEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEECCCCcccccccCCCchhhhccCChHHHHHHHHHHHHHHHHhhhccc
Confidence            3577899999999999999999999999999999999983       4444444211100000000000000     0  


Q ss_pred             cCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHH-hhhhhcC--CCeEEEEeCCCcch
Q 016622          242 YLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL-TLCQVVP--LTAAVIVTTPQKLA  318 (386)
Q Consensus       242 ~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~-~~~~~~~--~d~vviV~~~~~~s  318 (386)
                      ..+..+++.+.      ...++...-.+.++++.+++.+||||||||||+...... ....+..  +|.+++|++|+..+
T Consensus        81 ~~~~~~~~~~~------~~p~~~ell~~~~l~~~l~~~~yD~IIiD~pp~~~~~~~l~~~~l~~~~~~~vllV~~p~~~s  154 (217)
T cd02035          81 GEGGLMLELAA------ALPGIEELASLLAVFREFSEGLYDVIVFDTAPTGHTLRLLVRELLTDPERTSFRLVTLPEKLP  154 (217)
T ss_pred             chhhhHHhHhc------cCCCHHHHHHHHHHHHHHhcCCCCEEEECCCCchHHHHHHHHHHccCCCceEEEEEeCCCccH
Confidence            01222232221      112222222366666666634499999999997432221 2222222  47899999999999


Q ss_pred             HHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          319 FIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       319 ~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ..++.+.++.+++.+.++.|+|+|++....
T Consensus       155 ~~~~~~~l~~l~~~~~~~~glVlN~~~~~~  184 (217)
T cd02035         155 LYETERAITELALYGIPVDAVVVNRVLPAE  184 (217)
T ss_pred             HHHHHHHHHHHHHCCCCCCEEEEeCCcCcc
Confidence            999999999999999999999999987653

This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=99.81  E-value=6.3e-20  Score=175.83  Aligned_cols=243  Identities=19%  Similarity=0.204  Sum_probs=172.2

Q ss_pred             CCcccHHHHHHHhccCCCCCCCCCc---cccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCccee
Q 016622           72 STGTAENDVLKALSQIIDPDFGTDI---VSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKV  148 (386)
Q Consensus        72 ~~~~~~~~i~~~L~~V~dPe~~~di---v~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v  148 (386)
                      ...++|++|.+++++|+-..+.+||   |...|+++|+...-  ..++     ..+....+++.+.+++.|..+.|.++.
T Consensus        19 ~~~i~E~~i~e~~reir~ALLeADVnl~vVk~fi~~ikera~--g~ev-----~~~l~p~q~~iKiV~eELv~llG~~~~   91 (451)
T COG0541          19 KGRITEKDVKEALREIRRALLEADVNLKVVKDFIKRIKERAL--GEEV-----PKGLTPGQQFIKIVYEELVKLLGGENS   91 (451)
T ss_pred             CCcCCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhc--cccC-----CCCCCHHHHHHHHHHHHHHHHhCCCCc
Confidence            3567999999999999999999998   77899999887552  1222     223344999999999999999887555


Q ss_pred             EEEEEeCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccccc
Q 016622          149 NVTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLL  228 (386)
Q Consensus       149 ~v~l~~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~  228 (386)
                      ++++...++                .+|.++ |-.|+||||++..||.+|.++|+||++|-||.++|..-..+       
T Consensus        92 ~~~l~~~~P----------------~vImmv-GLQGsGKTTt~~KLA~~lkk~~~kvllVaaD~~RpAA~eQL-------  147 (451)
T COG0541          92 ELNLAKKPP----------------TVILMV-GLQGSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQL-------  147 (451)
T ss_pred             ccccCCCCC----------------eEEEEE-eccCCChHhHHHHHHHHHHHcCCceEEEecccCChHHHHHH-------
Confidence            555543333                388888 99999999999999999999999999999999998752211       


Q ss_pred             ccCCCCCceeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh------HHHhhhhh
Q 016622          229 EMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD------IQLTLCQV  302 (386)
Q Consensus       229 ~~~~~~~~i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~------~~~~~~~~  302 (386)
                              -.....-++.+++.+...+         ..+..++.++.++...||+|||||++.+..      ....+...
T Consensus       148 --------~~La~q~~v~~f~~~~~~~---------Pv~Iak~al~~ak~~~~DvvIvDTAGRl~ide~Lm~El~~Ik~~  210 (451)
T COG0541         148 --------KQLAEQVGVPFFGSGTEKD---------PVEIAKAALEKAKEEGYDVVIVDTAGRLHIDEELMDELKEIKEV  210 (451)
T ss_pred             --------HHHHHHcCCceecCCCCCC---------HHHHHHHHHHHHHHcCCCEEEEeCCCcccccHHHHHHHHHHHhh
Confidence                    0111112555554321111         122344444444447899999999987642      22233445


Q ss_pred             cCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeE
Q 016622          303 VPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       303 ~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl  373 (386)
                      ...|.+++|++....  +++....+.|.+ .+++.|+|+.+.+.+..+        +.+-.+...+|.|+-
T Consensus       211 ~~P~E~llVvDam~G--QdA~~~A~aF~e-~l~itGvIlTKlDGdaRG--------GaALS~~~~tg~PIk  270 (451)
T COG0541         211 INPDETLLVVDAMIG--QDAVNTAKAFNE-ALGITGVILTKLDGDARG--------GAALSARAITGKPIK  270 (451)
T ss_pred             cCCCeEEEEEecccc--hHHHHHHHHHhh-hcCCceEEEEcccCCCcc--------hHHHhhHHHHCCCeE
Confidence            567999999876554  667777777765 467899999999987653        455677778887764

>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]

Probab=99.78  E-value=8.8e-19  Score=139.08  Aligned_cols=90  Identities=30%  Similarity=0.598  Sum_probs=83.3

Q ss_pred             CCCcccHHHHHHHhccCCCCCCCCCccccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeEE
Q 016622           71 VSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNV  150 (386)
Q Consensus        71 ~~~~~~~~~i~~~L~~V~dPe~~~div~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~v  150 (386)
                      .....++++|+++|++|+|||+++|||+|||||++.+++.++.++|.|++|++|||..+.+..++++++..++|++.++|
T Consensus         8 ~~~~~~~~~i~~aL~~V~DPEi~idIvdLGLVy~v~i~~~~~~v~v~mtlT~~gCP~~~~i~~~v~~al~~~~~v~~v~V   87 (111)
T COG2151           8 EAIKVTLEDILEALKTVIDPEIGIDIVDLGLVYEVDIDDVDGLVKVKMTLTSPGCPLAEVIADQVEAALEEIPGVEDVEV   87 (111)
T ss_pred             chhhhhHHHHHHHhhcCCCcccceeeEeeccEEEEEEecCCceEEEEEecCCCCCCccHHHHHHHHHHHHhcCCcceEEE
Confidence            34567899999999999999999999999999999998722689999999999999999999999999999999999999


Q ss_pred             EEEeCCCCch
Q 016622          151 TMSAQPARPI  160 (386)
Q Consensus       151 ~l~~~p~~~~  160 (386)
                      +++++|+|..
T Consensus        88 ~l~~~p~Wt~   97 (111)
T COG2151          88 ELTLSPPWTP   97 (111)
T ss_pred             EEEEcCCCch
Confidence            9999999943

>PF00142 Fer4_NifH: 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; InterPro: IPR000392 This entry represents members of the NifH/BchL/ChlL family

Probab=99.77  E-value=4.4e-18  Score=154.44  Aligned_cols=201  Identities=19%  Similarity=0.239  Sum_probs=128.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc--cccc----C----CCCCceeeeccC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR--LLEM----N----PEKRTIIPTEYL  243 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~--~~~~----~----~~~~~i~~~~~~  243 (386)
                      |.|+|+ +|||.||||++.||+.+||++|+||+.|-|||...+...+++....  +.+.    .    ...+.+....+.
T Consensus         1 r~IAiY-GKGGIGKST~~~Nlsaala~~G~kVl~iGCDPK~DST~~ll~g~~~~Tvld~~~~~~~~e~~~ledvv~~G~~   79 (273)
T PF00142_consen    1 RKIAIY-GKGGIGKSTTASNLSAALAEMGKKVLQIGCDPKADSTRLLLGGKAIPTVLDLLREKGSVEDLELEDVVKEGFK   79 (273)
T ss_dssp             EEEEEE-ESTTSSHHHHHHHHHHHHHHTT--EEEEEESSSSTSSCHHHTTSS-SBHHHHHHHHCTGGGS-HHHHSEEEGG
T ss_pred             CeEEEE-cCCCcccChhhhHHHHHHHhccceeeEecccCCCccceeccCCccchhHHHHHhhccccccCCCCcEEEeccC
Confidence            579999 9999999999999999999999999999999999888777665432  1110    1    111234455677


Q ss_pred             CceEEecCCCCCcccccCCchHHHHHHHHHHhcC-CCCCcEEEEcCCCCC--ChHHHhhhhhcCCCeEEEEeCCCcchHH
Q 016622          244 GVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTE-WGELDYLVIDMPPGT--GDIQLTLCQVVPLTAAVIVTTPQKLAFI  320 (386)
Q Consensus       244 ~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~-~~~yD~VIIDtpp~~--~~~~~~~~~~~~~d~vviV~~~~~~s~~  320 (386)
                      |+.++-.|.+..+.... +.-....++-+-+.-. ..+||||++|.-+-.  +-.++-+. ---++.+++|+..+.+++.
T Consensus        80 gi~CvEsGGPePGvGCa-GRGI~~a~~~L~~~~~~~~~~D~v~yDVLGDVVCGGFamPir-~g~a~evyIVtSge~msly  157 (273)
T PF00142_consen   80 GILCVESGGPEPGVGCA-GRGIITALELLEELGAYEDDYDFVLYDVLGDVVCGGFAMPIR-EGYAQEVYIVTSGEFMSLY  157 (273)
T ss_dssp             GEEEEE---SCTTSSBH-HHHHHHHHHHHHHTTTSTSTSSEEEEEEESSSSCTTTTHHHH-TTS-SEEEEEEBSSHHHHH
T ss_pred             CceeeccCCCccccccc-ccchhhhhhhHHhhhhhhcCCceEEEEEEeeeEEeeeehhhh-hccCCEEEEEecCcHHHHH
Confidence            89998877654332221 1112222222221111 146999999985422  11122221 1135899999999999999


Q ss_pred             HHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          321 DVAKGVRMFSKL----KVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       321 ~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      .+.++.+.+++.    +.++.|+|.|.-....        .+...++++++.|.++++.||+++.++++
T Consensus       158 AANNI~~~i~~~~~~g~~~l~GiI~N~r~~~~--------e~~~v~~fa~~~g~~i~~~iPr~~~v~~a  218 (273)
T PF00142_consen  158 AANNICKAIKNFADRGGARLGGIICNSRNVDD--------EEEIVEDFAERIGTPIIAFIPRSEIVQRA  218 (273)
T ss_dssp             HHHHHHHHHHHHCTTSS-EEEEEEEE-SSSTT--------HHHHHHHHHHHHTSEEEEEE---HHHHHH
T ss_pred             HHHHHHHHHHHHhccCCCceEEEEecCCCCCC--------chHHHHHHHHHcCCcEEEecCchHHHHHH
Confidence            998888777654    4578899999643221        12468899999999999999999998764

Nitrogen fixing bacteria possess a nitrogenase enzyme complex that catalyses the reduction of molecular nitrogen to ammonia [, , ]. The nitrogenase enzyme complex consists of two components: Component I is nitrogenase MoFe protein or dinitrogenase, which contains 2 molecules each of 2 non-identical subunits. Component II is nitrogenase Fe protein or dinitrogenase reductase, which is a homodimer. The monomer is encoded by the nifH gene []. Component II has 2 ATP-binding domains and one 4Fe-4S cluster per homodimer: it supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component I for the reduction of molecular nitrogen to ammonia []. There are a number of conserved regions in the sequence of these proteins: in the N-terminal section there is an ATP-binding site motif 'A' (P-loop) IPR001687 from INTERPRO and in the central section there are two conserved cysteines which have been shown, in nifH, to be the ligands of the 4Fe-4S cluster. Protochlorophyllide reductase is involved in light-independent chlorophyll biosynthesis. The light-independent reaction uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This enzyme complex is composed of three subunits: ChlL, ChlN and ChlB. ChlL is present as a homodimer, and binds one 4Fe-4S cluster per dimer. The conserved domains, including the ATP-binding motif and the Fe-S binding motif found in the three subunits, are similar to those in nitrogenases []. ; GO: 0005524 ATP binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1CP2_A 2AFI_F 1N2C_F 1FP6_C 2AFK_G 1M34_M 1XD8_A 1NIP_A 1M1Y_N 1G21_H ....

>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins

Probab=99.77  E-value=6.4e-18  Score=151.41  Aligned_cols=146  Identities=23%  Similarity=0.347  Sum_probs=103.6

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeecc-CCceEEecC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEY-LGVKLVSFG  251 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~-~~l~vl~~~  251 (386)
                      |++|+|+|.|||+||||.+..||..|+++|.+|.+||+|+++|...+.-...             .+..+ .++.+... 
T Consensus         1 M~vItf~s~KGGaGKTT~~~~LAs~la~~G~~V~lIDaDpn~pl~~W~~~a~-------------~~~~~~~~~~V~~~-   66 (231)
T PF07015_consen    1 MPVITFASSKGGAGKTTAAMALASELAARGARVALIDADPNQPLAKWAENAQ-------------RPGAWPDRIEVYEA-   66 (231)
T ss_pred             CCeEEEecCCCCCcHHHHHHHHHHHHHHCCCeEEEEeCCCCCcHHHHHHhcc-------------ccCCCCCCeeEEec-
Confidence            5699999999999999999999999999999999999999997653311000             00011 12222210 


Q ss_pred             CCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHc
Q 016622          252 FSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSK  331 (386)
Q Consensus       252 ~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~  331 (386)
                                  .....+++.++......|||||||+.++.+......  +..+|.+++++.++.....++.+.++++.+
T Consensus        67 ------------~e~~~l~~~~e~a~~~~~d~VlvDleG~as~~~~~a--ia~sDlVlIP~~~s~lD~~eA~~t~~~v~~  132 (231)
T PF07015_consen   67 ------------DELTILEDAYEAAEASGFDFVLVDLEGGASELNDYA--IARSDLVLIPMQPSQLDADEAAKTFKWVRR  132 (231)
T ss_pred             ------------cchhhHHHHHHHHHhcCCCEEEEeCCCCCchhHHHH--HHHCCEEEECCCCChHHHHHHHHHHHHHHH
Confidence                        012245555555443569999999997766443333  556899999999999999999988888765


Q ss_pred             C------CCCeEEEEEcCCcCC
Q 016622          332 L------KVPCIAVVENMCHFD  347 (386)
Q Consensus       332 ~------~~~i~gvVlN~~~~~  347 (386)
                      .      +++ ..|+++|++..
T Consensus       133 ~~~~~~~~ip-~~Vl~Tr~~~~  153 (231)
T PF07015_consen  133 LEKAERRDIP-AAVLFTRVPAA  153 (231)
T ss_pred             HHHhhCCCCC-eeEEEecCCcc
Confidence            4      344 46999998754

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 [].

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=99.76  E-value=8.3e-18  Score=134.79  Aligned_cols=99  Identities=32%  Similarity=0.507  Sum_probs=85.3

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSG  254 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~  254 (386)
                      +|+|.|.|||+||||++.+||..++++|.+|+++|+|++                                         
T Consensus         1 ~i~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~-----------------------------------------   39 (104)
T cd02042           1 VIAVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQ-----------------------------------------   39 (104)
T ss_pred             CEEEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCC-----------------------------------------
Confidence            589999999999999999999999999999999999987                                         


Q ss_pred             CcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHH---HHHc
Q 016622          255 QGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVR---MFSK  331 (386)
Q Consensus       255 ~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~---~l~~  331 (386)
                                                ||+||||+||+.+.....  .+..+|.+++|+.++..++..+.++++   ..+.
T Consensus        40 --------------------------~d~viiD~p~~~~~~~~~--~l~~ad~viv~~~~~~~s~~~~~~~~~~~~~~~~   91 (104)
T cd02042          40 --------------------------YDYIIIDTPPSLGLLTRN--ALAAADLVLIPVQPSPLDLDGLEKLLETLILEDR   91 (104)
T ss_pred             --------------------------CCEEEEeCcCCCCHHHHH--HHHHCCEEEEeccCCHHHHHHHHHHHHHHHHHHh
Confidence                                      899999999998765543  356679999999999999999999887   3333


Q ss_pred             --CCCCeEEEEEc
Q 016622          332 --LKVPCIAVVEN  342 (386)
Q Consensus       332 --~~~~i~gvVlN  342 (386)
                        ......|+|+|
T Consensus        92 ~~~~~~~~~vv~n  104 (104)
T cd02042          92 LNPDLDILGILPT  104 (104)
T ss_pred             cCCCCceEEEEeC
Confidence              24557888887

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.

>COG1348 NifH Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]

Probab=99.76  E-value=3.3e-17  Score=144.34  Aligned_cols=202  Identities=25%  Similarity=0.250  Sum_probs=141.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc--cc----c----cCCCCCceeeecc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR--LL----E----MNPEKRTIIPTEY  242 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~--~~----~----~~~~~~~i~~~~~  242 (386)
                      ++.|+|+ +|||.||||++.|++.+||+.|+||++|-|||...+...++|....  +.    .    .....+.+....+
T Consensus         1 mr~iAiY-GKGGIGKSTts~N~aAAla~~GkkVl~vGCDPKaDSTr~Llgg~~ipTVld~lre~~~~e~~~ledvi~~Gf   79 (278)
T COG1348           1 MRQIAIY-GKGGIGKSTTSQNLAAALAELGKKVLIVGCDPKADSTRLLLGGKAIPTVLDTLREKGEVEDLELEDVIFTGF   79 (278)
T ss_pred             CceEEEe-cCCCcCcchhHHHHHHHHHHcCCeEEEEcCCCCcchHHHHhCCcccchHHHHHHhcCccccCCHHHheeccC
Confidence            4689999 9999999999999999999999999999999999998888873322  11    0    1223345666778


Q ss_pred             CCceEEecCCCCCcccccCCchHHHHHHHHHHhcCC-CCCcEEEEcCCCCC--ChHHHhhhhhcCCCeEEEEeCCCcchH
Q 016622          243 LGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEW-GELDYLVIDMPPGT--GDIQLTLCQVVPLTAAVIVTTPQKLAF  319 (386)
Q Consensus       243 ~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~-~~yD~VIIDtpp~~--~~~~~~~~~~~~~d~vviV~~~~~~s~  319 (386)
                      .|++++-+|.+..+.... +.-....++-+-+.-.. +..|+||+|..+-.  +-.++-+. ---+|.+++|++.+.+++
T Consensus        80 ~Gv~CVEsGGPepGvGCA-GRGVitai~~Le~lgaf~~~~DvviyDVLGDVVCGGFAmPiR-eg~AdeiyIVtSge~Mal  157 (278)
T COG1348          80 GGVKCVESGGPEPGVGCA-GRGVITAINLLEELGAFEEDLDVVIYDVLGDVVCGGFAMPIR-EGYADEIYIVTSGEMMAL  157 (278)
T ss_pred             CceEEeecCCCCCCCCcc-cchHHHHHHHHHHhCCccccCCEEEEeccCceeecceeeehh-cccCcEEEEEecCchHHH
Confidence            899999877655443332 22222233322222111 34699999986522  11111111 113699999999999999


Q ss_pred             HHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          320 IDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       320 ~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      ..+.++.+-+++    .+++.-|+|.|.-..+.        .....+.+++.+|.++++.||+++.+++|
T Consensus       158 YAANNI~kgi~k~a~~~~~rLgGiIcNsr~~~~--------e~e~v~~fa~~igt~li~~vPr~~ivq~a  219 (278)
T COG1348         158 YAANNIAKGIRKYAKTGGVRLGGIICNSRSVDR--------ERELVEAFAERLGTQLIHFVPRDNIVQKA  219 (278)
T ss_pred             HHHHHHHHHHHHHhhcCCcceeeEEecCCCccc--------HHHHHHHHHHHhCCceEeeccchHHHHHH
Confidence            988877665544    35778999999744322        12468899999999999999999988765

>PRK10867 signal recognition particle protein; Provisional

Probab=99.75  E-value=6.5e-18  Score=166.60  Aligned_cols=243  Identities=18%  Similarity=0.197  Sum_probs=156.8

Q ss_pred             CcccHHHHHHHhccCCCCCCCCCc---cccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeE
Q 016622           73 TGTAENDVLKALSQIIDPDFGTDI---VSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVN  149 (386)
Q Consensus        73 ~~~~~~~i~~~L~~V~dPe~~~di---v~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~  149 (386)
                      ..+++++|.+.|++++...+..||   +...++..|+....  ...+.-.     ....+.+.+.+++.+..+.+.....
T Consensus        20 ~~~~e~~i~~~l~ei~~~Ll~aDV~~~~~~~~~~~v~~~~~--~~~~~~~-----~~~~~~~~~~v~~el~~~l~~~~~~   92 (433)
T PRK10867         20 GRLTEADIKEALREVRLALLEADVNLPVVKDFIARVKEKAV--GQEVLKS-----LTPGQQVIKIVNDELVEILGGENSE   92 (433)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHh--hcccccc-----CCcHHHHHHHHHHHHHHHhCCCcce
Confidence            456889999999999999999888   55677777754321  1111111     1226778888998888776543333


Q ss_pred             EEEEeCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHC-CCcEEEEEcCCCCCCCCccCCCccccc
Q 016622          150 VTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFDADVYGPSLPTMVSPENRLL  228 (386)
Q Consensus       150 v~l~~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~-G~rVllID~D~~~~sl~~~lg~~~~~~  228 (386)
                      +++.                .+.+.+|+++ |.+|+||||++++||.+|+++ |++|++||+|.+++.....+.      
T Consensus        93 ~~~~----------------~~~p~vI~~v-G~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~------  149 (433)
T PRK10867         93 LNLA----------------AKPPTVIMMV-GLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLK------  149 (433)
T ss_pred             eeec----------------CCCCEEEEEE-CCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHH------
Confidence            3221                1123577777 899999999999999999988 999999999999876422110      


Q ss_pred             ccCCCCCceeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC--hHHH----hhhhh
Q 016622          229 EMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG--DIQL----TLCQV  302 (386)
Q Consensus       229 ~~~~~~~~i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~--~~~~----~~~~~  302 (386)
                               ......++.+++.+...+         ......+.++......||+|||||++...  +...    .+...
T Consensus       150 ---------~~a~~~gv~v~~~~~~~d---------p~~i~~~a~~~a~~~~~DvVIIDTaGrl~~d~~lm~eL~~i~~~  211 (433)
T PRK10867        150 ---------TLGEQIGVPVFPSGDGQD---------PVDIAKAALEEAKENGYDVVIVDTAGRLHIDEELMDELKAIKAA  211 (433)
T ss_pred             ---------HHHhhcCCeEEecCCCCC---------HHHHHHHHHHHHHhcCCCEEEEeCCCCcccCHHHHHHHHHHHHh
Confidence                     001122555555332111         12233333333333689999999998663  1111    12223


Q ss_pred             cCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          303 VPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       303 ~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ...+.+++|+.+..  -+++.+..+.+.+ .+++.|+|+|+.+....+        +.+-.+...+++|+.+
T Consensus       212 v~p~evllVlda~~--gq~av~~a~~F~~-~~~i~giIlTKlD~~~rg--------G~alsi~~~~~~PI~f  272 (433)
T PRK10867        212 VNPDEILLVVDAMT--GQDAVNTAKAFNE-ALGLTGVILTKLDGDARG--------GAALSIRAVTGKPIKF  272 (433)
T ss_pred             hCCCeEEEEEeccc--HHHHHHHHHHHHh-hCCCCEEEEeCccCcccc--------cHHHHHHHHHCcCEEE
Confidence            34678889988643  3555555555554 467789999998865432        4577888999999765

>PF09140 MipZ: ATPase MipZ; InterPro: IPR015223 Cell division in bacteria is facilitated by a polymeric ring structure, the Z ring, composed of tubulin-like FtsZ protofilaments

Probab=99.73  E-value=6.9e-19  Score=158.10  Aligned_cols=131  Identities=34%  Similarity=0.486  Sum_probs=77.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFS  253 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~  253 (386)
                      ++|+|.|+|||+||||+|.|||.+|+++|+||.++|+|.++++++.+++.......... ..  .+.  +....++    
T Consensus         1 HiIvV~sgKGGvGKSTva~~lA~aLa~~G~kVg~lD~Di~q~S~~r~l~nr~~~~~~~g-i~--Lp~--p~~~~L~----   71 (261)
T PF09140_consen    1 HIIVVGSGKGGVGKSTVAVNLAVALARMGKKVGLLDLDIRQPSLPRYLENRAAWAQRDG-IE--LPV--PSHFFLP----   71 (261)
T ss_dssp             EEEEEE-SSTTTTHHHHHHHHHHHHHCTT--EEEEE--TTT-HHHHHHHHHHHHHHHHT-----------EEE-SS----
T ss_pred             CEEEEecCCCCCcHHHHHHHHHHHHHHCCCeEEEEecCCCCCCHHHHHhccchhHHhcC-cc--cCC--ccceeec----
Confidence            58999999999999999999999999999999999999999999988864322211110 00  010  0111111    


Q ss_pred             CCcccccCCch-HHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc
Q 016622          254 GQGRAIMRGPM-VSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK  316 (386)
Q Consensus       254 ~~~~~~~~~~~-~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~  316 (386)
                      ......+.++. ....+++++..+. .++|||||||| |.++..... ....+|.++.+.....
T Consensus        72 ~~~~~v~~~~~~~~~~L~q~l~~l~-~~~DfLVID~P-Gtd~~lsr~-Ahs~ADtLiTPlNdSf  132 (261)
T PF09140_consen   72 PDQASVWEGENVEDKRLEQALADLE-GDLDFLVIDTP-GTDDRLSRV-AHSMADTLITPLNDSF  132 (261)
T ss_dssp             SHHHHTTS-HHHHHHHHHHHHHHHH-HH-SEEEEEE--SSS-HHHHH-HHHT-SEEEEEEESSH
T ss_pred             ccccccccCcchhHHHHHHHHHHHh-cCCCEEEEeCC-CCCcHHHHH-HHHhCCEEEccCchhH
Confidence            12222333332 3457888888776 79999999999 565544443 3456687776655443

Correct positioning of the division plane is a prerequisite for the generation of daughter cells with a normal chromosome complement. In Caulobacter crescentus MipZ, an essential protein, coordinates and regulates the assembly of the FtsZ cytokinetic ring during cell division. MipZ, forms a complex with the partitioning protein ParB near the origin of replication and localizes with the duplicated origin regions to the cell poles. MipZ also directly interferes with FtsZ polymerisation, thereby restricting FtsZ ring formation to mid-cell, the region of lowest MipZ concentration. In eukaryotes members of this entry belong to the Mrp/NBP35 ATP-binding protein family, and specifically the NUBP2/CFD1 subfamily. This includes the cytosolic Fe-S cluster assembly factor Cfd1, which is a component of the cytosolic iron-sulphur (Fe/S) protein assembly machinery. This protein is required for maturation of extra-mitochondrial Fe/S proteins. It may bind and transfer a labile 4Fe-4S cluster to target apoproteins. Cfd1 is also required for biogenesis and export of both ribosomal subunits, suggesting a role in assembly of the Fe/S clusters in RLI1, a protein which performs rRNA processing and ribosome export. ; PDB: 2XIT_B 2XJ4_A 2XJ9_A.

>PF13614 AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ_A 3KB1_B 1ION_A 3LA6_H 3BFV_B 3CIO_D

Probab=99.72  E-value=9.3e-18  Score=144.46  Aligned_cols=141  Identities=27%  Similarity=0.384  Sum_probs=98.2

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc--c----ccc---------CCCCCcee
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR--L----LEM---------NPEKRTII  238 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~--~----~~~---------~~~~~~i~  238 (386)
                      |+|+|+|.+||+||||+|.+||..||+.|++|++||+|...+.+..+++.+..  +    ...         ....+.+.
T Consensus         1 k~i~v~s~~~g~G~t~~a~~lA~~la~~~~~Vllid~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~l~~~~~   80 (157)
T PF13614_consen    1 KVIAVWSPKGGVGKTTLALNLAAALARKGKKVLLIDFDFFSPSLSRLLGIEPERGLSDLLYDKKSGDENLSERDLSDHIY   80 (157)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHHHHHTTT-EEEEE--SSS-HHHHHTTSSSSSSHHHHHTTSHC--C-HHHSHHHHHCE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHhcCCCeEEEECCCCCCCcccccccccccchhhHhcCccccccchhhhhHHHHhe
Confidence            68999999999999999999999999999999999999999988888876654  1    111         01122233


Q ss_pred             eeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcch
Q 016622          239 PTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLA  318 (386)
Q Consensus       239 ~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s  318 (386)
                      .....++++++..........+........++.+.     +.||+||||+|+........ ..+..+|.+++|+.++..+
T Consensus        81 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~li~~l~-----~~yd~IivD~~~~~~~~~~~-~~l~~~D~ii~v~~~~~~s  154 (157)
T PF13614_consen   81 SDAHDGLDLLPPPSSPEDLEELTPEDVEELIDALK-----EHYDYIIVDLPSSLSNPDTQ-AVLELADKIILVVRPDVTS  154 (157)
T ss_dssp             EESSTTEEEE--SSSSHHHHHHTSHHHHHHHHHHH-----HHSSEEEEEEESTTTHTHHH-HHHTTHSEEEEEEETTHHH
T ss_pred             eccCCCeEEecCCCCCCchhhcCHHHHHHHHHHHH-----HcCCEEEEECcCCccHHHHH-HHHHHCCEEEEEECCCccc
Confidence            23347899998666555444455554445555544     69999999999988754332 1255679999999999887


Q ss_pred             HH
Q 016622          319 FI  320 (386)
Q Consensus       319 ~~  320 (386)
                      .+
T Consensus       155 ~~  156 (157)
T PF13614_consen  155 IR  156 (157)
T ss_dssp             HH
T ss_pred             cc
Confidence            54

>COG4963 CpaE Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]

Probab=99.71  E-value=2.4e-16  Score=149.52  Aligned_cols=198  Identities=24%  Similarity=0.308  Sum_probs=150.7

Q ss_pred             cCCceEEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCCCCCCCccCCCcccc--cc----cCCC----CCcee
Q 016622          170 QKISNIVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVYGPSLPTMVSPENRL--LE----MNPE----KRTII  238 (386)
Q Consensus       170 ~~~~kvI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~~~~sl~~~lg~~~~~--~~----~~~~----~~~i~  238 (386)
                      ....+.++|.+.|||+|-||+|.|+|+.++ +.++.|+|+|+|.+++....+|+.+...  .+    ....    .+...
T Consensus       101 ~~~~r~iafl~akgg~g~stlA~n~a~~l~~~~~~~v~L~DL~~~~G~~~~~l~~~~a~~i~~~~~~peRLDq~lld~~~  180 (366)
T COG4963         101 AQQGRELAFLGAKGGVGTSTLAHNLAKGLAILSGAAVLLVDLDLQGGTAALYLDQDPAFGIAEAVKQPERLDQVLLDSLL  180 (366)
T ss_pred             hhhceEEEEEeecCCcchHHHHHHHHHHHhhhcCCcEEEEEcCCCCcchhhhcCCCchhhHHHHhcCHHHhhHHHHHHHH
Confidence            345689999999999999999999999999 5689999999999998877777765431  11    0000    11222


Q ss_pred             eeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcch
Q 016622          239 PTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLA  318 (386)
Q Consensus       239 ~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s  318 (386)
                      -...+++++++..........+.    ...+.++++.++ ..||+||+|.|-...++...+  +..+|.+++|++++..+
T Consensus       181 ~~~~~~l~ll~a~~~~~~~~d~~----~~~~~~Ll~~~~-~~~~~vV~Dlp~~~~~~t~~v--L~~Sd~iviv~e~sl~s  253 (366)
T COG4963         181 TRLASGLKLLAAPTELAKNYDLK----TGAVERLLDLLR-GSFDFVVVDLPNIWTDWTRQV--LSGSDEIVIVAEPSLAS  253 (366)
T ss_pred             hccCCCceeecCCcchhhhcccc----cchHHHHHHHhh-ccCCeEEEcCCCccchHHHHH--HhcCCeEEEEecccHHH
Confidence            33456888887665433322222    335556665555 899999999997777777766  77789999999999999


Q ss_pred             HHHHHHHHHHHHcCC--CCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhh
Q 016622          319 FIDVAKGVRMFSKLK--VPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVS  383 (386)
Q Consensus       319 ~~~~~~~~~~l~~~~--~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~  383 (386)
                      ++.++++++.+++.+  .+....|+|++.....         ...+++.+.+|++.+..+|+|+.+.
T Consensus       254 lR~ak~lld~l~~~r~~~~~p~lv~n~~~~~~~---------~~~~dl~~~~~i~~~~~~p~d~~~~  311 (366)
T COG4963         254 LRNAKELLDELKRLRPNDPKPILVLNRVGVPKR---------PEPSDLEEILGIESLLVLPFDPALF  311 (366)
T ss_pred             HHHHHHHHHHHHHhCCCCCCceEEeeecCCCCC---------CCHHHHHHHhCCchhccccCCchhh
Confidence            999999999999874  3467789999876543         2378999999999999999998763

>TIGR00959 ffh signal recognition particle protein

Probab=99.71  E-value=4.5e-17  Score=160.62  Aligned_cols=243  Identities=19%  Similarity=0.248  Sum_probs=150.7

Q ss_pred             CcccHHHHHHHhccCCCCCCCCCc---cccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeE
Q 016622           73 TGTAENDVLKALSQIIDPDFGTDI---VSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVN  149 (386)
Q Consensus        73 ~~~~~~~i~~~L~~V~dPe~~~di---v~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~  149 (386)
                      ..++|++|.+.|++++...+..||   +...+++.++....  ...+.     .+....+.+.+.+++.|..+.+.....
T Consensus        19 ~~~~e~~i~~~l~ei~~~Ll~aDV~~~~v~~~~~~i~~~~~--~~~~~-----~~~~~~~~~~~~v~~eL~~~l~~~~~~   91 (428)
T TIGR00959        19 GTITEKNIKEALREIRLALLEADVNLQVVKDFIKKVKEKAL--GQEVL-----KSLSPGQQFIKIVHEELVAILGGENAS   91 (428)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHhc--ccccc-----ccCCcHHHHHHHHHHHHHHHhCCCCcc
Confidence            457999999999999999999888   55667777643221  01111     122226788899999988766543211


Q ss_pred             EEEEeCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCCCCCCCccCCCccccc
Q 016622          150 VTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVYGPSLPTMVSPENRLL  228 (386)
Q Consensus       150 v~l~~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~~~~sl~~~lg~~~~~~  228 (386)
                      +.+.                .+.+.+|++ +|.+|+||||++++||.+|+ +.|++|++||+|.+++.....+..     
T Consensus        92 ~~~~----------------~~~p~vi~~-vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~-----  149 (428)
T TIGR00959        92 LNLA----------------KKPPTVILM-VGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKV-----  149 (428)
T ss_pred             cccC----------------CCCCEEEEE-ECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHH-----
Confidence            1110                112334555 59999999999999999987 689999999999988764221100     


Q ss_pred             ccCCCCCceeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC--hHHH----hhhhh
Q 016622          229 EMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG--DIQL----TLCQV  302 (386)
Q Consensus       229 ~~~~~~~~i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~--~~~~----~~~~~  302 (386)
                                .....++.++..+....         ......+.++.+....||+|||||++...  +..+    .+...
T Consensus       150 ----------~a~~~gvp~~~~~~~~~---------P~~i~~~al~~~~~~~~DvVIIDTaGr~~~d~~l~~eL~~i~~~  210 (428)
T TIGR00959       150 ----------LGQQVGVPVFALGKGQS---------PVEIARRALEYAKENGFDVVIVDTAGRLQIDEELMEELAAIKEI  210 (428)
T ss_pred             ----------HHHhcCCceEecCCCCC---------HHHHHHHHHHHHHhcCCCEEEEeCCCccccCHHHHHHHHHHHHh
Confidence                      00112334443221111         11222333333222789999999998653  2111    11223


Q ss_pred             cCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          303 VPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       303 ~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ...|.+++|+.+..  -+++.+..+.+.+ .+++.|+|+|+.+....+        +....+...+++|+.+
T Consensus       211 ~~p~e~lLVvda~t--gq~~~~~a~~f~~-~v~i~giIlTKlD~~~~~--------G~~lsi~~~~~~PI~f  271 (428)
T TIGR00959       211 LNPDEILLVVDAMT--GQDAVNTAKTFNE-RLGLTGVVLTKLDGDARG--------GAALSVRSVTGKPIKF  271 (428)
T ss_pred             hCCceEEEEEeccc--hHHHHHHHHHHHh-hCCCCEEEEeCccCcccc--------cHHHHHHHHHCcCEEE
Confidence            34688899988753  3555555555542 346789999998865432        4578888999999875

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.

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=99.70  E-value=3.3e-17  Score=155.84  Aligned_cols=196  Identities=22%  Similarity=0.247  Sum_probs=118.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceee-eccCCceEEecCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIP-TEYLGVKLVSFGF  252 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~-~~~~~l~vl~~~~  252 (386)
                      |+|.| +|||||||||+|+.+|.++|++|+||+++..|+.. +++..||.+-.        ..... ...+||+.+-...
T Consensus         2 r~~~~-~GKGGVGKTT~aaA~A~~~A~~G~rtLlvS~Dpa~-~L~d~l~~~~~--------~~~~~v~~~~~L~a~eid~   71 (305)
T PF02374_consen    2 RILFF-GGKGGVGKTTVAAALALALARRGKRTLLVSTDPAH-SLSDVLGQKLG--------GEPTKVEGVPNLSAMEIDP   71 (305)
T ss_dssp             SEEEE-EESTTSSHHHHHHHHHHHHHHTTS-EEEEESSTTT-HHHHHHTS--B--------SS-EEETTCSSEEEEE--H
T ss_pred             eEEEE-ecCCCCCcHHHHHHHHHHHhhCCCCeeEeecCCCc-cHHHHhCCcCC--------CCCeEecCCCCceeeecCH
Confidence            45555 49999999999999999999999999999999955 66666665311        00000 0112343332110


Q ss_pred             C------------------C---------CcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHH---------
Q 016622          253 S------------------G---------QGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQ---------  296 (386)
Q Consensus       253 ~------------------~---------~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~---------  296 (386)
                      .                  .         .....+.+-.....+..+.+.+..++||+||+||||.-....         
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~PG~~E~~~l~~l~~~~~~~~~D~IVvDt~ptg~tLrlL~lP~~l~  151 (305)
T PF02374_consen   72 EAELEEYWEEVQKDLSSLLPLIGLERILDEELSSLPGLDELAALLRLADLLESGEYDLIVVDTPPTGHTLRLLSLPERLR  151 (305)
T ss_dssp             HHHHHHHHHHHHHGCSTCHHCHHHHHHHHHHTTSSTTHHHHHHHHHHHHHHHHCSTSEEEEESSSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhccchhhhhhHHHHHHHHhcCCcHHHHHHHHHHHHHHHhCCCCEEEECCCCcHHHHHHHhHHHHHH
Confidence            0                  0         000111222233345555554445899999999999532100         


Q ss_pred             ----------H-------hh----------------------------hhhcC--CCeEEEEeCCCcchHHHHHHHHHHH
Q 016622          297 ----------L-------TL----------------------------CQVVP--LTAAVIVTTPQKLAFIDVAKGVRMF  329 (386)
Q Consensus       297 ----------~-------~~----------------------------~~~~~--~d~vviV~~~~~~s~~~~~~~~~~l  329 (386)
                                .       .+                            ..+..  ...+++|++|+..++.++++++..|
T Consensus       152 ~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lV~~pE~l~i~Et~r~~~~L  231 (305)
T PF02374_consen  152 WWLDRLLKLRRKIRSLARPLSGLGLGAVPLDEILEELEEMRERLERLRELLRDPERTSFRLVTNPEPLAIAETERLLTEL  231 (305)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHCHSHCCHHHHHHHHHHHHHHHHHHHHHHHHHTSTTTEEEEEEEESSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcchhhhhhcccccccchHHHHHHHHHHHHHHHHHHHHhcCCCCcEEEEEecCCcchHHHHHHHHHHH
Confidence                      0       00                            00101  2468999999999999999999999


Q ss_pred             HcCCCCeEEEEEcCCcCCCCCc-ee----cccCCChHHHHHHHhCCCeEEecCCC
Q 016622          330 SKLKVPCIAVVENMCHFDADGK-RY----YPFGRGSGSQVVQQFGIPHLFDLPIR  379 (386)
Q Consensus       330 ~~~~~~i~gvVlN~~~~~~~~~-~~----~~~~~~~~~~i~~~~g~pvl~~IP~d  379 (386)
                      +..|+++-++|+||+-...... .+    +..+...++++.+.|.---+..+|+-
T Consensus       232 ~~~gi~v~~vVvNrvlp~~~~~c~~~~~r~~~Q~~~l~~i~~~f~~~~v~~vp~~  286 (305)
T PF02374_consen  232 KLYGIPVDAVVVNRVLPEEEDDCPFCAARRKEQQKYLAEIEESFPDLPVVKVPLL  286 (305)
T ss_dssp             HHTT-EEEEEEEEEE-TTCSTTSHHHHHHHHHHHHHHHHHHHHTTTSEEEEEE--
T ss_pred             HhcCCccCeEEEEccccccccchHHHHHHHHHHHHHHHHHHHHhcCCCEEEecCC
Confidence            9999999999999987655432 11    11123467788888853344556643

...

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=99.70  E-value=5.9e-17  Score=158.87  Aligned_cols=243  Identities=12%  Similarity=0.103  Sum_probs=151.9

Q ss_pred             CcccHHHHHHHhccCCCCCCCCCc---cccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeE
Q 016622           73 TGTAENDVLKALSQIIDPDFGTDI---VSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVN  149 (386)
Q Consensus        73 ~~~~~~~i~~~L~~V~dPe~~~di---v~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~  149 (386)
                      ..++|++|.+.|++|+...+..||   +...|+..+..... + ..+     ..+....+.+.+.+.+.|..+.+.....
T Consensus        20 ~~l~e~~i~~~l~ei~~aLleaDV~~~vv~~~~~~v~~~~~-~-~~~-----~~~~~~~~~v~~~v~~~L~~~l~~~~~~   92 (429)
T TIGR01425        20 TVIDEEVLNAMLKEICTALLESDVNIKLVRQLRENIKKAIN-L-EEM-----ASGLNKRKMIQHAVFKELCNLVDPGVEA   92 (429)
T ss_pred             CccCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHh-c-ccc-----ccccCHHHHHHHHHHHHHHHHhCCCCcc
Confidence            567999999999999999999888   55778877654321 1 111     1222336789999999998865432211


Q ss_pred             EEEEeCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccc
Q 016622          150 VTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLE  229 (386)
Q Consensus       150 v~l~~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~  229 (386)
                      +...                .+.+++|+++ |.+|+||||++++||.+++++|++|++|++|+++++....+..      
T Consensus        93 ~~~~----------------~~~~~vi~lv-G~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~------  149 (429)
T TIGR01425        93 FTPK----------------KGKQNVIMFV-GLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQ------  149 (429)
T ss_pred             cccc----------------CCCCeEEEEE-CCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHH------
Confidence            1110                1234588888 8999999999999999999999999999999999654221110      


Q ss_pred             cCCCCCceeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHH------hhhhhc
Q 016622          230 MNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL------TLCQVV  303 (386)
Q Consensus       230 ~~~~~~~i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~------~~~~~~  303 (386)
                               .....++.+.......         .......+.++.++...||+|||||++.......      .+....
T Consensus       150 ---------~a~~~~vp~~~~~~~~---------dp~~i~~~~l~~~~~~~~DvViIDTaGr~~~d~~lm~El~~i~~~~  211 (429)
T TIGR01425       150 ---------NATKARIPFYGSYTES---------DPVKIASEGVEKFKKENFDIIIVDTSGRHKQEDSLFEEMLQVAEAI  211 (429)
T ss_pred             ---------HhhccCCeEEeecCCC---------CHHHHHHHHHHHHHhCCCCEEEEECCCCCcchHHHHHHHHHHhhhc
Confidence                     0011133333211100         1112222223323226899999999986642111      112233


Q ss_pred             CCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          304 PLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       304 ~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ..+.+++|+.+...  +++....+.|.+ .+++.|+|+|+.+....+        +.+-.+...+|.|+.+
T Consensus       212 ~p~e~lLVlda~~G--q~a~~~a~~F~~-~~~~~g~IlTKlD~~arg--------G~aLs~~~~t~~PI~f  271 (429)
T TIGR01425       212 QPDNIIFVMDGSIG--QAAEAQAKAFKD-SVDVGSVIITKLDGHAKG--------GGALSAVAATKSPIIF  271 (429)
T ss_pred             CCcEEEEEeccccC--hhHHHHHHHHHh-ccCCcEEEEECccCCCCc--------cHHhhhHHHHCCCeEE
Confidence            45788999886543  334444555544 246789999999976532        4566777788888764

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=99.65  E-value=5.1e-16  Score=153.57  Aligned_cols=240  Identities=16%  Similarity=0.160  Sum_probs=153.4

Q ss_pred             CcccHHHHHHHhccCCCCCCCCCc---cccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeE
Q 016622           73 TGTAENDVLKALSQIIDPDFGTDI---VSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVN  149 (386)
Q Consensus        73 ~~~~~~~i~~~L~~V~dPe~~~di---v~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~  149 (386)
                      ..+++++|.++|++|+...+..||   +...|++.+..... + ..+     ..+....+.+.+.+.+.+..+.+.....
T Consensus        16 ~~l~e~~i~~~l~ei~~aLl~adV~~~~~~~~~~~v~~~~~-~-~~~-----~~~~~~~~~~~~~v~~~L~~~l~~~~~~   88 (437)
T PRK00771         16 SRIDEKTVKEVVKDIQRALLQADVNVKLVKELSKSIKERAL-E-EEP-----PKGLTPREHVIKIVYEELVKLLGEETEP   88 (437)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHh-c-ccc-----cccCCcHHHHHHHHHHHHHHHhCCCccc
Confidence            467999999999999999999888   55667766653221 1 111     2334447788888888887765433211


Q ss_pred             EEEEeCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccc
Q 016622          150 VTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLE  229 (386)
Q Consensus       150 v~l~~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~  229 (386)
                      ..                 ....+.+|+|+ |.+|+||||++++||..|.+.|++|++|++|.+++.....+..      
T Consensus        89 ~~-----------------~~~~p~vI~lv-G~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~R~aa~eQL~~------  144 (437)
T PRK00771         89 LV-----------------LPLKPQTIMLV-GLQGSGKTTTAAKLARYFKKKGLKVGLVAADTYRPAAYDQLKQ------  144 (437)
T ss_pred             cc-----------------cCCCCeEEEEE-CCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCCCHHHHHHHHH------
Confidence            10                 01234588887 8999999999999999999999999999999988643211100      


Q ss_pred             cCCCCCceeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH-H-----Hhhhhhc
Q 016622          230 MNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI-Q-----LTLCQVV  303 (386)
Q Consensus       230 ~~~~~~~i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~-~-----~~~~~~~  303 (386)
                         .      ....++.+.....         .......+.+.++..  ..+|+|||||++..... .     ..+....
T Consensus       145 ---l------a~~~gvp~~~~~~---------~~d~~~i~~~al~~~--~~~DvVIIDTAGr~~~d~~lm~El~~l~~~~  204 (437)
T PRK00771        145 ---L------AEKIGVPFYGDPD---------NKDAVEIAKEGLEKF--KKADVIIVDTAGRHALEEDLIEEMKEIKEAV  204 (437)
T ss_pred             ---H------HHHcCCcEEecCC---------ccCHHHHHHHHHHHh--hcCCEEEEECCCcccchHHHHHHHHHHHHHh
Confidence               0      0001222222110         111233445555544  35799999999866421 1     1233344


Q ss_pred             CCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          304 PLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       304 ~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ..|.+++|+.+...  .++....+.+.+ .+++.|+|+|+++....+        +.+-.+...++.|+.+
T Consensus       205 ~pdevlLVvda~~g--q~av~~a~~F~~-~l~i~gvIlTKlD~~a~~--------G~~ls~~~~~~~Pi~f  264 (437)
T PRK00771        205 KPDEVLLVIDATIG--QQAKNQAKAFHE-AVGIGGIIITKLDGTAKG--------GGALSAVAETGAPIKF  264 (437)
T ss_pred             cccceeEEEecccc--HHHHHHHHHHHh-cCCCCEEEEecccCCCcc--------cHHHHHHHHHCcCEEE
Confidence            67899999887664  344444444443 356789999999876532        5677888888988764

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=99.63  E-value=4.7e-15  Score=140.85  Aligned_cols=194  Identities=23%  Similarity=0.280  Sum_probs=126.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCc--ccccccCCCCCceeeeccCCceEEe--
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPE--NRLLEMNPEKRTIIPTEYLGVKLVS--  249 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~--~~~~~~~~~~~~i~~~~~~~l~vl~--  249 (386)
                      +++.| +|||||||||+|+.+|..+|+.|+||++|..||.. +++..|+.+  .......           +|++.+.  
T Consensus         3 riv~f-~GKGGVGKTT~aaA~A~~lA~~g~kvLlvStDPAh-sL~d~f~~elg~~~~~I~-----------~nL~a~eiD   69 (322)
T COG0003           3 RIVFF-TGKGGVGKTTIAAATAVKLAESGKKVLLVSTDPAH-SLGDVFDLELGHDPRKVG-----------PNLDALELD   69 (322)
T ss_pred             EEEEE-ecCCcccHHHHHHHHHHHHHHcCCcEEEEEeCCCC-chHhhhccccCCchhhcC-----------CCCceeeec
Confidence            45555 59999999999999999999999999999999965 777666552  1110000           1222111  


Q ss_pred             ---------------------c----CCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH---------
Q 016622          250 ---------------------F----GFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI---------  295 (386)
Q Consensus       250 ---------------------~----~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~---------  295 (386)
                                           .    +...+....+.+-.....+..+.+.....+||+||+||||.....         
T Consensus        70 ~~~~l~ey~~~v~~~~~~~~~~~~l~~~~~~e~~~~PGidE~~~l~~i~e~~~~~~yD~IV~DtaPTG~TLRlL~lP~~~  149 (322)
T COG0003          70 PEKALEEYWDEVKDYLARLLRTRGLGGIYADELATLPGIDEALALLKILEYYVSGEYDVIVVDTAPTGHTLRLLSLPEVL  149 (322)
T ss_pred             HHHHHHHHHHHHHHHHHhhccccccchhHHHHHhhCCCHHHHHHHHHHHHHHhccCCCEEEEcCCChHHHHHHhccHHHH
Confidence                                 0    111112233444445556777777777789999999999942100         


Q ss_pred             --HHh--------hh-h-----------------------------------hcC--CCeEEEEeCCCcchHHHHHHHHH
Q 016622          296 --QLT--------LC-Q-----------------------------------VVP--LTAAVIVTTPQKLAFIDVAKGVR  327 (386)
Q Consensus       296 --~~~--------~~-~-----------------------------------~~~--~d~vviV~~~~~~s~~~~~~~~~  327 (386)
                        .+.        .. .                                   +..  -..+.+|..|+..++.++.+++.
T Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~L~~~~~~~~~~~~~l~~~~~T~~~lV~~pe~l~l~e~~ra~~  229 (322)
T COG0003         150 GWYLEKLFKPRRKRMVKALKSLSTAAGSPLPDDAVLEALEELKERIADVREVLTNPDGTSFRLVSIPEKLSLYETKRAVE  229 (322)
T ss_pred             HHHHHhhhhhHHHHHHHhhhhcccccCCcCcHHHHHHHHHHHHHHHHHHHHHhcCCCCCeEEEEecccccchHHHHHHHH
Confidence              000        00 0                                   001  24588899999999999999999


Q ss_pred             HHHcCCCCeEEEEEcCCcCCCCCcee----cccCCChHHHHHHHhCCCeEEecCCCh
Q 016622          328 MFSKLKVPCIAVVENMCHFDADGKRY----YPFGRGSGSQVVQQFGIPHLFDLPIRP  380 (386)
Q Consensus       328 ~l~~~~~~i~gvVlN~~~~~~~~~~~----~~~~~~~~~~i~~~~g~pvl~~IP~d~  380 (386)
                      .+.+.++++.++++|++.+......+    ....+....++.+.+.--.+..+|+.+
T Consensus       230 ~l~~~~i~v~~vi~n~~~p~~~~~~~~~~~~~~q~~~l~~~~~~f~~~~v~~vp~~~  286 (322)
T COG0003         230 RLSLYGIPVDAVIVNKILPDEADQPFLEARRKIQQKYLKELEETFSDLAVVKVPLLA  286 (322)
T ss_pred             HHHHcCCchheeeeecccccccccHHHHHHHHHHHHHHHHHHHhhcccceEEecccc
Confidence            99999999999999998876543211    111223466777777655566677654

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=99.60  E-value=1.9e-14  Score=134.76  Aligned_cols=167  Identities=16%  Similarity=0.166  Sum_probs=105.4

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFG  251 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~  251 (386)
                      .+++|+|+ |.+|+||||++++||..+++.|++|+++|+|+++.....      .+         .......++.+++.+
T Consensus        71 ~~~vi~l~-G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~~r~~a~~------ql---------~~~~~~~~i~~~~~~  134 (272)
T TIGR00064        71 KPNVILFV-GVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIE------QL---------EEWAKRLGVDVIKQK  134 (272)
T ss_pred             CCeEEEEE-CCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCCCCHHHHH------HH---------HHHHHhCCeEEEeCC
Confidence            35799999 899999999999999999999999999999986643210      00         000111134444433


Q ss_pred             CCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhh------hhhcC------CCeEEEEeCCCcchH
Q 016622          252 FSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTL------CQVVP------LTAAVIVTTPQKLAF  319 (386)
Q Consensus       252 ~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~------~~~~~------~d~vviV~~~~~~s~  319 (386)
                      ...+..     ......+....    .+.||+|||||||........+      .....      .|.+++|+... ...
T Consensus       135 ~~~dp~-----~~~~~~l~~~~----~~~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~-~~~  204 (272)
T TIGR00064       135 EGADPA-----AVAFDAIQKAK----ARNIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDAT-TGQ  204 (272)
T ss_pred             CCCCHH-----HHHHHHHHHHH----HCCCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECC-CCH
Confidence            211110     11112222222    2789999999998764211111      11222      68899999886 455


Q ss_pred             HHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          320 IDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       320 ~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      .++.+...+.+..  ++.|+|+|+++.....        +..-.+...+++|+..
T Consensus       205 ~~~~~~~~f~~~~--~~~g~IlTKlDe~~~~--------G~~l~~~~~~~~Pi~~  249 (272)
T TIGR00064       205 NALEQAKVFNEAV--GLTGIILTKLDGTAKG--------GIILSIAYELKLPIKF  249 (272)
T ss_pred             HHHHHHHHHHhhC--CCCEEEEEccCCCCCc--------cHHHHHHHHHCcCEEE
Confidence            6666665555444  4689999999865532        5667788888988875

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.

>TIGR03406 FeS_long_SufT probable FeS assembly SUF system protein SufT

Probab=99.53  E-value=6.5e-14  Score=121.18  Aligned_cols=89  Identities=25%  Similarity=0.461  Sum_probs=81.8

Q ss_pred             CCcccHHHHHHHhccCCCCCCCCCccccCCeeEEEEec---CCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCccee
Q 016622           72 STGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINE---ALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKV  148 (386)
Q Consensus        72 ~~~~~~~~i~~~L~~V~dPe~~~div~lg~V~~v~~~~---~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v  148 (386)
                      ..+.++++|+++|++|+||+++.|||++|+|+++.+++   +++++.|.|++|.++|++.+.+.+++++++.+++|++++
T Consensus        70 ~~~~~ee~V~eaL~tV~DPei~~nIVeLGlV~~I~Id~~~~~~~~V~I~mtLt~p~c~~~~~L~~dV~~aL~~l~gV~~V  149 (174)
T TIGR03406        70 DGEDNEDQVWEQLRTVYDPEIPVNIVDLGLVYGCRVEKLGEGQFRVDIEMTLTAPGCGMGPVLVEDVEDKVLAVPNVDEV  149 (174)
T ss_pred             cccccHHHHHHHHcCCCCCCCCCChHHcCCeEEEEEecccCCCCEEEEEEEeCCCCCcHHHHHHHHHHHHHHhCCCceeE
Confidence            34567899999999999999999999999999999986   223799999999999999999999999999999999999


Q ss_pred             EEEEEeCCCCch
Q 016622          149 NVTMSAQPARPI  160 (386)
Q Consensus       149 ~v~l~~~p~~~~  160 (386)
                      +|++.++|+|..
T Consensus       150 ~V~l~~dp~W~~  161 (174)
T TIGR03406       150 EVELVFDPPWSR  161 (174)
T ss_pred             EEEEEecCCCCh
Confidence            999999999943

The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see Pfam family pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways.

>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=99.53  E-value=3.6e-13  Score=117.98  Aligned_cols=164  Identities=21%  Similarity=0.236  Sum_probs=102.3

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSG  254 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~  254 (386)
                      ++.++ |.+|+||||++.++|..+++.|++|+++|+|.+++.....+...               ....++.+++.....
T Consensus         2 ~~~~~-G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D~~~~~~~~~l~~~---------------~~~~~~~~~~~~~~~   65 (173)
T cd03115           2 VILLV-GLQGVGKTTTAAKLALYLKKKGKKVLLVAADTYRPAAIEQLRVL---------------GEQVGVPVFEEGEGK   65 (173)
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCChHHHHHHHHh---------------cccCCeEEEecCCCC
Confidence            45555 99999999999999999999999999999999876553322110               011245555532211


Q ss_pred             CcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh---HHHhh---hhhcCCCeEEEEeCCCcchHHHHHHHHHH
Q 016622          255 QGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD---IQLTL---CQVVPLTAAVIVTTPQKLAFIDVAKGVRM  328 (386)
Q Consensus       255 ~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~---~~~~~---~~~~~~d~vviV~~~~~~s~~~~~~~~~~  328 (386)
                               .....+.+.+....+..||+||||+++....   ....+   ......|.+++|+.+.. .........++
T Consensus        66 ---------~~~~~~~~~~~~~~~~~~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~-~~~~~~~~~~~  135 (173)
T cd03115          66 ---------DPVSIAKRAIEHAREENFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMT-GQDAVNQAKAF  135 (173)
T ss_pred             ---------CHHHHHHHHHHHHHhCCCCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCC-ChHHHHHHHHH
Confidence                     1122232333322237899999999986531   11111   11223688999998853 33444444444


Q ss_pred             HHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          329 FSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       329 l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      .+..+  +.++|+||++.....        +..-.+.+..|+|+.+
T Consensus       136 ~~~~~--~~~viltk~D~~~~~--------g~~~~~~~~~~~p~~~  171 (173)
T cd03115         136 NEALG--ITGVILTKLDGDARG--------GAALSIRAVTGKPIKF  171 (173)
T ss_pred             HhhCC--CCEEEEECCcCCCCc--------chhhhhHHHHCcCeEe
Confidence            44545  689999999865432        2344588999998865

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.

>cd03114 ArgK-like The function of this protein family is unkown

Probab=99.52  E-value=4.3e-13  Score=114.36  Aligned_cols=146  Identities=21%  Similarity=0.265  Sum_probs=85.3

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCC-CccCCCcccccccCCCCCceeeeccCCceEEecCCCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSL-PTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSG  254 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl-~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~  254 (386)
                      |.+. |++|+||||++.+++..+.++|.||+++|+|++.+.. ..+++....+      .+..   ..+++.+.......
T Consensus         2 i~~~-G~~GsGKTt~~~~l~~~~~~~g~~v~ii~~D~~~~~~~~~~~~~~~~~------~~~~---~~~~~~~~~~~~~~   71 (148)
T cd03114           2 IGIT-GVPGAGKSTLIDALITALRARGKRVAVLAIDPSSPFSGGAILGDRIRM------ERHA---SDPGVFIRSLATRG   71 (148)
T ss_pred             EEEE-CCCCCcHHHHHHHHHHHHHHCCCEEEEEEeCCCCCCcccchhcCceEh------hhee---cCCCceEEEcCCcC
Confidence            4555 9999999999999999999999999999999865432 2222211110      0100   11344443322111


Q ss_pred             CcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCC
Q 016622          255 QGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKV  334 (386)
Q Consensus       255 ~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~  334 (386)
                      ... .. .....+.++    .++...|||||||| +|.......  .+..+|.+++|++|+......+.+. .+++... 
T Consensus        72 ~~~-~~-~~~~~~~~~----~~~~~~~D~iiIDt-aG~~~~~~~--~~~~Ad~~ivv~tpe~~D~y~~~k~-~~~~~~~-  140 (148)
T cd03114          72 FLG-GL-SRATPEVIR----VLDAAGFDVIIVET-VGVGQSEVD--IASMADTTVVVMAPGAGDDIQAIKA-GIMEIAD-  140 (148)
T ss_pred             ccc-cc-chhHHHHHH----HHHhcCCCEEEEEC-CccChhhhh--HHHhCCEEEEEECCCchhHHHHhhh-hHhhhcC-
Confidence            100 00 111222332    22225899999999 566644443  3556799999999995544444443 4455443 


Q ss_pred             CeEEEEEcCCc
Q 016622          335 PCIAVVENMCH  345 (386)
Q Consensus       335 ~i~gvVlN~~~  345 (386)
                         -+++||++
T Consensus       141 ---~~~~~k~~  148 (148)
T cd03114         141 ---IVVVNKAD  148 (148)
T ss_pred             ---EEEEeCCC
Confidence               37889864

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.

>PF01883 DUF59: Domain of unknown function DUF59; InterPro: IPR002744 This family includes prokaryotic proteins of unknown function

Probab=99.50  E-value=9.4e-14  Score=103.54  Aligned_cols=72  Identities=43%  Similarity=0.730  Sum_probs=65.2

Q ss_pred             HHHHHHHhccCCCCCCCCCccccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeEE
Q 016622           77 ENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNV  150 (386)
Q Consensus        77 ~~~i~~~L~~V~dPe~~~div~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~v  150 (386)
                      |++|+++|++|+||+++.|++++|+|+++.+++  +++.|.+.++.++|+..+.+.+++++++.+++|+.+++|
T Consensus         1 k~~V~~aL~~v~dP~~~~~iv~~g~V~~i~i~~--~~V~v~l~l~~~~~~~~~~l~~~i~~~l~~l~gv~~V~V   72 (72)
T PF01883_consen    1 KQAVRDALKQVKDPELGKDIVELGMVRDISIEG--GKVSVSLELPTPACPAAEPLREEIREALKALPGVKSVKV   72 (72)
T ss_dssp             HHHHHHHHTT-BETTTSSBTTTTTSEEEEEECT--CEEEEEE--SSTTHTTHHHHHHHHHHHHHTSTT-SEEEE
T ss_pred             CHHHHHHHhCCCCCCCCCCHHHcCCeeEEEEEC--CEEEEEEEECCCCchHHHHHHHHHHHHHHhCCCCceEeC
Confidence            689999999999999999999999999999999  899999999999999999999999999999999988765

The family also includes PhaH (O84984 from SWISSPROT) from Pseudomonas putida. PhaH forms a complex with PhaF (O84982 from SWISSPROT), PhaG (O84983 from SWISSPROT) and PhaI (O84985 from SWISSPROT), which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid []. So members of this family may all be components of ring hydroxylating complexes.; PDB: 3LNO_C 3CQ3_A 3CQ2_D 2CU6_B 3CQ1_A 3UX3_B 3UX2_A 1WCJ_A 1UWD_A.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=99.49  E-value=1.3e-12  Score=124.84  Aligned_cols=166  Identities=17%  Similarity=0.210  Sum_probs=103.8

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF  252 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~  252 (386)
                      +++|+|+ |.+|+||||++.+||..++..|++|+++|+|+++......               ........++.+++...
T Consensus       114 ~~vi~lv-GpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eq---------------l~~~a~~~~i~~~~~~~  177 (318)
T PRK10416        114 PFVILVV-GVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQ---------------LQVWGERVGVPVIAQKE  177 (318)
T ss_pred             CeEEEEE-CCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHH---------------HHHHHHHcCceEEEeCC
Confidence            4699999 6999999999999999999999999999999977532100               00111122455554322


Q ss_pred             CCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh-HH-----Hhhhhh------cCCCeEEEEeCCCcchHH
Q 016622          253 SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD-IQ-----LTLCQV------VPLTAAVIVTTPQKLAFI  320 (386)
Q Consensus       253 ~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~-~~-----~~~~~~------~~~d~vviV~~~~~~s~~  320 (386)
                      ..+.        ....++.+..... +.||+|||||||.... ..     ..+...      ...+.+++|+.+.. ...
T Consensus       178 ~~dp--------a~~v~~~l~~~~~-~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~-g~~  247 (318)
T PRK10416        178 GADP--------ASVAFDAIQAAKA-RGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATT-GQN  247 (318)
T ss_pred             CCCH--------HHHHHHHHHHHHh-CCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCC-ChH
Confidence            1111        1112222222222 7899999999987641 11     111111      13577888888874 445


Q ss_pred             HHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          321 DVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       321 ~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ++.+...+.+.  .++.|+|+|+.+....+        +..-.+...+++|+..
T Consensus       248 ~~~~a~~f~~~--~~~~giIlTKlD~t~~~--------G~~l~~~~~~~~Pi~~  291 (318)
T PRK10416        248 ALSQAKAFHEA--VGLTGIILTKLDGTAKG--------GVVFAIADELGIPIKF  291 (318)
T ss_pred             HHHHHHHHHhh--CCCCEEEEECCCCCCCc--------cHHHHHHHHHCCCEEE
Confidence            55555444433  35679999999854421        4667778888999864

>PF10609 ParA: ParA/MinD ATPase like; InterPro: IPR019591 This entry represents ATPases involved in plasmid partitioning []

Probab=99.49  E-value=1.2e-13  Score=103.38  Aligned_cols=77  Identities=56%  Similarity=0.971  Sum_probs=60.5

Q ss_pred             cEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCC--CceecccCC
Q 016622          282 DYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDAD--GKRYYPFGR  358 (386)
Q Consensus       282 D~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~--~~~~~~~~~  358 (386)
                      ||+|||+|||++|.++++.+....+++++|++|+..+..+++|.++++++.+++++|+|.||..+.+.  ++..+.|++
T Consensus         2 D~LiiD~PPGTgD~~l~~~~~~~~~g~ivVTTPq~la~~dv~r~~~~~~~~~vpilGvVENMs~~~Cp~Cg~~~~iFg~   80 (81)
T PF10609_consen    2 DYLIIDLPPGTGDEHLTLMQYLPIDGAIVVTTPQELALADVRRAIDMFRKLNVPILGVVENMSYFVCPHCGERIYIFGK   80 (81)
T ss_dssp             CEEEEE--SCSSSHHHHHHHHH--SEEEEEE-CCC--HHHHHHHHHHHHCTT-EEEEEEECT-EEE-TTT--EEETTTT
T ss_pred             CEEEEeCCCCCCcHHHHHHHhCCCCeEEEEeCCHHHHHHHHHHHHHHHHhcCCCcEEEEECCCccCCCCCCCeecCCCC
Confidence            89999999999999999999999999999999999999999999999999999999999999988773  566666765

It also contains cytosolic Fe-S cluster assembling factors, NBP35 and CFD1 which are required for biogenesis and export of both ribosomal subunits probably through assembling the ISCs in RLI1, a protein which performs rRNA processing and ribosome export [, , ].; PDB: 2PH1_A 3KB1_B.

>PRK00090 bioD dithiobiotin synthetase; Reviewed

Probab=99.46  E-value=4.4e-13  Score=122.29  Aligned_cols=193  Identities=14%  Similarity=0.055  Sum_probs=112.7

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccc-cccCCCCCceeeeccCCceEEecCCCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL-LEMNPEKRTIIPTEYLGVKLVSFGFSG  254 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~-~~~~~~~~~i~~~~~~~l~vl~~~~~~  254 (386)
                      |.|++.-.|+|||+++++|+..|+++|++|.++..=..+..-. ....+... .........  ......+ .+......
T Consensus         2 i~I~~t~t~~GKT~vs~~L~~~l~~~g~~v~~~KPv~~g~~~~-~~~~d~~~~~~~~~~~~~--~~~~~~~-~~~~~~sp   77 (222)
T PRK00090          2 LFVTGTDTDVGKTVVTAALAQALREAGYSVAGYKPVQSGCEET-DRNGDALALQRLSGLPLD--YEDVNPY-RFEEPLSP   77 (222)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHHHcCCceEEEeeEecCCCCC-CCcHHHHHHHHHcCCCCC--hhhcCce-eeCCCCCH
Confidence            6789999999999999999999999999999976322111100 00000000 000000000  0000011 11111000


Q ss_pred             CcccccCC-chHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHH------HhhhhhcCCCeEEEEeCCCcchHHHHHHHHH
Q 016622          255 QGRAIMRG-PMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQ------LTLCQVVPLTAAVIVTTPQKLAFIDVAKGVR  327 (386)
Q Consensus       255 ~~~~~~~~-~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~------~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~  327 (386)
                      .......+ ....+.+.+.++.+. ++||+||||++++.....      ..++... -..+++|+.++..++.++...++
T Consensus        78 ~~a~~~~~~~~~~~~i~~~~~~l~-~~~D~viIEg~gg~~~~~~~~~~~adl~~~l-~~pvilV~~~~~~~i~~~~~~i~  155 (222)
T PRK00090         78 HLAAALEGVAIDLEKISAALRRLA-QQYDLVLVEGAGGLLVPLTEDLTLADLAKQL-QLPVILVVGVKLGCINHTLLTLE  155 (222)
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHH-hhCCEEEEECCCceeccCCCCCcHHHHHHHh-CCCEEEEECCCCcHHHHHHHHHH
Confidence            00000010 111233444444444 789999999998753111      1111111 13588999999888988999999


Q ss_pred             HHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCC
Q 016622          328 MFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIR  379 (386)
Q Consensus       328 ~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d  379 (386)
                      .+++.+.++.|+|+|+++....     .+.+...+.+.+.+++|+++.||+-
T Consensus       156 ~l~~~~~~i~gvIlN~~~~~~~-----~~~~~~~~~l~~~~gi~vlg~ip~~  202 (222)
T PRK00090        156 AIRARGLPLAGWVANGIPPEPG-----LRHAENLATLERLLPAPLLGELPYL  202 (222)
T ss_pred             HHHHCCCCeEEEEEccCCCcch-----hHHHHHHHHHHHHcCCCeEEecCCC
Confidence            9988899999999999876411     1122457788889999999999984

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=99.38  E-value=1.1e-11  Score=119.38  Aligned_cols=169  Identities=15%  Similarity=0.158  Sum_probs=109.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF  252 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~  252 (386)
                      +++|+|+ |.+|+||||+++.||..+..+|++|+++++|+++......+               .......++.++... 
T Consensus       241 ~~vI~LV-GptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQL---------------k~yae~lgipv~v~~-  303 (436)
T PRK11889        241 VQTIALI-GPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQL---------------QDYVKTIGFEVIAVR-  303 (436)
T ss_pred             CcEEEEE-CCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHH---------------HHHhhhcCCcEEecC-
Confidence            4688988 66999999999999999999999999999999873321100               001111244444311 


Q ss_pred             CCCcccccCCchHHHHHHHHHHhcC-CCCCcEEEEcCCCCCChHHH------hhhhhcCCCeEEEEeCCCcchHHHHHHH
Q 016622          253 SGQGRAIMRGPMVSGVINQLLTTTE-WGELDYLVIDMPPGTGDIQL------TLCQVVPLTAAVIVTTPQKLAFIDVAKG  325 (386)
Q Consensus       253 ~~~~~~~~~~~~~~~~l~~ll~~~~-~~~yD~VIIDtpp~~~~~~~------~~~~~~~~d~vviV~~~~~~s~~~~~~~  325 (386)
                              ...    .+.+.+..+. ..+||+|||||++.......      .+......+.+++|+.+.. .-+++...
T Consensus       304 --------d~~----~L~~aL~~lk~~~~~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATt-k~~d~~~i  370 (436)
T PRK11889        304 --------DEA----AMTRALTYFKEEARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASM-KSKDMIEI  370 (436)
T ss_pred             --------CHH----HHHHHHHHHHhccCCCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCcc-ChHHHHHH
Confidence                    111    2223333332 13699999999976532111      1111223467888876643 44666777


Q ss_pred             HHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE-----ecCCChh
Q 016622          326 VRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF-----DLPIRPT  381 (386)
Q Consensus       326 ~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~-----~IP~d~~  381 (386)
                      ++.|+.  .++-|+|+.+.+....        .+.+-.+...+++|+..     .+|.|-.
T Consensus       371 ~~~F~~--~~idglI~TKLDET~k--------~G~iLni~~~~~lPIsyit~GQ~VPeDI~  421 (436)
T PRK11889        371 ITNFKD--IHIDGIVFTKFDETAS--------SGELLKIPAVSSAPIVLMTDGQDVKKNIH  421 (436)
T ss_pred             HHHhcC--CCCCEEEEEcccCCCC--------ccHHHHHHHHHCcCEEEEeCCCCCCcchh
Confidence            888876  5668999999886552        25677888899999874     5787744

>TIGR00347 bioD dethiobiotin synthase

Probab=99.38  E-value=3.2e-12  Score=111.15  Aligned_cols=155  Identities=18%  Similarity=0.177  Sum_probs=90.9

Q ss_pred             EEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc--c-cccCCCCCceeeeccCCceEEecCCCC
Q 016622          178 VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR--L-LEMNPEKRTIIPTEYLGVKLVSFGFSG  254 (386)
Q Consensus       178 v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~--~-~~~~~~~~~i~~~~~~~l~vl~~~~~~  254 (386)
                      |++..+|+||||++.+||.+|+++|+||++++....+..     +.+.+  . ........  .+....++ ....+...
T Consensus         2 I~~t~~~~GKT~va~~L~~~l~~~g~~V~~~kP~~~~~~-----~~d~d~~~i~~~~~~~~--~~~~~~~~-~~~~~~~p   73 (166)
T TIGR00347         2 VTGTDTGVGKTVASSALAAKLKKAGYSVGYYKPVQTGIE-----KTNSDALLLQNISGTAL--DWDEVNPY-AFALPLSP   73 (166)
T ss_pred             eecCCCCccHHHHHHHHHHHHHHCCCcEEEEEeeeeCCC-----CCchHHHHHHHHcCCCC--chhccCCe-eeCCCCCh
Confidence            678999999999999999999999999999865443211     00000  0 00000000  00000011 01000000


Q ss_pred             CcccccCC-chHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHH
Q 016622          255 QGRAIMRG-PMVSGVINQLLTTTEWGELDYLVIDMPPGTGD------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVR  327 (386)
Q Consensus       255 ~~~~~~~~-~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~  327 (386)
                      .......+ +.....+.+.++.+. ++||+||||+|++...      ....+.... .+.+++|+.+...++.++....+
T Consensus        74 ~~~~~~~~~~~~~~~i~~~~~~l~-~~~D~viid~~g~~~~~~~~~~~~~dl~~~~-~~~vilV~~~~~~~~~~~~~~~~  151 (166)
T TIGR00347        74 HIAADQEGRPIDLEELSKHLRTLE-QKYDFVLVEGAGGLCVPITEEYTTADLIKLL-QLPVILVVRVKLGTINHTLLTVE  151 (166)
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHH-hcCCEEEEEcCCccccCCCCCCcHHHHHHHh-CCCEEEEECCCCcHHHHHHHHHH
Confidence            00011111 111223444444444 7899999999986431      111122222 36789999999999999999999


Q ss_pred             HHHcCCCCeEEEEEc
Q 016622          328 MFSKLKVPCIAVVEN  342 (386)
Q Consensus       328 ~l~~~~~~i~gvVlN  342 (386)
                      .+++.+.++.|+|+|
T Consensus       152 ~l~~~~~~i~gvv~N  166 (166)
T TIGR00347       152 HARQTGLTLAGVILN  166 (166)
T ss_pred             HHHHCCCCeEEEEeC
Confidence            999999999999998

Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.

>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

Probab=99.34  E-value=5.4e-12  Score=102.91  Aligned_cols=111  Identities=31%  Similarity=0.357  Sum_probs=69.6

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCC--
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFS--  253 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~--  253 (386)
                      |+++ +|||+||||++.+||..++++|++|+++|+|+  +++...++....                ....++-.+..  
T Consensus         2 i~~~-GkgG~GKTt~a~~la~~l~~~g~~V~~id~D~--~~~~~~~~~~~~----------------~~~~~i~~g~~~~   62 (116)
T cd02034           2 IAIT-GKGGVGKTTIAALLARYLAEKGKPVLAIDADP--DDLPERLSVEVG----------------EIKLLLVMGMGRP   62 (116)
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHHHHCCCcEEEEECCc--hhhHHHHhhccC----------------CceEEEEeccccc
Confidence            4555 89999999999999999999999999999999  333322221110                11111211211  


Q ss_pred             -CCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEE
Q 016622          254 -GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIV  311 (386)
Q Consensus       254 -~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV  311 (386)
                       ........+    ..+++++..+....|||+|+||++|+......+  ...+|.+++|
T Consensus        63 ~~~g~~~~~n----~~~~~~l~~~~~~~~~~vivDt~ag~e~~~~~~--~~~~d~vv~v  115 (116)
T cd02034          63 GGEGCYCPEN----ALLNALLRHLVLTRDEQVVVDTEAGLEHLGRGT--AEGVDLLVVV  115 (116)
T ss_pred             CCCCCEehhh----HHHHHHHHHeEccCCCEEEEecHHHHHHHHhhc--cccCCEEEEe
Confidence             122222221    255666666533899999999999987544433  3356777776

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.

>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.33  E-value=2.7e-12  Score=121.08  Aligned_cols=246  Identities=16%  Similarity=0.162  Sum_probs=147.1

Q ss_pred             CcccHHHHHHHhccCCCCCCCCCccccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeEEEE
Q 016622           73 TGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTM  152 (386)
Q Consensus        73 ~~~~~~~i~~~L~~V~dPe~~~div~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~v~l  152 (386)
                      +...+..+...|++|+.+.|..||= ..+|.+++.+-  . -.+...--..|.-....+.+.+.+.|..+.+-....   
T Consensus        21 t~~~~~~l~~~L~eI~~ALLesDV~-~~lV~~l~~ni--r-~~i~~~~~~~G~nk~r~i~~~vf~eL~kl~dp~~~~---   93 (483)
T KOG0780|consen   21 TSIDETALNTMLKEICRALLESDVN-PRLVKELRENI--R-KIINLEKLASGVNKRRIIQKAVFDELVKLLDPGKSA---   93 (483)
T ss_pred             CcchHHHHHHHHHHHHHHHHhccCC-HHHHHHHHHHH--H-HHhchhhhccccCHHHHHHHHHHHHHHHHhCCCCcc---
Confidence            3457788899999999999988872 33333332211  0 001111112334447788888999887764321111   


Q ss_pred             EeCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCC
Q 016622          153 SAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNP  232 (386)
Q Consensus       153 ~~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~  232 (386)
                       +.            .-++.+.+|.|+ +-.|+||||++..||+++.++|+||+||-+|..++..-..+..         
T Consensus        94 -~~------------~~K~kpsVimfV-GLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkq---------  150 (483)
T KOG0780|consen   94 -LQ------------PKKGKPSVIMFV-GLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQ---------  150 (483)
T ss_pred             -cc------------cccCCCcEEEEE-eccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHH---------
Confidence             11            112345689998 8899999999999999999999999999999988654221111         


Q ss_pred             CCCceeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC------hHHHhhhhhcCCC
Q 016622          233 EKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG------DIQLTLCQVVPLT  306 (386)
Q Consensus       233 ~~~~i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~------~~~~~~~~~~~~d  306 (386)
                            .....++.+...+...++     -....+-++++.    .+.||+||+||.+...      +....+......|
T Consensus       151 ------nA~k~~iP~ygsyte~dp-----v~ia~egv~~fK----ke~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd  215 (483)
T KOG0780|consen  151 ------NATKARVPFYGSYTEADP-----VKIASEGVDRFK----KENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPD  215 (483)
T ss_pred             ------HhHhhCCeeEecccccch-----HHHHHHHHHHHH----hcCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCC
Confidence                  011112323221111111     122344555555    3899999999997653      2222333344569


Q ss_pred             eEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          307 AAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       307 ~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      .+++|.++...  +.+....+.|++ .+.+-++|+++.+....+        +..-...+..+.|+..
T Consensus       216 ~vi~VmDasiG--Qaae~Qa~aFk~-~vdvg~vIlTKlDGhakG--------GgAlSaVaaTksPIiF  272 (483)
T KOG0780|consen  216 EIIFVMDASIG--QAAEAQARAFKE-TVDVGAVILTKLDGHAKG--------GGALSAVAATKSPIIF  272 (483)
T ss_pred             eEEEEEecccc--HhHHHHHHHHHH-hhccceEEEEecccCCCC--------CceeeehhhhCCCEEE
Confidence            99999887664  344444555544 366788999998865532        1222334456666653

>PF13500 AAA_26: AAA domain; PDB: 3OF5_A 2IOJ_A 4A0G_B 4A0R_A 4A0H_B 4A0F_B 3FMI_C 3FPA_D 3FMF_C 3FGN_A

Probab=99.32  E-value=9.8e-12  Score=111.44  Aligned_cols=189  Identities=18%  Similarity=0.232  Sum_probs=112.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccccc-ccCCCCCceeeeccCCceEEecCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLL-EMNPEKRTIIPTEYLGVKLVSFGF  252 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~-~~~~~~~~i~~~~~~~l~vl~~~~  252 (386)
                      |.|.|++...|+|||+++..|+.+|.++|.||.++..=.++...    +.+.... .......   +........+....
T Consensus         1 r~i~I~~t~t~vGKT~vslgL~~~l~~~g~~v~~~KPi~~~~~~----d~d~~~~~~~~~~~~---~~~~~~~~~~~~~~   73 (199)
T PF13500_consen    1 RTIFITGTDTGVGKTVVSLGLARALRRRGIKVGYFKPIQTGPED----DEDAELIRELFGLSE---PPDDPSPYTFDEPA   73 (199)
T ss_dssp             -EEEEEESSSSSSHHHHHHHHHHHHHHTTSEEEEEEEEEESCCC----SSHHHHHHHHCCTCC---CHHHHECEEESSSS
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHHHHhCCCceEEEeeeEecCCC----CchHHHHHHHhCCCc---ccccccccccCccc
Confidence            47899999999999999999999999999999988753323221    0000000 0000000   00000111111110


Q ss_pred             CCCcccccCCchHHHHHHHH-HHhcCCCCCcEEEEcCCCCCCh------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHH
Q 016622          253 SGQGRAIMRGPMVSGVINQL-LTTTEWGELDYLVIDMPPGTGD------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKG  325 (386)
Q Consensus       253 ~~~~~~~~~~~~~~~~l~~l-l~~~~~~~yD~VIIDtpp~~~~------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~  325 (386)
                      ...-.....+  ....++++ ++.+. +.+|++||+...+...      ....++.... ..+++|+.....++.++...
T Consensus        74 ~~~~~~~~~~--~~~~~~~i~~~~l~-~~~D~vlVEGag~~~~~~~~~~~n~dia~~L~-a~vIlV~~~~~g~i~~~l~~  149 (199)
T PF13500_consen   74 SPHLAAELEG--VDIDLERIIYKELA-EEYDVVLVEGAGGLMVPIFSGDLNADIAKALG-APVILVASGRLGTINHTLLT  149 (199)
T ss_dssp             -HHHHHHHHT------HHHHHHHHCH-TTTCEEEEEESSSTTSECCTTEEHHHHHHHHT--EEEEEEESSTTHHHHHHHH
T ss_pred             CHHHHhhccC--CcccHHHHHHHHHh-hcCCEEEEeCCcccCcccccChHHHHHHHHcC-CCEEEEeCCCCCCHHHHHHH
Confidence            0000000000  01113333 34444 7999999999887641      2222333333 35888888888899999999


Q ss_pred             HHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhh
Q 016622          326 VRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSY  384 (386)
Q Consensus       326 ~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~  384 (386)
                      ++.+++.|.++.|+|+|++...           ...+.+.+..++|++|.||+++.+..
T Consensus       150 ~~~~~~~g~~v~GvI~N~~~~~-----------~~~~~l~~~~~i~vlg~iP~~~~L~~  197 (199)
T PF13500_consen  150 IEALKQRGIRVLGVILNRVPEP-----------ENLEALREKSGIPVLGVIPEDPDLSA  197 (199)
T ss_dssp             HHHHHCTTS-EEEEEEEECTCC-----------HHHHHHHHHHCCEECE---SSTT---
T ss_pred             HHHHHhcCCCEEEEEEECCCCH-----------HHHHHHHHhCCCCEEEECCCCccccc
Confidence            9999999999999999996543           25788999999999999999998764

...

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=99.32  E-value=2.3e-11  Score=95.06  Aligned_cols=94  Identities=40%  Similarity=0.596  Sum_probs=74.4

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQ  255 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~~  255 (386)
                      |+++ +++|+||||++.+||..|++.|++|+++|                                              
T Consensus         2 ~~~~-g~~G~Gktt~~~~l~~~l~~~g~~v~~~~----------------------------------------------   34 (99)
T cd01983           2 IVVT-GKGGVGKTTLAANLAAALAKRGKRVLLID----------------------------------------------   34 (99)
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHHHHCCCeEEEEC----------------------------------------------
Confidence            4444 77799999999999999999999999999                                              


Q ss_pred             cccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHH-hhhhhcCCCeEEEEeCCCcchHHHHHHHHH---HHHc
Q 016622          256 GRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL-TLCQVVPLTAAVIVTTPQKLAFIDVAKGVR---MFSK  331 (386)
Q Consensus       256 ~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~-~~~~~~~~d~vviV~~~~~~s~~~~~~~~~---~l~~  331 (386)
                                                |+||+|++++...... .......+|.+++|+.++..++....+..+   ....
T Consensus        35 --------------------------d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~~~~~~~~~~~~~~~~~~~~~~   88 (99)
T cd01983          35 --------------------------DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTTPEALAVLGARRLTEVVLELAI   88 (99)
T ss_pred             --------------------------CEEEEeCCCCccchhhhhhhhhhhCCEEEEecCCchhhHHHHHHHHHHHHHhhc
Confidence                                      9999999998875541 022244679999999999999998888854   3333


Q ss_pred             CCCCeEEEEEc
Q 016622          332 LKVPCIAVVEN  342 (386)
Q Consensus       332 ~~~~i~gvVlN  342 (386)
                      .+....++|+|
T Consensus        89 ~~~~~~~vv~N   99 (99)
T cd01983          89 EGLRPVGVVVN   99 (99)
T ss_pred             cCCceEEEEeC
Confidence            45667788877

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>PRK13886 conjugal transfer protein TraL; Provisional

Probab=99.31  E-value=4.1e-11  Score=109.25  Aligned_cols=48  Identities=31%  Similarity=0.378  Sum_probs=44.3

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCc
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPT  219 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~  219 (386)
                      |++++.|.++|||+||||+|++||.+++++|++|+++|+|++++++..
T Consensus         1 m~~i~~i~~~KGGvGKSt~a~~la~~l~~~g~~vl~iD~D~~n~~~~~   48 (241)
T PRK13886          1 MAKIHMVLQGKGGVGKSFIAATIAQYKASKGQKPLCIDTDPVNATFEG   48 (241)
T ss_pred             CCeEEEEecCCCCCcHHHHHHHHHHHHHhCCCCEEEEECCCCCchhhh
Confidence            568999999999999999999999999999999999999999876543

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=99.31  E-value=7.1e-11  Score=113.61  Aligned_cols=168  Identities=17%  Similarity=0.213  Sum_probs=103.3

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF  252 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~  252 (386)
                      .++|+|++. .|+||||++++||..+.++|++|++|++|+++......+.      .         .....++.+.... 
T Consensus       206 ~~ii~lvGp-tGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk------~---------yae~lgvpv~~~~-  268 (407)
T PRK12726        206 HRIISLIGQ-TGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQ------G---------YADKLDVELIVAT-  268 (407)
T ss_pred             CeEEEEECC-CCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHH------H---------HhhcCCCCEEecC-
Confidence            568999854 6999999999999999999999999999998754311110      0         0011133222110 


Q ss_pred             CCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC--hHHH----hhhhhcCCCeEEEEeCCCcchHHHHHHHH
Q 016622          253 SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG--DIQL----TLCQVVPLTAAVIVTTPQKLAFIDVAKGV  326 (386)
Q Consensus       253 ~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~--~~~~----~~~~~~~~d~vviV~~~~~~s~~~~~~~~  326 (386)
                              ....+...++.+..   .+.||+|||||++...  ...+    .+......+.+++|..++. ...++...+
T Consensus       269 --------dp~dL~~al~~l~~---~~~~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag~-~~~d~~~i~  336 (407)
T PRK12726        269 --------SPAELEEAVQYMTY---VNCVDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSGM-KSADVMTIL  336 (407)
T ss_pred             --------CHHHHHHHHHHHHh---cCCCCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCCcc-cHHHHHHHH
Confidence                    11112223333221   1579999999998643  1111    1111223466677776643 445555666


Q ss_pred             HHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE-----ecCCC
Q 016622          327 RMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF-----DLPIR  379 (386)
Q Consensus       327 ~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~-----~IP~d  379 (386)
                      +.++.  +++-|+|+++.+....        .+.+-.+...+|+|+.+     .||.|
T Consensus       337 ~~f~~--l~i~glI~TKLDET~~--------~G~~Lsv~~~tglPIsylt~GQ~VpdD  384 (407)
T PRK12726        337 PKLAE--IPIDGFIITKMDETTR--------IGDLYTVMQETNLPVLYMTDGQNITEN  384 (407)
T ss_pred             HhcCc--CCCCEEEEEcccCCCC--------ccHHHHHHHHHCCCEEEEecCCCCCcc
Confidence            66554  5668999999987553        15677888899999874     46654

>PRK12374 putative dithiobiotin synthetase; Provisional

Probab=99.30  E-value=9.2e-11  Score=107.66  Aligned_cols=194  Identities=16%  Similarity=0.124  Sum_probs=114.0

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccC-CC-cccccccCCCCCceeeeccCCce--E
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMV-SP-ENRLLEMNPEKRTIIPTEYLGVK--L  247 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~l-g~-~~~~~~~~~~~~~i~~~~~~~l~--v  247 (386)
                      |++.|.|++.-.|+|||++++.|+..|.++|++|.++..=..+  ....- +. +.+..........  +.....+.  .
T Consensus         1 m~~~ifIt~t~t~vGKT~vt~~L~~~l~~~g~~v~~~KPi~~g--~~~~~~~~~~~D~~~l~~~~~~--~~~~~~~~p~~   76 (231)
T PRK12374          1 MLKRFFITGTDTSVGKTVVSRALLQALASQGKTVAGYKPVAKG--SKETPEGLRNKDALVLQSVSSI--ELPYEAVNPIA   76 (231)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEECccccC--CccCCCCCchHHHHHHHHhcCC--CCCHHhccCee
Confidence            4567999999999999999999999999999999998653222  11000 00 0000000000000  00000000  1


Q ss_pred             EecCCCCCcccccCCch-HHHHHHHHHHhcCCCCCcEEEEcCCCCCChH------HHhhhhhcCCCeEEEEeCCCcchHH
Q 016622          248 VSFGFSGQGRAIMRGPM-VSGVINQLLTTTEWGELDYLVIDMPPGTGDI------QLTLCQVVPLTAAVIVTTPQKLAFI  320 (386)
Q Consensus       248 l~~~~~~~~~~~~~~~~-~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~------~~~~~~~~~~d~vviV~~~~~~s~~  320 (386)
                      +.....   ........ ..+. .+.++.+. ++||+||||+.+|+...      ..... ...--.+++|+.....++.
T Consensus        77 ~~~~~a---~~~~~~~i~~~~i-~~~~~~l~-~~~D~VlVEGaGgl~~p~~~~~~~~d~~-~~~~~pvilV~~~~lg~in  150 (231)
T PRK12374         77 LSEEES---SVAHSCPINYTLM-SNGLANLS-EKVDHVVVEGTGGWRSLMNDLRPLSEWV-VQEQLPVLMVVGIQEGCIN  150 (231)
T ss_pred             cCCCcC---hHHcCCcCCHHHH-HHHHHHHH-hhCCEEEEECCCCcceeccCcccHHHHH-HHhCCCEEEEECCCcChHH
Confidence            111110   00111111 1222 33333344 79999999999855311      11111 1112458888888888888


Q ss_pred             HHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChh
Q 016622          321 DVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPT  381 (386)
Q Consensus       321 ~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~  381 (386)
                      ++.-..+.++..++++.|+|+|+++....      ......+.+.+..++|+++.||+.+.
T Consensus       151 ~~lLt~~~l~~~~~~~~gvV~N~~~~~~~------~~~~~~~~l~~~~~~~~lg~iP~~~~  205 (231)
T PRK12374        151 HALLTAQAIANDGLPLIGWVANRINPGLA------HYAEIIDVLGKKLPAPLIGELPYLPR  205 (231)
T ss_pred             HHHHHHHHHHhCCCcEEEEEEeCccCchh------hhhhHHHHHHHhcCCCEEEEeCCCCC
Confidence            99999999999999999999999875321      11133567777889999999999754

>PRK01077 cobyrinic acid a,c-diamide synthase; Validated

Probab=99.29  E-value=5.5e-11  Score=119.52  Aligned_cols=172  Identities=19%  Similarity=0.199  Sum_probs=104.7

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF  252 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~  252 (386)
                      ++.|.|+++++|+||||++++|+++|+++|++|..+...+...        +.....      .+......+++...   
T Consensus         3 m~~i~I~gt~s~~GKT~it~~L~~~L~~~G~~V~~fK~Gpd~~--------d~~~~~------~~~g~~~~~ld~~~---   65 (451)
T PRK01077          3 MPALVIAAPASGSGKTTVTLGLMRALRRRGLRVQPFKVGPDYI--------DPAYHT------AATGRPSRNLDSWM---   65 (451)
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHHHHhCCCCcceeecCCCcc--------cHHHHH------HHhCCCcccCCcee---
Confidence            5689999999999999999999999999999999999854321        100000      00000001221111   


Q ss_pred             CCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh---------HHHhhhhhcCCCeEEEEeCCCcchH--HH
Q 016622          253 SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD---------IQLTLCQVVPLTAAVIVTTPQKLAF--ID  321 (386)
Q Consensus       253 ~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~---------~~~~~~~~~~~d~vviV~~~~~~s~--~~  321 (386)
                             ..    ...+.+.++.+. +.||++||+...|+.+         ....++.... .-+++|+.....+.  ..
T Consensus        66 -------~~----~~~v~~~~~~~~-~~~D~vlVEGagGl~~g~~~~~~~~s~adiA~~l~-~pviLV~~~~~~~~~~a~  132 (451)
T PRK01077         66 -------MG----EELVRALFARAA-QGADIAVIEGVMGLFDGAGSDPDEGSTADIAKLLG-APVVLVVDASGMAQSAAA  132 (451)
T ss_pred             -------CC----HHHHHHHHHHhc-ccCCEEEEECCCccccCCccCCCCCCHHHHHHHhC-CCEEEEECCchHHHHHHH
Confidence                   11    234444454444 7899999988865532         1223333333 34777777665332  23


Q ss_pred             HHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhh
Q 016622          322 VAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVS  383 (386)
Q Consensus       322 ~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~  383 (386)
                      +...+..+ ..++++.|+|+|++.....        .....+..+..|+|+++.||+++.+.
T Consensus       133 l~~~~~~~-~~~i~i~GvI~N~v~~~~~--------~~~l~~~l~~~gipvLG~IP~~~~l~  185 (451)
T PRK01077        133 LVLGFATF-DPDVRIAGVILNRVGSERH--------YQLLREALERCGIPVLGALPRDAALA  185 (451)
T ss_pred             HHHHHHHh-CCCCCEEEEEEECCCChhH--------HHHHHHHHHhcCCCEEEEeeCCcccC
Confidence            33333334 2378999999999864321        02234455558999999999998763

>TIGR02945 SUF_assoc FeS assembly SUF system protein

Probab=99.29  E-value=2.9e-11  Score=95.89  Aligned_cols=83  Identities=27%  Similarity=0.566  Sum_probs=77.4

Q ss_pred             HHHHHHHhccCCCCCCCCCccccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeEEEEEeCC
Q 016622           77 ENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQP  156 (386)
Q Consensus        77 ~~~i~~~L~~V~dPe~~~div~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~v~l~~~p  156 (386)
                      +++|+++|++|+||+++.+++++|+|+++.++++ +.+.|.+.++.++|+..+.+.+.+++++..++|++++++++...+
T Consensus         3 ~~~I~~~L~~v~dP~l~~~lv~~g~V~~i~v~~~-~~v~i~l~l~~p~~~~~~~l~~~i~~al~~l~gv~~v~v~i~~~~   81 (99)
T TIGR02945         3 KDAVIEALKTVYDPEIPVNIYELGLIYDIDVDDD-GHVDIQMTLTAPNCPVAGSMPGEVENAVRAVPGVGSVTVELVWDP   81 (99)
T ss_pred             HHHHHHHHcCCCCCCCCCCeecCCCeeEEEECCC-CeEEEEEEECCCCCChHHHHHHHHHHHHHhCCCCceEEEEEEeeC
Confidence            5789999999999999999999999999999842 689999999999999999999999999999999999999999999


Q ss_pred             CCch
Q 016622          157 ARPI  160 (386)
Q Consensus       157 ~~~~  160 (386)
                      +|..
T Consensus        82 ~~~~   85 (99)
T TIGR02945        82 PWTP   85 (99)
T ss_pred             CCCh
Confidence            9843

Members of this family belong to the broader Pfam family pfam01883, or Domain of Unknown Function DUF59. Many members of DUF59 are candidate ring hydroxylating complex subunits. However, members of the narrower family defined here all are found in genomes that carry the FeS assembly SUF system. For 70 % of these species, the member of this protein family is found as part of the SUF locus, usually immediately downstream of the sufS gene.

>PRK14974 cell division protein FtsY; Provisional

Probab=99.29  E-value=6.1e-11  Score=113.86  Aligned_cols=245  Identities=19%  Similarity=0.252  Sum_probs=141.2

Q ss_pred             ccHHHHHHHhccCCCCCCCCCc---cccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeEEE
Q 016622           75 TAENDVLKALSQIIDPDFGTDI---VSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVT  151 (386)
Q Consensus        75 ~~~~~i~~~L~~V~dPe~~~di---v~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~v~  151 (386)
                      ++++++.+.|++++.-.+..||   +...++..++..-.      .-... .+....+.+.+.+++.+..+.+... .++
T Consensus        58 ~~~~~~~~~l~~l~~~Ll~~dv~~~~a~~i~~~~~~~~~------~~~~~-~~~~~~~~~~~~l~~~l~~~l~~~~-~~~  129 (336)
T PRK14974         58 IKEKDIEDLLEELELELLESDVALEVAEEILESLKEKLV------GKKVK-RGEDVEEIVKNALKEALLEVLSVGD-LFD  129 (336)
T ss_pred             cCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHh------hccCC-CccCHHHHHHHHHHHHHHHHhCCCc-chh
Confidence            7899999999999988888887   33455555432210      01111 1122245566777777766543211 000


Q ss_pred             EEeCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccC
Q 016622          152 MSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMN  231 (386)
Q Consensus       152 l~~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~  231 (386)
                      +.         ..  ....+.+++|+|+ |.+|+||||++++||..|.+.|++|+++++|.++......+          
T Consensus       130 ~~---------~~--~~~~~~~~vi~~~-G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL----------  187 (336)
T PRK14974        130 LI---------EE--IKSKGKPVVIVFV-GVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQL----------  187 (336)
T ss_pred             hh---------hh--hhccCCCeEEEEE-cCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHH----------
Confidence            00         00  0011234688888 79999999999999999999999999999998764321110          


Q ss_pred             CCCCceeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC-hHHH-----hhhhhcCC
Q 016622          232 PEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG-DIQL-----TLCQVVPL  305 (386)
Q Consensus       232 ~~~~~i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~-~~~~-----~~~~~~~~  305 (386)
                           .......|+.+++.....+         ....+.+.++......||+|||||++... +..+     .+......
T Consensus       188 -----~~~a~~lgv~v~~~~~g~d---------p~~v~~~ai~~~~~~~~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~p  253 (336)
T PRK14974        188 -----EEHAERLGVKVIKHKYGAD---------PAAVAYDAIEHAKARGIDVVLIDTAGRMHTDANLMDELKKIVRVTKP  253 (336)
T ss_pred             -----HHHHHHcCCceecccCCCC---------HHHHHHHHHHHHHhCCCCEEEEECCCccCCcHHHHHHHHHHHHhhCC
Confidence                 0001112344443221111         12222333333223689999999998664 2211     11112346


Q ss_pred             CeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          306 TAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       306 d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      |.+++|..+...  .++.+..+.+.+ .+++.|+|+|+.+....+        +..-.+...++.|+.+
T Consensus       254 d~~iLVl~a~~g--~d~~~~a~~f~~-~~~~~giIlTKlD~~~~~--------G~~ls~~~~~~~Pi~~  311 (336)
T PRK14974        254 DLVIFVGDALAG--NDAVEQAREFNE-AVGIDGVILTKVDADAKG--------GAALSIAYVIGKPILF  311 (336)
T ss_pred             ceEEEeeccccc--hhHHHHHHHHHh-cCCCCEEEEeeecCCCCc--------cHHHHHHHHHCcCEEE
Confidence            888888877542  344444444433 245589999999875532        4566777778888765

>cd03109 DTBS Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms

Probab=99.28  E-value=1.7e-10  Score=96.70  Aligned_cols=122  Identities=16%  Similarity=0.120  Sum_probs=95.8

Q ss_pred             CcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCCCccccc
Q 016622          181 CKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIM  260 (386)
Q Consensus       181 ~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~~~~~~~  260 (386)
                      ++| +|||+++..|+..|.++|.+|..++....                                               
T Consensus         7 ~~~-~Gkt~~~~~l~~~l~~~~~~v~~~kp~~~-----------------------------------------------   38 (134)
T cd03109           7 GTD-IGKTVATAILARALKEKGYRVAPLKPVQT-----------------------------------------------   38 (134)
T ss_pred             CCC-cCHHHHHHHHHHHHHHCCCeEEEEecCCC-----------------------------------------------
Confidence            454 99999999999999999999999987754                                               


Q ss_pred             CCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC------hHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCC
Q 016622          261 RGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG------DIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKV  334 (386)
Q Consensus       261 ~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~------~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~  334 (386)
                                          +|++||++++|+.      .....+..... ..+++|++++..++.++...++.++..|+
T Consensus        39 --------------------~d~vliEGaGg~~~p~~~~~~~~d~~~~~~-~~vllV~~~~~g~i~~a~~~~~~l~~~g~   97 (134)
T cd03109          39 --------------------YDFVLVEGAGGLCVPLKEDFTNADVAKELN-LPAILVTSAGLGSINHAFLTIEAARIKGI   97 (134)
T ss_pred             --------------------CCEEEEECCCccccCCCCCCCHHHHHHHhC-CCEEEEEcCCCCcHhHHHHHHHHHHhcCC
Confidence                                5888888887653      11122222222 34899999999999999999999999999


Q ss_pred             CeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecC
Q 016622          335 PCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLP  377 (386)
Q Consensus       335 ~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP  377 (386)
                      .+.|++.|++.....     .++ ...+.+++.+++|+++.||
T Consensus        98 ~i~gvi~N~~~~~~~-----~~~-~~~~~i~~~~gip~LG~IP  134 (134)
T cd03109          98 ILNGVLGNVIVEKEG-----LAT-LNVETIERLTGIPVLGIVP  134 (134)
T ss_pred             ceeEEEEccCCCccc-----hhh-hhHHHHHHhcCCCEEEeCC
Confidence            999999999775431     111 3578899999999999988

The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and carbon dioxide. The enzyme utilizes carbon dioxide instead of hydrogen carbonate as substrate and is dependent on ATP and divalent metal ions as cofactors.

>KOG2825 consensus Putative arsenite-translocating ATPase [Inorganic ion transport and metabolism]

Probab=99.28  E-value=1.3e-11  Score=110.36  Aligned_cols=174  Identities=20%  Similarity=0.191  Sum_probs=104.9

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCc----cc-ccccCCC-CCceeeeccCCc
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPE----NR-LLEMNPE-KRTIIPTEYLGV  245 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~----~~-~~~~~~~-~~~i~~~~~~~l  245 (386)
                      ....-.|++|||||||||.++.||..||+-+.+||+|..||.. +++..|+.+    .. +...+.. .-.|.|..  ++
T Consensus        17 ~slKwifVGGKGGVGKTTcs~sLAvqla~~r~~vLiISTDPAH-NlSDAF~qkftk~pt~V~Gf~nLfAMEIDp~~--e~   93 (323)
T KOG2825|consen   17 TSLKWIFVGGKGGVGKTTCSCSLAVQLAKVRESVLIISTDPAH-NLSDAFSQKFTKTPTKVEGFENLFAMEIDPNV--EM   93 (323)
T ss_pred             ceeeEEEEcCcCCcCccchhhHHHHHHhccCCceEEeecCccc-chHHHHHHHhcCCCccccChhhheeeecCCch--hh
Confidence            3445556679999999999999999999999999999999966 555444322    11 0000000 00000100  00


Q ss_pred             eEEe------------c--CCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHH-h------------
Q 016622          246 KLVS------------F--GFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL-T------------  298 (386)
Q Consensus       246 ~vl~------------~--~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~-~------------  298 (386)
                      .-++            .  |...+....+.+-...-.+.+.+..++.-+||.||+||+|.-....+ .            
T Consensus        94 ~~~~~m~~~~~~n~~~~g~g~l~e~~~~~Pgideamsfae~~klvk~~~F~~vVFDTAPTGHTLRlL~fP~~lek~lgKl  173 (323)
T KOG2825|consen   94 GDMPEMFGNAANNEGSDGKGMLQELANAFPGIDEAMSFAEVMKLVKGMNFDVVVFDTAPTGHTLRLLQFPTTLEKGLGKL  173 (323)
T ss_pred             hhhHHHhhcccccccccchhHHHHHHhcCCChhHHHhHHHHHHHhhccccceEEeccCCCcceehhhccchHHHHHHHHH
Confidence            0000            0  00000011122222233444555555557899999999984321000 0            


Q ss_pred             ----------hhh--------------------------------hc--CCCeEEEEeCCCcchHHHHHHHHHHHHcCCC
Q 016622          299 ----------LCQ--------------------------------VV--PLTAAVIVTTPQKLAFIDVAKGVRMFSKLKV  334 (386)
Q Consensus       299 ----------~~~--------------------------------~~--~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~  334 (386)
                                +.+                                ..  .+...+.|+.++..++.++.|+++.|.+.++
T Consensus       174 ~~l~~k~~pm~sq~~sm~g~~~~~~~~l~~kle~~~~~i~~vn~qFkdpd~TtFVcVcI~eflslyEteRliqeL~k~~i  253 (323)
T KOG2825|consen  174 LSLKNKIGPMLSQMGSMFGMEDAGADDLAGKLEELLEVIEKVNEQFKDPDCTTFVCVCIAEFLSLYETERLIQELAKQGI  253 (323)
T ss_pred             HHHHHHHHHHHHHHhhhhccccCCHHHHHHHHHHHHHHHHHHHHHcCCCCCceEEEEEHHHHHhHHHHHHHHHHHHhcCC
Confidence                      000                                00  2456888999999999999999999999999


Q ss_pred             CeEEEEEcCCcCCC
Q 016622          335 PCIAVVENMCHFDA  348 (386)
Q Consensus       335 ~i~gvVlN~~~~~~  348 (386)
                      +...+|+|+.-+..
T Consensus       254 dthnIIVNQLL~~~  267 (323)
T KOG2825|consen  254 DTHNIIVNQLLFPD  267 (323)
T ss_pred             cccceeeeeccCCC
Confidence            99999999976543

>COG0132 BioD Dethiobiotin synthetase [Coenzyme metabolism]

Probab=99.26  E-value=1.9e-10  Score=103.55  Aligned_cols=201  Identities=16%  Similarity=0.122  Sum_probs=121.9

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFG  251 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~  251 (386)
                      |++.|.|++.-.|+|||.+++.|+.+|..+|++|.....=..+..-... +.+......  ...........+.+.+...
T Consensus         1 m~~~~fVtGTDT~VGKTv~S~aL~~~l~~~g~~~~~~KPVqsG~~~~~~-~~D~~~l~~--~~~~~~~~~~~~py~f~~P   77 (223)
T COG0132           1 MMKRFFVTGTDTGVGKTVVSAALAQALKQQGYSVAGYKPVQTGSEETAE-NSDALVLQR--LSGLDLSYELINPYRFKEP   77 (223)
T ss_pred             CCceEEEEeCCCCccHHHHHHHHHHHHHhCCCeeEEECceeeCCCCCCC-CchHHHHHH--hcCCCcccccccceecCCC
Confidence            5789999999999999999999999999999999988653222111000 000000000  0000000011122222211


Q ss_pred             CCCCccccc-CCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh---HHHhhhhhcC--CCeEEEEeCCCcchHHHHHHH
Q 016622          252 FSGQGRAIM-RGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD---IQLTLCQVVP--LTAAVIVTTPQKLAFIDVAKG  325 (386)
Q Consensus       252 ~~~~~~~~~-~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~---~~~~~~~~~~--~d~vviV~~~~~~s~~~~~~~  325 (386)
                      ....-+... .-....+.+..-+..+. ..||+|||...+|+.-   ....+..+..  ..-+|+|+.....++..+.-.
T Consensus        78 ~sPhlAa~~eg~~I~~~~l~~~l~~l~-~~~d~vlVEGAGGl~vPl~~~~~~~D~~~~~~lpvILV~~~~LGtINHtlLt  156 (223)
T COG0132          78 LSPHLAAELEGRTIDLEKLSQGLRQLL-KKYDLVLVEGAGGLLVPLTEEYTFADLAVQLQLPVILVVGIKLGTINHTLLT  156 (223)
T ss_pred             CCcHHHHhhcCCcccHHHHHHHHHhhh-cccCEEEEeCCCceeeecCCcccHHHHHHHcCCCEEEEecCCccHHHHHHHH
Confidence            111111111 11122233444333444 6999999999998731   0011111111  245899999999999999999


Q ss_pred             HHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhh
Q 016622          326 VRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTV  382 (386)
Q Consensus       326 ~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i  382 (386)
                      ++.+++.|+++.|+|+|+.........      .....+.+..+.|+++.+|+-++.
T Consensus       157 ~eal~~~gl~l~G~I~n~~~~~~~~~~------~~~~~l~~~~~~p~~g~~p~~~~~  207 (223)
T COG0132         157 VEALRARGLPLAGWVANGINPELDHYA------EINATLLKRIGAPLLGIIPYLPES  207 (223)
T ss_pred             HHHHHHCCCCEEEEEEccCCCchhHHH------HHHHHHHHhcCCCccccccCCccc
Confidence            999999999999999999876543211      123367788899999999997764

>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=99.24  E-value=1.4e-10  Score=103.42  Aligned_cols=166  Identities=18%  Similarity=0.200  Sum_probs=102.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF  252 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~  252 (386)
                      +++|+++ |-.|+||||+++.||..+..+|++|.+|-+|.++......               .-...+.-|+.+.....
T Consensus         1 p~vi~lv-GptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQ---------------L~~~a~~l~vp~~~~~~   64 (196)
T PF00448_consen    1 PKVIALV-GPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQ---------------LKTYAEILGVPFYVART   64 (196)
T ss_dssp             SEEEEEE-ESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHH---------------HHHHHHHHTEEEEESST
T ss_pred             CEEEEEE-CCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHH---------------HHHHHHHhccccchhhc
Confidence            3688898 7889999999999999999889999999999988543110               00111122455443221


Q ss_pred             CCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC-hHH-----HhhhhhcCCCeEEEEeCCCcchHHHHHHHH
Q 016622          253 SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG-DIQ-----LTLCQVVPLTAAVIVTTPQKLAFIDVAKGV  326 (386)
Q Consensus       253 ~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~-~~~-----~~~~~~~~~d~vviV~~~~~~s~~~~~~~~  326 (386)
                      ..         .....+.+.++....++||+|||||++... +..     ..+......+.+++|..+... ..++....
T Consensus        65 ~~---------~~~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~-~~~~~~~~  134 (196)
T PF00448_consen   65 ES---------DPAEIAREALEKFRKKGYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMG-QEDLEQAL  134 (196)
T ss_dssp             TS---------CHHHHHHHHHHHHHHTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGG-GHHHHHHH
T ss_pred             ch---------hhHHHHHHHHHHHhhcCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccC-hHHHHHHH
Confidence            11         122333333433333689999999986443 111     122223345788888877764 34555566


Q ss_pred             HHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          327 RMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       327 ~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ++.+..++  -++|+.|.+.....        +..-.+....+.|+..
T Consensus       135 ~~~~~~~~--~~lIlTKlDet~~~--------G~~l~~~~~~~~Pi~~  172 (196)
T PF00448_consen  135 AFYEAFGI--DGLILTKLDETARL--------GALLSLAYESGLPISY  172 (196)
T ss_dssp             HHHHHSST--CEEEEESTTSSSTT--------HHHHHHHHHHTSEEEE
T ss_pred             HHhhcccC--ceEEEEeecCCCCc--------ccceeHHHHhCCCeEE
Confidence            66655544  58999998865421        4566778888888764

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 ....

>PRK13768 GTPase; Provisional

Probab=99.24  E-value=4.1e-11  Score=111.38  Aligned_cols=45  Identities=29%  Similarity=0.256  Sum_probs=39.2

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSL  217 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl  217 (386)
                      |+++|.|+ |+||+||||++.+++.+++.+|++|++||+|++...+
T Consensus         1 ~~~~i~v~-G~~G~GKTt~~~~~~~~l~~~g~~v~~i~~D~~~~~~   45 (253)
T PRK13768          1 MMYIVFFL-GTAGSGKTTLTKALSDWLEEQGYDVAIVNLDPAVEYL   45 (253)
T ss_pred             CcEEEEEE-CCCCccHHHHHHHHHHHHHhcCCceEEEECCCccccC
Confidence            45667776 7799999999999999999999999999999976544

>TIGR02159 PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subunit

Probab=99.23  E-value=4.7e-11  Score=100.57  Aligned_cols=71  Identities=24%  Similarity=0.477  Sum_probs=67.0

Q ss_pred             CCCCCCC-CCccccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeEEEEEeCCCCch
Q 016622           87 IIDPDFG-TDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPI  160 (386)
Q Consensus        87 V~dPe~~-~div~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~v~l~~~p~~~~  160 (386)
                      |.|||++ .||+++|+|++|.+++  +.+.|.|++|.++||..+.|+++++++|.+. |+++++|++.+.|+|..
T Consensus         1 v~DPEi~~~sIvdLG~Vr~V~v~g--d~V~VtIt~Ty~gcpa~e~L~~~I~~aL~~~-Gv~~V~V~i~~~p~Wt~   72 (146)
T TIGR02159         1 VPDPEIPVVSVTDLGMVREVDVDG--GGVVVKFTPTYSGCPALEVIRQDIRDAVRAL-GVEVVEVSTSLDPPWTT   72 (146)
T ss_pred             CcCCCCCCCCchhcCCeeEEEEEC--CEEEEEEEeCCCCCchHHHHHHHHHHHHHhc-CCCeEEEeEeeCCCCCh
Confidence            7899999 8999999999999988  7899999999999999999999999999986 99999999999999943

Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=99.23  E-value=7.1e-11  Score=110.72  Aligned_cols=167  Identities=19%  Similarity=0.206  Sum_probs=107.8

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFG  251 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~  251 (386)
                      .+.+|.|+ |-.|+||||+.+.||++|.++|++|++.-+|..+...-               ++.-.....-|+.++...
T Consensus       138 ~p~Vil~v-GVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAi---------------EQL~~w~er~gv~vI~~~  201 (340)
T COG0552         138 KPFVILFV-GVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAI---------------EQLEVWGERLGVPVISGK  201 (340)
T ss_pred             CcEEEEEE-ecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHH---------------HHHHHHHHHhCCeEEccC
Confidence            45699999 88999999999999999999999999999998875431               111112223478888744


Q ss_pred             CCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhh------hhhc------CCCeEEEEeCCCcchH
Q 016622          252 FSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTL------CQVV------PLTAAVIVTTPQKLAF  319 (386)
Q Consensus       252 ~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~------~~~~------~~d~vviV~~~~~~s~  319 (386)
                      ...+++         ..+-+.++..+.+.||+|||||++.+..-.-.+      ....      +.+.+++|..+...  
T Consensus       202 ~G~DpA---------aVafDAi~~Akar~~DvvliDTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlDAttG--  270 (340)
T COG0552         202 EGADPA---------AVAFDAIQAAKARGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATTG--  270 (340)
T ss_pred             CCCCcH---------HHHHHHHHHHHHcCCCEEEEeCcccccCchhHHHHHHHHHHHhccccCCCCceEEEEEEcccC--
Confidence            222221         223333333334899999999998775321111      1111      12347777555443  


Q ss_pred             HHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          320 IDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       320 ~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      +++..-.+.|.+. +++.|+|+.+++....+        +.+-.+...+++|+..
T Consensus       271 qnal~QAk~F~ea-v~l~GiIlTKlDgtAKG--------G~il~I~~~l~~PI~f  316 (340)
T COG0552         271 QNALSQAKIFNEA-VGLDGIILTKLDGTAKG--------GIILSIAYELGIPIKF  316 (340)
T ss_pred             hhHHHHHHHHHHh-cCCceEEEEecccCCCc--------ceeeeHHHHhCCCEEE
Confidence            3344444445442 45789999999976654        3456788999999764

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=99.21  E-value=2.5e-10  Score=111.57  Aligned_cols=165  Identities=13%  Similarity=0.183  Sum_probs=101.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHH-HHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTL-AGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF  252 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~L-a~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~  252 (386)
                      ++|+|+ |.+|+||||++.+||..+ ..+|++|+++|+|.++......+.               ......++.+.+.. 
T Consensus       224 ~vi~lv-GptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk---------------~yAe~lgvp~~~~~-  286 (432)
T PRK12724        224 KVVFFV-GPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLK---------------RYADTMGMPFYPVK-  286 (432)
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHH---------------HHHHhcCCCeeehH-
Confidence            466666 999999999999999876 578999999999998864321100               00011133222110 


Q ss_pred             CCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC-h-HHH-hhhh---hc---CCCeEEEEeCCCcchHHHHH
Q 016622          253 SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG-D-IQL-TLCQ---VV---PLTAAVIVTTPQKLAFIDVA  323 (386)
Q Consensus       253 ~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~-~-~~~-~~~~---~~---~~d~vviV~~~~~~s~~~~~  323 (386)
                                 ........+    ....||+|||||++... + ..+ .+..   ..   ....+++|..+... ..++.
T Consensus       287 -----------~~~~l~~~l----~~~~~D~VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~-~~~~~  350 (432)
T PRK12724        287 -----------DIKKFKETL----ARDGSELILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSS-YHHTL  350 (432)
T ss_pred             -----------HHHHHHHHH----HhCCCCEEEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCC-HHHHH
Confidence                       011222222    22689999999976432 1 111 1111   11   12357777766653 45667


Q ss_pred             HHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE-----ecCCChh
Q 016622          324 KGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF-----DLPIRPT  381 (386)
Q Consensus       324 ~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~-----~IP~d~~  381 (386)
                      ...+.++.  +++-|+|+.+.+....        .+.+-.+...++.|+..     .||.|-.
T Consensus       351 ~~~~~f~~--~~~~glIlTKLDEt~~--------~G~il~i~~~~~lPI~ylt~GQ~VPeDi~  403 (432)
T PRK12724        351 TVLKAYES--LNYRRILLTKLDEADF--------LGSFLELADTYSKSFTYLSVGQEVPFDIL  403 (432)
T ss_pred             HHHHHhcC--CCCCEEEEEcccCCCC--------ccHHHHHHHHHCCCEEEEecCCCCCCCHH
Confidence            77777755  4557999999986542        15677888888999864     5787743

>TIGR00313 cobQ cobyric acid synthase CobQ

Probab=99.21  E-value=3.2e-10  Score=114.46  Aligned_cols=199  Identities=18%  Similarity=0.184  Sum_probs=109.0

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC-CCCCCCccCCCccc---ccc----cCCCCCceeeeccC----
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV-YGPSLPTMVSPENR---LLE----MNPEKRTIIPTEYL----  243 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~-~~~sl~~~lg~~~~---~~~----~~~~~~~i~~~~~~----  243 (386)
                      |.|+++..++|||++++.|++.|.++|++|..+..-. ..++....-+.+..   ...    .......+.|....    
T Consensus         1 ~~I~GT~t~vGKT~v~~~L~~~l~~~G~~v~~fKp~~~~~~s~~~~~~~e~~~a~~~qa~a~~~~~~~~~nPv~lk~~~~   80 (475)
T TIGR00313         1 IMVVGTTSSAGKSTLTAGLCRILARRGYRVAPFKSQNMSLNSFVTKEGGEIAIAQATQALAAGIEPSVHMNPILLKPKGN   80 (475)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHHhCCCeEEEECCcccccCccccCCCchhHHHHHHHHHhCCCCchhccCCEEeCcCCC
Confidence            5789999999999999999999999999999987631 11111000011110   000    00001111111110    


Q ss_pred             -CceEEecCCCCC--cc---cccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH--------HHhhhhhcCCCeEE
Q 016622          244 -GVKLVSFGFSGQ--GR---AIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI--------QLTLCQVVPLTAAV  309 (386)
Q Consensus       244 -~l~vl~~~~~~~--~~---~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~--------~~~~~~~~~~d~vv  309 (386)
                       ...++-.+....  ..   .........+.+.+.++.+. ..||+||||+++|+.+.        ...++....++ ++
T Consensus        81 ~~s~~i~~g~~~~~~~a~~~~~~~~~~~~~~i~~~~~~l~-~~~D~vIIEGaGGl~~~~~~~~d~s~~~lA~~l~ap-VI  158 (475)
T TIGR00313        81 FTSQVIVHGRAVGDMNYQEYYKNKVDFFLKAIKESLEILA-REYDYVVIEGAGSPAEINLLKRDLANMRIAELANAD-AI  158 (475)
T ss_pred             CcCcEEEcCcccCcCCHHHHhhhhhHHHHHHHHHHHHHHH-hcCCEEEEECCCCccccccCcCCchHHHHHHHhCCC-EE
Confidence             011121121100  00   00000223344455555554 68999999999875431        22333344444 56


Q ss_pred             EEeCCCcch-HHHHHHHHHHHHcC-CCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhh
Q 016622          310 IVTTPQKLA-FIDVAKGVRMFSKL-KVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTV  382 (386)
Q Consensus       310 iV~~~~~~s-~~~~~~~~~~l~~~-~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i  382 (386)
                      +|+.....+ +..+..++..++.. +..+.|+|+|++..+.      .+.+...+.+.+..|+|+++.+|+++.+
T Consensus       159 LV~d~~~g~~~a~i~gt~~~l~~~~~~~i~GvIlNrv~~~~------~~~~~~~~~l~e~~gipvLG~ip~~~~l  227 (475)
T TIGR00313       159 LVADIDRGGVFASIYGTLKLLPENWRKLIKGIVINKFRGNV------DVLKSGIEKLEELTGIPVLGVLPYDENL  227 (475)
T ss_pred             EEEeCCccHHHHHHHHHHHHhChhhcCceEEEEEeccCCcH------HHHHHHHHHHHHhhCCCEEEEecCCCcC
Confidence            666666553 34555555665543 3678999999987532      1112345666777899999999998653

>PRK05632 phosphate acetyltransferase; Reviewed

Probab=99.20  E-value=4.3e-10  Score=118.47  Aligned_cols=178  Identities=17%  Similarity=0.213  Sum_probs=106.4

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFG  251 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~  251 (386)
                      |+|.|.|++...|+|||+++..|+.+|.++|+||.++....++|..       ..         ...       ..+..+
T Consensus         1 m~k~l~I~~T~t~~GKT~vslgL~~~L~~~G~~Vg~fKPi~~~p~~-------~~---------~~~-------~~~~~~   57 (684)
T PRK05632          1 MSRSIYLAPTGTGVGLTSVSLGLMRALERKGVKVGFFKPIAQPPLT-------MS---------EVE-------ALLASG   57 (684)
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEeCCcccCCCC-------HH---------HHH-------HHHhcc
Confidence            4678999999999999999999999999999999999855443100       00         000       000000


Q ss_pred             CCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH------HHhhhhhcCCCeEEEEeCCCcchHHH----
Q 016622          252 FSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI------QLTLCQVVPLTAAVIVTTPQKLAFID----  321 (386)
Q Consensus       252 ~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~------~~~~~~~~~~d~vviV~~~~~~s~~~----  321 (386)
                               ......+.+.+.++.+. ++||+||||++.+.+..      ...++.... +.+++|++++..++.+    
T Consensus        58 ---------~~~~~~~~I~~~~~~l~-~~~D~VLIEGa~~~~~~~~~~~~na~iA~~L~-~pVILV~~~~~~si~d~~~~  126 (684)
T PRK05632         58 ---------QLDELLEEIVARYHALA-KDCDVVLVEGLDPTRKHPFEFSLNAEIAKNLG-AEVVLVSSGGNDTPEELAER  126 (684)
T ss_pred             ---------CChHHHHHHHHHHHHhc-cCCCEEEEeCcCCCCcCcccCchHHHHHHHhC-CCEEEEECCCCCChHHHHHH
Confidence                     00111222333333444 78999999998755421      111222222 5688899888776544    


Q ss_pred             HHHHHHHHH-cCCCCeEEEEEcC--CcCCCCCceecc----cC-----CChHHHHHHHhCCCeEEecCCChhhh
Q 016622          322 VAKGVRMFS-KLKVPCIAVVENM--CHFDADGKRYYP----FG-----RGSGSQVVQQFGIPHLFDLPIRPTVS  383 (386)
Q Consensus       322 ~~~~~~~l~-~~~~~i~gvVlN~--~~~~~~~~~~~~----~~-----~~~~~~i~~~~g~pvl~~IP~d~~i~  383 (386)
                      +.-..+.+. +.+.++.|+|+|+  ++..........    +.     ........+..++|++|.||+++.+.
T Consensus       127 i~~~~~~l~~~~~~~v~GVIvNr~~v~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~i~~LG~IP~d~~L~  200 (684)
T PRK05632        127 IELAASSFGGAKNANILGVIINKLNAPVDEQGRTRPDLSEIFDDSSKANVDPSKLFASSPLPLLGVVPWSPDLI  200 (684)
T ss_pred             HHHHHHHhccCCCCcEEEEEEECCCCCHHHHHHHHHHHHhhhccccccchhcchhhhcCCCceEEEccCccccC
Confidence            444445554 5578999999999  443321100000    00     00112233456899999999999876

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=99.14  E-value=1e-09  Score=109.82  Aligned_cols=164  Identities=21%  Similarity=0.234  Sum_probs=97.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHC--CCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEec
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGM--GARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSF  250 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~--G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~  250 (386)
                      +++|+|+ |.+|+||||++.+||..+..+  |++|.++++|.++......+      ..   .      ....++.+...
T Consensus       350 G~vIaLV-GPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQL------k~---y------a~iLgv~v~~a  413 (559)
T PRK12727        350 GGVIALV-GPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQL------HS---Y------GRQLGIAVHEA  413 (559)
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHH------HH---h------hcccCceeEec
Confidence            5789999 778999999999999998865  58999999998774321100      00   0      00012222110


Q ss_pred             CCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC-hHHHh-----hhhhcCCCeEEEEeCCCcchHHHHHH
Q 016622          251 GFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG-DIQLT-----LCQVVPLTAAVIVTTPQKLAFIDVAK  324 (386)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~-~~~~~-----~~~~~~~d~vviV~~~~~~s~~~~~~  324 (386)
                               ..    ...+...++.+  .+||+|||||++... +..+.     +.... ....++|+... .+..+...
T Consensus       414 ---------~d----~~~L~~aL~~l--~~~DLVLIDTaG~s~~D~~l~eeL~~L~aa~-~~a~lLVLpAt-ss~~Dl~e  476 (559)
T PRK12727        414 ---------DS----AESLLDLLERL--RDYKLVLIDTAGMGQRDRALAAQLNWLRAAR-QVTSLLVLPAN-AHFSDLDE  476 (559)
T ss_pred             ---------Cc----HHHHHHHHHHh--ccCCEEEecCCCcchhhHHHHHHHHHHHHhh-cCCcEEEEECC-CChhHHHH
Confidence                     01    11233344433  579999999997543 21110     11111 12334444433 34566667


Q ss_pred             HHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE-----ecCCC
Q 016622          325 GVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF-----DLPIR  379 (386)
Q Consensus       325 ~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~-----~IP~d  379 (386)
                      .++.+...  +..|+|+||++....      +  +..-.+....++|+.+     .||.|
T Consensus       477 ii~~f~~~--~~~gvILTKlDEt~~------l--G~aLsv~~~~~LPI~yvt~GQ~VPeD  526 (559)
T PRK12727        477 VVRRFAHA--KPQGVVLTKLDETGR------F--GSALSVVVDHQMPITWVTDGQRVPDD  526 (559)
T ss_pred             HHHHHHhh--CCeEEEEecCcCccc------h--hHHHHHHHHhCCCEEEEeCCCCchhh
Confidence            77777654  568999999886442      1  4566777788888764     45654

>PRK00784 cobyric acid synthase; Provisional

Probab=99.13  E-value=1.1e-09  Score=111.13  Aligned_cols=196  Identities=19%  Similarity=0.204  Sum_probs=108.8

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCC---cc-c--ccc----cCCCCCceeeec
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSP---EN-R--LLE----MNPEKRTIIPTE  241 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~---~~-~--~~~----~~~~~~~i~~~~  241 (386)
                      |++.|.|++...|+|||++++.|+++|+++|++|..+..  .+.+.....+.   +. +  ...    .......+.|  
T Consensus         1 m~~~ifItGT~T~vGKT~vt~~L~~~l~~~G~~v~~~Kp--v~~~~~~~~~~dg~~~~Da~~l~~~~~~~~~~~~i~P--   76 (488)
T PRK00784          1 MAKALMVQGTASDAGKSTLVAGLCRILARRGYRVAPFKA--QNMSLNSAVTADGGEIGRAQALQAEAAGVEPSVDMNP--   76 (488)
T ss_pred             CCceEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEecccc--hhccccceECCCCCeeHHHHHHHHHhCCCCchhccCC--
Confidence            467899999999999999999999999999999998865  21111100000   00 0  000    0000001111  


Q ss_pred             cCCceEEecCCCCC------------cc--cccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh--------HHHhh
Q 016622          242 YLGVKLVSFGFSGQ------------GR--AIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD--------IQLTL  299 (386)
Q Consensus       242 ~~~l~vl~~~~~~~------------~~--~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~--------~~~~~  299 (386)
                         +.+-|......            +.  .........+.+.+.+..+. +.||++||+..++...        ....+
T Consensus        77 ---~~~~~~sp~~a~~~~~g~~~~~l~a~~~~~~~~~~~~~I~~~~~~l~-~~~D~vIVEGaGg~~~~~L~~~~~~~~dl  152 (488)
T PRK00784         77 ---VLLKPQSDRGSQVIVQGKPVGNMDARDYHDYKPRLLEAVLESLDRLA-AEYDVVVVEGAGSPAEINLRDRDIANMGF  152 (488)
T ss_pred             ---EEecCCCCCcceEEEcCccccccCHHHHhhcchhhHHHHHHHHHHHH-hcCCEEEEECCCCccccCcccCCchhHHH
Confidence               11111110000            00  00001122334444444444 6899999998744321        12222


Q ss_pred             hhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHc-CCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecC
Q 016622          300 CQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSK-LKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLP  377 (386)
Q Consensus       300 ~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~-~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP  377 (386)
                      +.... --+|+|+..... ++..+.-..+.+.. .+.++.|+|+|++..+.      .+-+...+.+.+..++|+++.||
T Consensus       153 ak~l~-~PVILV~~~~~g~~~~~i~~~~~~l~~~~~~~i~GvI~N~v~~~~------~~~~~~~~~l~~~~gipvLG~iP  225 (488)
T PRK00784        153 AEAAD-APVILVADIDRGGVFASLVGTLALLPPEERARVKGFIINKFRGDI------SLLEPGLDWLEELTGVPVLGVLP  225 (488)
T ss_pred             HHHcC-CCEEEEEeCCcCcHHHHHHHHHHhcChhhCCcEEEEEEECCCCCH------HHHHHHHHHHHHhcCCCEEEEcC
Confidence            22332 246777776554 45666555566653 35789999999988532      11123445577778999999999


Q ss_pred             CChhh
Q 016622          378 IRPTV  382 (386)
Q Consensus       378 ~d~~i  382 (386)
                      +++.+
T Consensus       226 ~~~~L  230 (488)
T PRK00784        226 YLDDL  230 (488)
T ss_pred             CCcCC
Confidence            98765

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=99.11  E-value=4.5e-10  Score=111.65  Aligned_cols=160  Identities=18%  Similarity=0.204  Sum_probs=97.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHH--HCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEec
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLA--GMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSF  250 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La--~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~  250 (386)
                      .++|+|+ |.+|+||||++++||..++  +.|++|++||+|+++......      +..         .....++.+...
T Consensus       221 ~~~i~~v-GptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eq------L~~---------~a~~~~vp~~~~  284 (424)
T PRK05703        221 GGVVALV-GPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQ------LKT---------YAKIMGIPVEVV  284 (424)
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHH------HHH---------HHHHhCCceEcc
Confidence            3588888 6699999999999999998  468999999999987432100      000         000112222211


Q ss_pred             CCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH--H-HhhhhhcC----CCeEEEEeCCCcchHHHHH
Q 016622          251 GFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI--Q-LTLCQVVP----LTAAVIVTTPQKLAFIDVA  323 (386)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~--~-~~~~~~~~----~d~vviV~~~~~~s~~~~~  323 (386)
                      .         ...    .+...+..+  ..||+|||||++.....  . ..+..+..    ...+++|+.+. ....++.
T Consensus       285 ~---------~~~----~l~~~l~~~--~~~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~-~~~~~l~  348 (424)
T PRK05703        285 Y---------DPK----ELAKALEQL--RDCDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSAT-TKYEDLK  348 (424)
T ss_pred             C---------CHH----hHHHHHHHh--CCCCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECC-CCHHHHH
Confidence            1         111    122233333  57999999999754321  0 01111211    23456665554 3556777


Q ss_pred             HHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          324 KGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       324 ~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ++++.++..+  +-++|+++.+....      +  +.+-.+....|+|+..
T Consensus       349 ~~~~~f~~~~--~~~vI~TKlDet~~------~--G~i~~~~~~~~lPv~y  389 (424)
T PRK05703        349 DIYKHFSRLP--LDGLIFTKLDETSS------L--GSILSLLIESGLPISY  389 (424)
T ss_pred             HHHHHhCCCC--CCEEEEeccccccc------c--cHHHHHHHHHCCCEEE
Confidence            7888887655  46899999986442      1  4577888888999874

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=99.07  E-value=2.9e-09  Score=104.23  Aligned_cols=160  Identities=13%  Similarity=0.127  Sum_probs=98.7

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHH----CCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAG----MGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLV  248 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~----~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl  248 (386)
                      +++|+++ |..|+||||+++.||..+..    .|++|+++++|.++......+..               ....-|+.+.
T Consensus       174 ~~vi~lv-GptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~---------------~a~~lgvpv~  237 (388)
T PRK12723        174 KRVFILV-GPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQT---------------YGDIMGIPVK  237 (388)
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHH---------------HhhcCCcceE
Confidence            4577777 88899999999999998873    58999999999987543211100               0000122221


Q ss_pred             ecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHH------hhhhhcCCC-eEEEEeCCCcchHHH
Q 016622          249 SFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL------TLCQVVPLT-AAVIVTTPQKLAFID  321 (386)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~------~~~~~~~~d-~vviV~~~~~~s~~~  321 (386)
                      ...             ....+...+...  ..||+|||||++.......      ........+ .+++|..+... ..+
T Consensus       238 ~~~-------------~~~~l~~~L~~~--~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~-~~~  301 (388)
T PRK12723        238 AIE-------------SFKDLKEEITQS--KDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTK-TSD  301 (388)
T ss_pred             eeC-------------cHHHHHHHHHHh--CCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCC-HHH
Confidence            100             012233333333  6899999999976542111      111111123 67888777664 455


Q ss_pred             HHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          322 VAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       322 ~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      +.+.++.+..  +++-|+|+.+.+.....        +.+-.+...+++|+..
T Consensus       302 ~~~~~~~~~~--~~~~~~I~TKlDet~~~--------G~~l~~~~~~~~Pi~y  344 (388)
T PRK12723        302 VKEIFHQFSP--FSYKTVIFTKLDETTCV--------GNLISLIYEMRKEVSY  344 (388)
T ss_pred             HHHHHHHhcC--CCCCEEEEEeccCCCcc--------hHHHHHHHHHCCCEEE
Confidence            6666666654  45679999998865531        5677888888888764

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=99.05  E-value=6.9e-09  Score=96.82  Aligned_cols=170  Identities=15%  Similarity=0.157  Sum_probs=106.8

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF  252 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~  252 (386)
                      ..+|+|. |++|+||||+...|+..+..+|++|+++++|.++......      +.         ......++.+.... 
T Consensus        75 ~~~i~~~-G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~q------l~---------~~~~~~~~~~~~~~-  137 (270)
T PRK06731         75 VQTIALI-GPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQ------LQ---------DYVKTIGFEVIAVR-  137 (270)
T ss_pred             CCEEEEE-CCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHH------HH---------HHhhhcCceEEecC-
Confidence            3588888 7799999999999999999889999999999876322110      00         00001133332210 


Q ss_pred             CCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC--hHHH----hhhhhcCCCeEEEEeCCCcchHHHHHHHH
Q 016622          253 SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG--DIQL----TLCQVVPLTAAVIVTTPQKLAFIDVAKGV  326 (386)
Q Consensus       253 ~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~--~~~~----~~~~~~~~d~vviV~~~~~~s~~~~~~~~  326 (386)
                              ....+...++.+.+   ..+||+|||||++...  ...+    .+......+.+++|..+... -.++...+
T Consensus       138 --------~~~~l~~~l~~l~~---~~~~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~-~~d~~~~~  205 (270)
T PRK06731        138 --------DEAAMTRALTYFKE---EARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMK-SKDMIEII  205 (270)
T ss_pred             --------CHHHHHHHHHHHHh---cCCCCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccC-HHHHHHHH
Confidence                    11112223333321   1479999999998663  1111    22222345677888776543 35666677


Q ss_pred             HHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE-----ecCCChh
Q 016622          327 RMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF-----DLPIRPT  381 (386)
Q Consensus       327 ~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~-----~IP~d~~  381 (386)
                      +.+..  +++-|+|+.|.+....        .+.+-.+....+.|+..     .+|.|-.
T Consensus       206 ~~f~~--~~~~~~I~TKlDet~~--------~G~~l~~~~~~~~Pi~~it~Gq~vp~di~  255 (270)
T PRK06731        206 TNFKD--IHIDGIVFTKFDETAS--------SGELLKIPAVSSAPIVLMTDGQDVKKNIH  255 (270)
T ss_pred             HHhCC--CCCCEEEEEeecCCCC--------ccHHHHHHHHHCcCEEEEeCCCCCCcchh
Confidence            77765  6678999999886552        15677888889999874     5776643

>TIGR00345 arsA arsenite-activated ATPase (arsA)

Probab=99.04  E-value=2.2e-09  Score=101.56  Aligned_cols=74  Identities=15%  Similarity=0.287  Sum_probs=54.3

Q ss_pred             CeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceec----ccCCChHHHHHHHhCCCeEEecCCC
Q 016622          306 TAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYY----PFGRGSGSQVVQQFGIPHLFDLPIR  379 (386)
Q Consensus       306 d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~----~~~~~~~~~i~~~~g~pvl~~IP~d  379 (386)
                      ..+++|+.|+..++.++.++++.+++.+.++.++|+|++.....+..++    ...+..++++.+.++-.-+..+|+.
T Consensus       190 t~~vlV~~pe~~si~e~~rl~~~L~~~g~~~~~lvvN~v~~~~~~~~~~~~r~~~q~~~L~~i~~~~~~~~~~~vp~~  267 (284)
T TIGR00345       190 TSFVLVVIPEKMSLYESERAHKELAKYGIKVDAVIVNQVLPENAQDEFCQARWELQQKYLKEIPEKFADLPVAEVPLQ  267 (284)
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHhCCCCCCEEEEeCCcCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCeEEecCC
Confidence            4589999999999999999999999999999999999987753222211    1223456777777754344556754

The N-terminal 50 amino acids hits Pfam families NB-ARC and fer4_NifH. residues 4-11 of the seed alignment contain a potential ATP binding site. The function of the gene product is to catalyze the extrusion of the oxyanions arsenite, antimonite and arsenate for detoxification. Some members of this family contain a duplication so the model finds hits twice.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=99.00  E-value=1.1e-08  Score=94.39  Aligned_cols=153  Identities=16%  Similarity=0.207  Sum_probs=100.2

Q ss_pred             ccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCC-ccCCCcccccccCCCCCceeeeccCCceE
Q 016622          169 LQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLP-TMVSPENRLLEMNPEKRTIIPTEYLGVKL  247 (386)
Q Consensus       169 ~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~-~~lg~~~~~~~~~~~~~~i~~~~~~~l~v  247 (386)
                      ..+.+.+|+|| |-+|+||||+.-.|...|.++|+||.++--||..|-.. .++|-.-+...         ....+|+++
T Consensus        47 ~tG~a~viGIT-G~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRiRM~~---------~~~~~~vFi  116 (323)
T COG1703          47 RTGNAHVIGIT-GVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRIRMQR---------LAVDPGVFI  116 (323)
T ss_pred             cCCCCcEEEec-CCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHhhHHh---------hccCCCeEE
Confidence            34567899999 99999999999999999999999999999999776442 23332221111         111457777


Q ss_pred             EecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHH
Q 016622          248 VSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGV  326 (386)
Q Consensus       248 l~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~  326 (386)
                      -|.+..+..-      .++....+.+..+....||+|||.|-+ .+.....+.  .-+|.+++|+.|+.. .++..+..+
T Consensus       117 Rs~~srG~lG------GlS~at~~~i~~ldAaG~DvIIVETVG-vGQsev~I~--~~aDt~~~v~~pg~GD~~Q~iK~Gi  187 (323)
T COG1703         117 RSSPSRGTLG------GLSRATREAIKLLDAAGYDVIIVETVG-VGQSEVDIA--NMADTFLVVMIPGAGDDLQGIKAGI  187 (323)
T ss_pred             eecCCCccch------hhhHHHHHHHHHHHhcCCCEEEEEecC-CCcchhHHh--hhcceEEEEecCCCCcHHHHHHhhh
Confidence            7655432211      123444455555555799999999985 432222232  234889999888875 455555555


Q ss_pred             HHHHcCCCCeEEEEEcCCcC
Q 016622          327 RMFSKLKVPCIAVVENMCHF  346 (386)
Q Consensus       327 ~~l~~~~~~i~gvVlN~~~~  346 (386)
                      --+.+.      +|+||.+.
T Consensus       188 mEiaDi------~vINKaD~  201 (323)
T COG1703         188 MEIADI------IVINKADR  201 (323)
T ss_pred             hhhhhe------eeEeccCh
Confidence            444432      78899884

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.97  E-value=8.7e-09  Score=107.67  Aligned_cols=167  Identities=16%  Similarity=0.208  Sum_probs=105.3

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHH-HCC-CcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEec
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLA-GMG-ARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSF  250 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La-~~G-~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~  250 (386)
                      +++|+|+ |-.|+||||+...||..+. ..| ++|.++++|.++......+.               ......++.+...
T Consensus       185 g~Vi~lV-GpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~---------------~~a~~~gvpv~~~  248 (767)
T PRK14723        185 GGVLALV-GPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLR---------------IYGRILGVPVHAV  248 (767)
T ss_pred             CeEEEEE-CCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHH---------------HHHHhCCCCcccc
Confidence            4699998 8899999999999999885 566 69999999987744311100               0001112222110


Q ss_pred             CCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC-hHHH-----hhhhhcCCCeEEEEeCCCcchHHHHHH
Q 016622          251 GFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG-DIQL-----TLCQVVPLTAAVIVTTPQKLAFIDVAK  324 (386)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~-~~~~-----~~~~~~~~d~vviV~~~~~~s~~~~~~  324 (386)
                      .         .    ...+...++.+  ..||+|||||++... +..+     .+......+.+++|+.+.. ..+++..
T Consensus       249 ~---------~----~~~l~~al~~~--~~~D~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~-~~~~l~~  312 (767)
T PRK14723        249 K---------D----AADLRFALAAL--GDKHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAAS-HGDTLNE  312 (767)
T ss_pred             C---------C----HHHHHHHHHHh--cCCCEEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCC-cHHHHHH
Confidence            0         1    11234444444  578999999997442 1111     1111223467888887664 4566777


Q ss_pred             HHHHHHcC-CCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE-----ecCCC
Q 016622          325 GVRMFSKL-KVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF-----DLPIR  379 (386)
Q Consensus       325 ~~~~l~~~-~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~-----~IP~d  379 (386)
                      +++.++.. +.++-|+|++|.+....        .+.+-.+...+++|+.+     .||.|
T Consensus       313 i~~~f~~~~~~~i~glIlTKLDEt~~--------~G~iL~i~~~~~lPI~yit~GQ~VPdD  365 (767)
T PRK14723        313 VVHAYRHGAGEDVDGCIITKLDEATH--------LGPALDTVIRHRLPVHYVSTGQKVPEH  365 (767)
T ss_pred             HHHHHhhcccCCCCEEEEeccCCCCC--------ccHHHHHHHHHCCCeEEEecCCCChhh
Confidence            77777654 45678999999986553        15677888888888764     46655

>COG1797 CobB Cobyrinic acid a,c-diamide synthase [Coenzyme metabolism]

Probab=98.96  E-value=7.5e-09  Score=100.18  Aligned_cols=167  Identities=22%  Similarity=0.274  Sum_probs=103.1

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC--CCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV--YGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF  252 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~--~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~  252 (386)
                      .|.+.+...|+||||+|..|.++|+++|++|--+..-|  -.|+.+...                .-....|||..-   
T Consensus         2 ~vvIAg~~SG~GKTTvT~glm~aL~~rg~~VqpfKvGPDYIDP~~H~~a----------------tG~~srNLD~~m---   62 (451)
T COG1797           2 AVVIAGTSSGSGKTTVTLGLMRALRRRGLKVQPFKVGPDYIDPGYHTAA----------------TGRPSRNLDSWM---   62 (451)
T ss_pred             ceEEecCCCCCcHHHHHHHHHHHHHhcCCcccccccCCCccCchhhhHh----------------hCCccCCCchhh---
Confidence            57888999999999999999999999999887766533  222222210                001112333321   


Q ss_pred             CCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH---------HHhhhhhcCCCeEEEEeCCCcch--HHH
Q 016622          253 SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI---------QLTLCQVVPLTAAVIVTTPQKLA--FID  321 (386)
Q Consensus       253 ~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~---------~~~~~~~~~~d~vviV~~~~~~s--~~~  321 (386)
                             +.    .+.+++++.... ++.|+.||..--|+-|-         ...++.+.. --||+|++....+  +..
T Consensus        63 -------m~----~~~v~~~f~~~~-~~adi~vIEGVMGLfDG~~~~~~~gSTA~lAk~l~-~PVvLVid~~~~s~S~AA  129 (451)
T COG1797          63 -------MG----EEGVRALFARAA-ADADIAVIEGVMGLFDGRGSATDTGSTADLAKLLG-APVVLVVDASGLSRSVAA  129 (451)
T ss_pred             -------cC----HHHHHHHHHHhc-CCCCEEEEeeccccccCCCCCcCCCCHHHHHHHhC-CCEEEEEeCcchhHHHHH
Confidence                   11    234555554444 78899988776655322         222233333 2477787776654  333


Q ss_pred             HHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHH-hCCCeEEecCCChhh
Q 016622          322 VAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQ-FGIPHLFDLPIRPTV  382 (386)
Q Consensus       322 ~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~-~g~pvl~~IP~d~~i  382 (386)
                      +...++.++ -++++.|||+||+.....    +    ...++..+. +|+|++|.||.++.+
T Consensus       130 iv~G~~~fd-p~v~iaGVIlNrVgserH----~----~llr~Ale~~~gv~vlG~lpr~~~l  182 (451)
T COG1797         130 IVKGFKHFD-PDVNIAGVILNRVGSERH----Y----ELLRDALEEYTGVPVLGYLPRDDDL  182 (451)
T ss_pred             HHHHHHhcC-CCCceEEEEEecCCCHHH----H----HHHHHHhhhcCCCcEEEEecCCccc
Confidence            444444443 267899999999986542    1    234455555 789999999999865

>TIGR00750 lao LAO/AO transport system ATPase

Probab=98.96  E-value=2.3e-08  Score=95.37  Aligned_cols=152  Identities=18%  Similarity=0.210  Sum_probs=87.6

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCc-cCCCcccccccCCCCCceeeeccCCceEEec
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPT-MVSPENRLLEMNPEKRTIIPTEYLGVKLVSF  250 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~-~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~  250 (386)
                      .+++|+|+ |.+|+||||++.+|+..+.+.|++|.+|++|++.+-... +++....+..         ....+++.+.+.
T Consensus        33 ~~~~i~i~-G~~G~GKttl~~~l~~~~~~~~~~v~~i~~D~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~  102 (300)
T TIGR00750        33 NAHRVGIT-GTPGAGKSTLLEALGMELRRRGLKVAVIAVDPSSPFTGGSILGDRTRMQR---------LATDPGAFIRSM  102 (300)
T ss_pred             CceEEEEE-CCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCCcchhhhcccchhhhh---------cccCCCceeeec
Confidence            45688888 999999999999999999999999999999997653221 1221111100         001234444433


Q ss_pred             CCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHH
Q 016622          251 GFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFS  330 (386)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~  330 (386)
                      +....    +.+.  .....++++.+....||+|||||++ .+......  ...+|.++++..+...  .++......+.
T Consensus       103 ~~~~~----~~~~--~~~~~~~~~~l~~~g~D~viidT~G-~~~~e~~i--~~~aD~i~vv~~~~~~--~el~~~~~~l~  171 (300)
T TIGR00750       103 PTRGH----LGGL--SQATRELILLLDAAGYDVIIVETVG-VGQSEVDI--ANMADTFVVVTIPGTG--DDLQGIKAGLM  171 (300)
T ss_pred             Ccccc----ccch--hHHHHHHHHHHHhCCCCEEEEeCCC-CchhhhHH--HHhhceEEEEecCCcc--HHHHHHHHHHh
Confidence            32110    1111  1223333333333689999999995 54333333  3345788887655532  33333333332


Q ss_pred             cCCCCeEEEEEcCCcCC
Q 016622          331 KLKVPCIAVVENMCHFD  347 (386)
Q Consensus       331 ~~~~~i~gvVlN~~~~~  347 (386)
                        +.+. -+|+||++..
T Consensus       172 --~~~~-ivv~NK~Dl~  185 (300)
T TIGR00750       172 --EIAD-IYVVNKADGE  185 (300)
T ss_pred             --hhcc-EEEEEccccc
Confidence              2232 4888999864

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.

>TIGR00379 cobB cobyrinic acid a,c-diamide synthase

Probab=98.94  E-value=1.1e-08  Score=102.92  Aligned_cols=170  Identities=20%  Similarity=0.243  Sum_probs=98.3

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQ  255 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~~  255 (386)
                      |.|++...|+|||++++.|+++|+++|++|..+..-   +.   .  .+.....      .+.-....+++..       
T Consensus         2 ~~I~gT~t~vGKT~vt~~L~~~L~~~G~~V~~fK~g---~d---~--~D~~~~~------~~~g~~~~~ld~~-------   60 (449)
T TIGR00379         2 VVIAGTSSGVGKTTISTGIMKALSRRKLRVQPFKVG---PD---Y--IDPMFHT------QATGRPSRNLDSF-------   60 (449)
T ss_pred             EEEEeCCCCCcHHHHHHHHHHHHHHCCCceeEEccC---CC---C--CCHHHHH------HHhCCchhhCCcc-------
Confidence            688999999999999999999999999999999862   11   0  0100000      0000000011100       


Q ss_pred             cccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh---------HHHhhhhhcCCCeEEEEeCCCcc--hHHHHHH
Q 016622          256 GRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD---------IQLTLCQVVPLTAAVIVTTPQKL--AFIDVAK  324 (386)
Q Consensus       256 ~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~---------~~~~~~~~~~~d~vviV~~~~~~--s~~~~~~  324 (386)
                         ..    ....+.+.+..+. +.+|++||....|+-+         ....++.... .-+++|+.....  ++..+..
T Consensus        61 ---~~----~~~~i~~~~~~~~-~~~D~viVEGagGl~~g~~p~~~~~s~adlAk~l~-~pVILV~~~~~~~~t~~al~~  131 (449)
T TIGR00379        61 ---FM----SEAQIQECFHRHS-KGTDYSIIEGVRGLYDGISAITDYGSTASVAKALD-APIVLVMNCQRLSRSAAAIVL  131 (449)
T ss_pred             ---cC----CHHHHHHHHHHhc-ccCCEEEEecCCccccCCCCCCCCccHHHHHHHhC-CCEEEEECCchHHHHHHHHHH
Confidence               01    1234445454444 6899999999865531         1222333332 246777665531  1112222


Q ss_pred             HHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhh
Q 016622          325 GVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVS  383 (386)
Q Consensus       325 ~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~  383 (386)
                      ....+ +.++++.|+|+|++.....    +   ....+.+.+.+++|++|.||+++.+.
T Consensus       132 ~~~~~-~~~i~i~GvIlN~v~~~~~----~---~~~~~~i~~~~gipvLG~IP~~~~l~  182 (449)
T TIGR00379       132 GYRSF-DPGVKLKGVILNRVGSERH----L---EKLKIAVEPLRGIPILGVIPRQQDLK  182 (449)
T ss_pred             HHHhh-CCCCCEEEEEEECCCCHHH----H---HHHHHHHHHhCCCCEEEEecCccccC
Confidence            22222 3478999999999875321    1   12344555667999999999997663

This model describes cobyrinic acid a,c-diamide synthase, the cobB (cbiA in Salmonella) protein of cobalamin biosynthesis. It is responsible for the amidation of carboxylic groups at positions A and C of either cobyrinic acid or hydrogenobrynic acid. NH(2) groups are provided by glutamine and one molecule of ATP hydrogenolyzed for each amidation.

>PRK13505 formate--tetrahydrofolate ligase; Provisional

Probab=98.90  E-value=1e-08  Score=102.29  Aligned_cols=50  Identities=30%  Similarity=0.402  Sum_probs=46.0

Q ss_pred             CceEEEEEeCcC---CCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCc
Q 016622          172 ISNIVAVSSCKG---GVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPE  224 (386)
Q Consensus       172 ~~kvI~v~s~kG---GvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~  224 (386)
                      ..|+|.|+|..+   |+||||+++|||..|++.|+||+++   ++.|+++..||..
T Consensus        54 ~~k~IlVTS~~PTp~GEGKTt~sinLA~~la~~Gkkvlli---LR~Psl~~~fg~k  106 (557)
T PRK13505         54 DGKLILVTAINPTPAGEGKSTVTVGLGDALNKIGKKTVIA---LREPSLGPVFGIK  106 (557)
T ss_pred             CCeEEEEecCCCCCCCCCHHHHHHHHHHHHHHcCCeEEEE---EecCCcccccCCC
Confidence            468999999999   9999999999999999999999999   8899998887654

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=98.88  E-value=5.3e-09  Score=95.35  Aligned_cols=150  Identities=19%  Similarity=0.236  Sum_probs=86.4

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCC-ccCCCcccccccCCCCCceeeeccCCceEEec
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLP-TMVSPENRLLEMNPEKRTIIPTEYLGVKLVSF  250 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~-~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~  250 (386)
                      ...+|+|| |-+|+||||+.-.|+..+.++|+||.++-.||..|-.. .++|-.-+...         ....+|+++-|.
T Consensus        28 ~a~~iGiT-G~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlLGDRiRM~~---------~~~d~~vfIRS~   97 (266)
T PF03308_consen   28 RAHVIGIT-GPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALLGDRIRMQE---------LSRDPGVFIRSM   97 (266)
T ss_dssp             -SEEEEEE-E-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS--GGGCHH---------HHTSTTEEEEEE
T ss_pred             CceEEEee-CCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcccccHHHhcC---------cCCCCCEEEeec
Confidence            45799998 89999999999999999999999999999999776443 23442222111         113457888775


Q ss_pred             CCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHH
Q 016622          251 GFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMF  329 (386)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l  329 (386)
                      ......-      -++....+.+..+..-.||+|||.|-+ .+.....+.  ..+|.+++|..|+.. .++..+..+--+
T Consensus        98 atRG~lG------Gls~~t~~~v~ll~aaG~D~IiiETVG-vGQsE~~I~--~~aD~~v~v~~Pg~GD~iQ~~KaGimEi  168 (266)
T PF03308_consen   98 ATRGSLG------GLSRATRDAVRLLDAAGFDVIIIETVG-VGQSEVDIA--DMADTVVLVLVPGLGDEIQAIKAGIMEI  168 (266)
T ss_dssp             ---SSHH------HHHHHHHHHHHHHHHTT-SEEEEEEES-SSTHHHHHH--TTSSEEEEEEESSTCCCCCTB-TTHHHH
T ss_pred             CcCCCCC------CccHhHHHHHHHHHHcCCCEEEEeCCC-CCccHHHHH--HhcCeEEEEecCCCccHHHHHhhhhhhh
Confidence            5432211      123334444444433689999999984 454344443  335899999888774 344444444333


Q ss_pred             HcCCCCeEEEEEcCCcC
Q 016622          330 SKLKVPCIAVVENMCHF  346 (386)
Q Consensus       330 ~~~~~~i~gvVlN~~~~  346 (386)
                      .+      -+|+||.+.
T Consensus       169 aD------i~vVNKaD~  179 (266)
T PF03308_consen  169 AD------IFVVNKADR  179 (266)
T ss_dssp             -S------EEEEE--SH
T ss_pred             cc------EEEEeCCCh
Confidence            33      277798873

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.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.86  E-value=8.3e-08  Score=93.30  Aligned_cols=168  Identities=14%  Similarity=0.173  Sum_probs=99.0

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHH-HCC-CcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEec
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLA-GMG-ARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSF  250 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La-~~G-~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~  250 (386)
                      ..+|+|+ |..|+||||+++.||..+. +.| ++|.+|.+|.++......+.               .....-|+.+...
T Consensus       137 g~ii~lv-GptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~---------------~~a~~~gv~~~~~  200 (374)
T PRK14722        137 GGVFALM-GPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLR---------------IFGKILGVPVHAV  200 (374)
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHH---------------HHHHHcCCceEec
Confidence            4588877 9999999999999999876 456 69999999998643211100               0001112222211


Q ss_pred             CCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC--hHHH-hhhhh---cCCCeEEEEeCCCcchHHHHHH
Q 016622          251 GFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG--DIQL-TLCQV---VPLTAAVIVTTPQKLAFIDVAK  324 (386)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~--~~~~-~~~~~---~~~d~vviV~~~~~~s~~~~~~  324 (386)
                      .         ........+.+    +  .++|+|||||++...  .... .+..+   ...+..++|+.+.. ...++..
T Consensus       201 ~---------~~~~l~~~l~~----l--~~~DlVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts-~~~~l~e  264 (374)
T PRK14722        201 K---------DGGDLQLALAE----L--RNKHMVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATS-HGDTLNE  264 (374)
T ss_pred             C---------CcccHHHHHHH----h--cCCCEEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCcc-ChHHHHH
Confidence            1         11112222322    2  678999999996442  1111 11112   12345677777655 3445555


Q ss_pred             HHHHHHcCC-------CCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE-----ecCCCh
Q 016622          325 GVRMFSKLK-------VPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF-----DLPIRP  380 (386)
Q Consensus       325 ~~~~l~~~~-------~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~-----~IP~d~  380 (386)
                      .++.+....       .++.|+|+.|.+....        .+.+-.+....++|+.+     .||.|-
T Consensus       265 vi~~f~~~~~~p~~~~~~~~~~I~TKlDEt~~--------~G~~l~~~~~~~lPi~yvt~Gq~VPedl  324 (374)
T PRK14722        265 VVQAYRSAAGQPKAALPDLAGCILTKLDEASN--------LGGVLDTVIRYKLPVHYVSTGQKVPENL  324 (374)
T ss_pred             HHHHHHHhhcccccccCCCCEEEEeccccCCC--------ccHHHHHHHHHCcCeEEEecCCCCCccc
Confidence            555555432       2467999999886542        25677788888888764     567653

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.84  E-value=7.7e-08  Score=92.34  Aligned_cols=153  Identities=14%  Similarity=0.125  Sum_probs=90.8

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCc-cCCCcccccccCCCCCceeeeccCCceEEe
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPT-MVSPENRLLEMNPEKRTIIPTEYLGVKLVS  249 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~-~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~  249 (386)
                      +.+.+|+|+ |.+|+||||++..|+..+...|++|.++..|++.+.... ++|.......         ....++..+.+
T Consensus        54 ~~~~~igi~-G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~Dp~s~~~~gallgd~~r~~~---------~~~~~~~~~r~  123 (332)
T PRK09435         54 GNALRIGIT-GVPGVGKSTFIEALGMHLIEQGHKVAVLAVDPSSTRTGGSILGDKTRMER---------LSRHPNAFIRP  123 (332)
T ss_pred             CCcEEEEEE-CCCCCCHHHHHHHHHHHHHHCCCeEEEEEeCCCccccchhhhchHhHHHh---------hcCCCCeEEEe
Confidence            345689998 779999999999999999999999999999997753321 2332111110         01223444444


Q ss_pred             cCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeC-CCcchHHHHHHHHHH
Q 016622          250 FGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTT-PQKLAFIDVAKGVRM  328 (386)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~-~~~~s~~~~~~~~~~  328 (386)
                      .+....    +.  .....+.+.+..+....||+|||||++... ....+  ...+|.+++|+. +....+...+..  .
T Consensus       124 ~~~~~~----l~--~~a~~~~~~~~~~~~~g~d~viieT~Gv~q-s~~~i--~~~aD~vlvv~~p~~gd~iq~~k~g--i  192 (332)
T PRK09435        124 SPSSGT----LG--GVARKTRETMLLCEAAGYDVILVETVGVGQ-SETAV--AGMVDFFLLLQLPGAGDELQGIKKG--I  192 (332)
T ss_pred             cCCccc----cc--chHHHHHHHHHHHhccCCCEEEEECCCCcc-chhHH--HHhCCEEEEEecCCchHHHHHHHhh--h
Confidence            322110    11  123344444444444789999999996432 22223  334698888876 444455544431  2


Q ss_pred             HHcCCCCeEEEEEcCCcCCC
Q 016622          329 FSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       329 l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ++...    -+|+||.+...
T Consensus       193 ~E~aD----IiVVNKaDl~~  208 (332)
T PRK09435        193 MELAD----LIVINKADGDN  208 (332)
T ss_pred             hhhhh----eEEeehhcccc
Confidence            22222    38899988543

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=98.80  E-value=5.7e-08  Score=91.00  Aligned_cols=40  Identities=28%  Similarity=0.403  Sum_probs=36.4

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      |++|+|++.| |+||||++.+|+..|+++| +|++|+.|...
T Consensus         1 M~~i~i~G~~-gSGKTTLi~~Li~~L~~~G-~V~~IKhd~h~   40 (274)
T PRK14493          1 MKVLSIVGYK-ATGKTTLVERLVDRLSGRG-RVGTVKHMDTE   40 (274)
T ss_pred             CcEEEEECCC-CCCHHHHHHHHHHHHHhCC-CEEEEEEcCCC
Confidence            4689999775 9999999999999999999 89999999855

>PRK06278 cobyrinic acid a,c-diamide synthase; Validated

Probab=98.76  E-value=3.1e-07  Score=92.15  Aligned_cols=169  Identities=12%  Similarity=0.028  Sum_probs=101.4

Q ss_pred             ccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEE
Q 016622          169 LQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLV  248 (386)
Q Consensus       169 ~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl  248 (386)
                      .++.++.|.|++...|+||||+|+.|+.+|.++   |..+.+.+....+                    .    +.++.+
T Consensus       234 ~~~~~~~i~Iagt~Tg~GKT~vt~~L~~al~~~---v~~fK~GpD~id~--------------------~----p~~~~~  286 (476)
T PRK06278        234 ERNKPKGIILLATGSESGKTFLTTSIAGKLRGK---VFVAKIGPDVRDI--------------------V----PSLYLL  286 (476)
T ss_pred             hhcCCCeEEEEeCCCCCCHHHHHHHHHHHHHhC---eEEEcCCCChhhc--------------------C----Ccceec
Confidence            344577899999999999999999999999975   7777643211000                    0    011111


Q ss_pred             ecCCCCCcccc--cC-CchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH---------HHhhhhhcCCCeEEEEeCCCc
Q 016622          249 SFGFSGQGRAI--MR-GPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI---------QLTLCQVVPLTAAVIVTTPQK  316 (386)
Q Consensus       249 ~~~~~~~~~~~--~~-~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~---------~~~~~~~~~~d~vviV~~~~~  316 (386)
                      ........+..  .. .......++.+.    ...+|++||+...|+.+.         ...++.... --+|+|+....
T Consensus       287 ~~~~sp~~a~n~~~d~~~~~~~~~~~~~----~~~~DivIIEGagGL~dg~~~~~~~~S~adlAk~l~-~PVILV~~~~~  361 (476)
T PRK06278        287 REKMTKYNSIKIGDRGWSDVEEFLEFVK----NSDYDYYIIEGVMGAFTGALNKKNPYSGAEIAKALG-FPVYIVSSCSK  361 (476)
T ss_pred             ccccCChHHHhhcCCcccCHHHHHHHHH----hcCCCEEEEECCCCcccccCCCCccccHHHHHHHhC-CCEEEEEcCCC
Confidence            00000000000  00 012223344421    146899999998876442         112232332 35888888888


Q ss_pred             chHHHHHH----HHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecC
Q 016622          317 LAFIDVAK----GVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLP  377 (386)
Q Consensus       317 ~s~~~~~~----~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP  377 (386)
                      .++..+..    +.+++++.++++.|+|+|++....    +    .....++.+..|+|++|.+|
T Consensus       362 g~i~~~~~~i~G~~~~l~~~~i~i~GVIlN~v~~~~----~----~~~~~~~le~~gvpVLG~~~  418 (476)
T PRK06278        362 SGIEGAFVESMAYYSLLKKMGVKVEGIILNKVYNME----I----FEKVKKIAENSNINLIGVGK  418 (476)
T ss_pred             ChHHHHHHHHHHHHHHHhcCCCcEEEEEEECCCcHH----H----HHHHHHHHHhcCCCEEEecc
Confidence            77555444    345666778999999999988432    1    13457777779999999844

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.75  E-value=1.7e-07  Score=93.91  Aligned_cols=160  Identities=17%  Similarity=0.179  Sum_probs=93.0

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHH-HCC-CcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEec
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLA-GMG-ARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSF  250 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La-~~G-~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~  250 (386)
                      +++|+|+ |-.|+||||++.+||..+. ++| ++|.+|++|.++......      +         .......|+.+...
T Consensus       256 g~Vi~Lv-GpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQ------L---------r~~AeilGVpv~~~  319 (484)
T PRK06995        256 GGVFALM-GPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQ------L---------RIYGKILGVPVHAV  319 (484)
T ss_pred             CcEEEEE-CCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHH------H---------HHHHHHhCCCeecc
Confidence            4699999 8899999999999999886 556 599999999866332110      0         00001112211110


Q ss_pred             CCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC-hHH--HhhhhhcC---CCeEEEEeCCCcchHHHHHH
Q 016622          251 GFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG-DIQ--LTLCQVVP---LTAAVIVTTPQKLAFIDVAK  324 (386)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~-~~~--~~~~~~~~---~d~vviV~~~~~~s~~~~~~  324 (386)
                      .         ...   +....+ ..+  .++|+++|||++... +..  .....+..   ....++|..... ...++.+
T Consensus       320 ~---------~~~---Dl~~aL-~~L--~d~d~VLIDTaGr~~~d~~~~e~~~~l~~~~~p~e~~LVLdAt~-~~~~l~~  383 (484)
T PRK06995        320 K---------DAA---DLRLAL-SEL--RNKHIVLIDTIGMSQRDRMVSEQIAMLHGAGAPVKRLLLLNATS-HGDTLNE  383 (484)
T ss_pred             C---------Cch---hHHHHH-Hhc--cCCCeEEeCCCCcChhhHHHHHHHHHHhccCCCCeeEEEEeCCC-cHHHHHH
Confidence            0         000   111122 222  578999999975332 111  11111111   233566665544 3356666


Q ss_pred             HHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          325 GVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       325 ~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ..+.++..  .+.|+|+||.+....        .+.+-.+...+++|+.+
T Consensus       384 i~~~f~~~--~~~g~IlTKlDet~~--------~G~~l~i~~~~~lPI~y  423 (484)
T PRK06995        384 VVQAYRGP--GLAGCILTKLDEAAS--------LGGALDVVIRYKLPLHY  423 (484)
T ss_pred             HHHHhccC--CCCEEEEeCCCCccc--------chHHHHHHHHHCCCeEE
Confidence            77777654  457999999886542        15677888888888764

>PRK13896 cobyrinic acid a,c-diamide synthase; Provisional

Probab=98.73  E-value=1.1e-07  Score=94.24  Aligned_cols=168  Identities=15%  Similarity=0.123  Sum_probs=99.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFS  253 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~  253 (386)
                      +.|.|++...|+||||+++.|+.+|.++|.+|..+...+..-.        .....      .+.-....+++-.     
T Consensus         2 ~~~~i~~~~s~~GKT~vt~gl~~~l~~~g~~v~~~K~Gpd~iD--------~~~~~------~~~g~~~~nld~~-----   62 (433)
T PRK13896          2 KGFVLGGTSSGVGKTVATLATIRALEDAGYAVQPAKAGPDFID--------PSHHE------AVAGRPSRTLDPW-----   62 (433)
T ss_pred             ceEEEEeCCCCCCHHHHHHHHHHHHHHCCCeeEEEeeCCCCCC--------HHHHH------HHhCCCcccCChh-----
Confidence            4689999999999999999999999999999998886432110        00000      0000000122100     


Q ss_pred             CCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH----HHhhhhhcCCCeEEEEeCCCcchHH--HHHHHHH
Q 016622          254 GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI----QLTLCQVVPLTAAVIVTTPQKLAFI--DVAKGVR  327 (386)
Q Consensus       254 ~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~----~~~~~~~~~~d~vviV~~~~~~s~~--~~~~~~~  327 (386)
                            +.+   .+.+.+.+.  + ..+|++||....|+-+.    ...++.... --+|+|+.+...+..  .+...+.
T Consensus        63 ------~~~---~~~i~~~~~--~-~~~d~~vIEG~gGl~dg~~~s~adla~~l~-~PviLVv~~~~g~~s~aa~l~g~~  129 (433)
T PRK13896         63 ------LSG---EDGMRRNYY--R-GEGDICVVEGVMGLYDGDVSSTAMVAEALD-LPVVLVVDAKAGMESVAATALGFR  129 (433)
T ss_pred             ------hCC---HHHHHHHHH--h-hcCCEEEEECCCccccCCCCCHHHHHHHHC-CCEEEEEcCcccHHHHHHHHHHHH
Confidence                  011   122333332  1 45899999998887432    122222222 248888887777544  3344443


Q ss_pred             HHHc---CCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhh
Q 016622          328 MFSK---LKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTV  382 (386)
Q Consensus       328 ~l~~---~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i  382 (386)
                      .+..   .++++.|||+|++......        ...++..+. ++|++|.||.++.+
T Consensus       130 ~~~~~~~~~~~i~GvIlN~~~~~~h~--------~~l~~~~~~-~i~vlG~lP~~~~~  178 (433)
T PRK13896        130 AYADRIGRDIDVAGVIAQRAHGGRHA--------DGIRDALPD-ELTYFGRIPPRDDL  178 (433)
T ss_pred             HHHHhccCCCcEEEEEEECCCcHHHH--------HHHHHhhhh-cCceeEecccCCCC
Confidence            3333   3799999999998753210        112333333 79999999998765

>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.72  E-value=4.5e-08  Score=95.16  Aligned_cols=237  Identities=14%  Similarity=0.145  Sum_probs=137.1

Q ss_pred             cccHHHHHHHhccCCCCCCCCCcc---ccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeEE
Q 016622           74 GTAENDVLKALSQIIDPDFGTDIV---SCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNV  150 (386)
Q Consensus        74 ~~~~~~i~~~L~~V~dPe~~~div---~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~v  150 (386)
                      .++++|+..+|++.++-.+-.+|.   ..-+..+|.-+-. |+.      +.........+.+..+++|.++..- ...|
T Consensus       292 ~L~eeDL~pvL~kM~ehLitKNVA~eiA~~LcEsV~a~Le-gkk------v~sfs~V~~Tvk~Al~daLvQILTP-~~sV  363 (587)
T KOG0781|consen  292 SLSEEDLNPVLDKMTEHLITKNVAAEIAEKLCESVAASLE-GKK------VGSFSTVESTVKEALRDALVQILTP-QRSV  363 (587)
T ss_pred             cccHhhhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhh-hcc------cccchHHHHHHHHHHHHHHHHHcCC-Cchh
Confidence            445777777777777777766662   2334344332211 111      1111122445555666666555310 0111


Q ss_pred             EEEeCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc-ccc
Q 016622          151 TMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR-LLE  229 (386)
Q Consensus       151 ~l~~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~-~~~  229 (386)
                      .+-        ++=..+.-++.+-+|.|+ |-.||||||--+.+|++|-+.++||++.-||+.+...-..++...+ +..
T Consensus       364 DlL--------RdI~sar~~krPYVi~fv-GVNGVGKSTNLAKIayWLlqNkfrVLIAACDTFRsGAvEQLrtHv~rl~~  434 (587)
T KOG0781|consen  364 DLL--------RDIMSARRRKRPYVISFV-GVNGVGKSTNLAKIAYWLLQNKFRVLIAACDTFRSGAVEQLRTHVERLSA  434 (587)
T ss_pred             hHH--------HHHHHHHhcCCCeEEEEE-eecCccccchHHHHHHHHHhCCceEEEEeccchhhhHHHHHHHHHHHHHH
Confidence            110        000012223456799999 8899999999999999999999999999999988654222111100 000


Q ss_pred             cCCCCCceeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHh------hhhhc
Q 016622          230 MNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLT------LCQVV  303 (386)
Q Consensus       230 ~~~~~~~i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~------~~~~~  303 (386)
                      +          ...-+.++-.|+..         ......++.++..+.+.||+|+|||++...+....      +....
T Consensus       435 l----------~~~~v~lfekGYgk---------d~a~vak~AI~~a~~~gfDVvLiDTAGR~~~~~~lm~~l~k~~~~~  495 (587)
T KOG0781|consen  435 L----------HGTMVELFEKGYGK---------DAAGVAKEAIQEARNQGFDVVLIDTAGRMHNNAPLMTSLAKLIKVN  495 (587)
T ss_pred             h----------ccchhHHHhhhcCC---------ChHHHHHHHHHHHHhcCCCEEEEeccccccCChhHHHHHHHHHhcC
Confidence            0          00112222222222         23445666666666689999999999877542221      12233


Q ss_pred             CCCeEEEEeCC--CcchHHHHHHHHHHHHcCCC--CeEEEEEcCCcC
Q 016622          304 PLTAAVIVTTP--QKLAFIDVAKGVRMFSKLKV--PCIAVVENMCHF  346 (386)
Q Consensus       304 ~~d~vviV~~~--~~~s~~~~~~~~~~l~~~~~--~i~gvVlN~~~~  346 (386)
                      ..|.+++|.++  +..++..+..+-+.|.+...  .+-|+|+.+++.
T Consensus       496 ~pd~i~~vgealvg~dsv~q~~~fn~al~~~~~~r~id~~~ltk~dt  542 (587)
T KOG0781|consen  496 KPDLILFVGEALVGNDSVDQLKKFNRALADHSTPRLIDGILLTKFDT  542 (587)
T ss_pred             CCceEEEehhhhhCcHHHHHHHHHHHHHhcCCCccccceEEEEeccc
Confidence            46899999775  44578888888888877642  367999999874

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=98.61  E-value=7.5e-08  Score=90.99  Aligned_cols=42  Identities=29%  Similarity=0.444  Sum_probs=37.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHC-C-CcEEEEEcCCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGM-G-ARVGIFDADVYGP  215 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~-G-~rVllID~D~~~~  215 (386)
                      +++|+|+ |.+|+||||++++||.+++.+ | ++|++|++|+++.
T Consensus       194 ~~vi~~v-GptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~  237 (282)
T TIGR03499       194 GGVIALV-GPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRI  237 (282)
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccch
Confidence            4689988 669999999999999999976 5 9999999999774

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=98.59  E-value=6.2e-07  Score=86.86  Aligned_cols=168  Identities=17%  Similarity=0.249  Sum_probs=105.4

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHH--HCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEec
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLA--GMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSF  250 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La--~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~  250 (386)
                      .++|+++ |-.||||||+-+.||+.+.  ...+||.+|-.|.++-.....+..-               ...-|+.+.- 
T Consensus       203 ~~vi~LV-GPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Y---------------a~im~vp~~v-  265 (407)
T COG1419         203 KRVIALV-GPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTY---------------ADIMGVPLEV-  265 (407)
T ss_pred             CcEEEEE-CCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHH---------------HHHhCCceEE-
Confidence            6789998 8889999999999999999  5568999999999885432211100               0001222211 


Q ss_pred             CCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC-hHHH-----hhhhhcCCCeEEEEeCCCcchHHHHHH
Q 016622          251 GFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG-DIQL-----TLCQVVPLTAAVIVTTPQKLAFIDVAK  324 (386)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~-~~~~-----~~~~~~~~d~vviV~~~~~~s~~~~~~  324 (386)
                              .....    -+...+..+  .+||+|+|||.+... |...     .+........+.+|...+. ...+++.
T Consensus       266 --------v~~~~----el~~ai~~l--~~~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~-K~~dlke  330 (407)
T COG1419         266 --------VYSPK----ELAEAIEAL--RDCDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATT-KYEDLKE  330 (407)
T ss_pred             --------ecCHH----HHHHHHHHh--hcCCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCc-chHHHHH
Confidence                    01112    333334333  688999999986432 2111     1111112344566665554 5578888


Q ss_pred             HHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE-----ecCCChhh
Q 016622          325 GVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF-----DLPIRPTV  382 (386)
Q Consensus       325 ~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~-----~IP~d~~i  382 (386)
                      +++.+...  ++-|+|+.+.+....        -+..-.+....+.|+..     .||.|-.+
T Consensus       331 i~~~f~~~--~i~~~I~TKlDET~s--------~G~~~s~~~e~~~PV~YvT~GQ~VPeDI~v  383 (407)
T COG1419         331 IIKQFSLF--PIDGLIFTKLDETTS--------LGNLFSLMYETRLPVSYVTNGQRVPEDIVV  383 (407)
T ss_pred             HHHHhccC--CcceeEEEcccccCc--------hhHHHHHHHHhCCCeEEEeCCCCCCchhhh
Confidence            99888875  557999999885442        14566777777888774     57877544

>COG1492 CobQ Cobyric acid synthase [Coenzyme metabolism]

Probab=98.44  E-value=5.9e-07  Score=88.71  Aligned_cols=200  Identities=17%  Similarity=0.191  Sum_probs=116.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccc----------cC----CCC-Ccee
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLE----------MN----PEK-RTII  238 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~----------~~----~~~-~~i~  238 (386)
                      +.|+|.+....+|||++++.|++.++++|++|.=+..  |+-++..+.-.+.....          ..    ... -.+.
T Consensus         2 ~~iMv~GT~S~~GKS~~~aglcRi~~~~G~~V~PFK~--QNMsLNs~it~~G~EIgraQ~~QA~Aa~i~p~v~mNPvLLK   79 (486)
T COG1492           2 KAIMVQGTTSDAGKSFLVAGLCRILARRGYRVAPFKS--QNMSLNSAITPGGGEIGRAQALQALAAGIEPSVHMNPVLLK   79 (486)
T ss_pred             CccEEEeccCCcchhhhhhhhhHHHHhcCCccCCCch--hhcccccEECCCCcEEehhhhHHHHHcCCCCccccCCEEEe
Confidence            3688888999999999999999999999999965533  33333333221111000          00    000 1122


Q ss_pred             eeccCCceEEecCCCCCcc--cc-c--CCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHH--------hhhhhcCC
Q 016622          239 PTEYLGVKLVSFGFSGQGR--AI-M--RGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL--------TLCQVVPL  305 (386)
Q Consensus       239 ~~~~~~l~vl~~~~~~~~~--~~-~--~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~--------~~~~~~~~  305 (386)
                      |....+..++-.|......  .. +  ..+.....+.+.++.+. +.||+|++...++-....+        .++.... 
T Consensus        80 P~sd~~sQVIv~G~~~G~~s~~~yy~~~~~~l~~~v~~s~~~l~-~~~d~Vv~EGAGSpaEiNlr~~Di~Nm~~a~~~d-  157 (486)
T COG1492          80 PCSDTGSQVIVMGKDIGRKSAVEYYQEGKGLLWVAVKESLERLD-REYDVVVIEGAGSPAEINLRDRDIANMGVAEIAD-  157 (486)
T ss_pred             ecCCCceEEEEecccccccChHHHHHHHHHHHHHHHHHHHHHhh-hcccEEEEecCCChhhcCcccccccceeeehhcC-
Confidence            2223356666555432111  11 0  11223445666666555 8999999999875432211        2222221 


Q ss_pred             CeEEEEeCCCcch-HHHHHHHHHHHHcC-CCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhh
Q 016622          306 TAAVIVTTPQKLA-FIDVAKGVRMFSKL-KVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVS  383 (386)
Q Consensus       306 d~vviV~~~~~~s-~~~~~~~~~~l~~~-~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~  383 (386)
                      .-+|+|..-+... +..+.-++..|... ...+.|+|+|+++.+..      .-...++.+.+.+|+|++|.+||.....
T Consensus       158 apvILV~DIdRGGvfAsl~GT~~lL~~~~r~~VkG~iINkFRGd~~------ll~~gik~Le~~tg~~vlGv~P~~~~~~  231 (486)
T COG1492         158 APVILVGDIDRGGVFASLYGTLALLPESDRALVKGFIINKFRGDES------LLDPGLKWLEELTGVPVLGVLPYLKDAL  231 (486)
T ss_pred             CCEEEEEeecccceeeeeeehheecCHhHhcceeEEEEeeeCCCHH------HHhhHHHHHHHhhCCeeEeecccccccc
Confidence            2377777766632 22333334444332 45688999999887652      2235789999999999999999986543

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.25  E-value=3.1e-05  Score=76.67  Aligned_cols=160  Identities=14%  Similarity=0.117  Sum_probs=93.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHH-HC-CCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEec
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLA-GM-GARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSF  250 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La-~~-G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~  250 (386)
                      +.+|++. |..|+||||+...||..+. .. +.++.++-+|.++......+               ......-|+.+...
T Consensus       191 g~vi~lv-GpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL---------------~~~a~ilGvp~~~v  254 (420)
T PRK14721        191 GGVYALI-GPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQL---------------RIYGKLLGVSVRSI  254 (420)
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHH---------------HHHHHHcCCceecC
Confidence            4689998 9999999999999998654 33 47899998888664321100               00001112222211


Q ss_pred             CCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC-hHH--Hhhhhh---cCCCeEEEEeCCCcchHHHHHH
Q 016622          251 GFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG-DIQ--LTLCQV---VPLTAAVIVTTPQKLAFIDVAK  324 (386)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~-~~~--~~~~~~---~~~d~vviV~~~~~~s~~~~~~  324 (386)
                      .         ....    +...+..+  .++|+|+|||++-.. +..  ..+..+   ......++|+.+.. ...++..
T Consensus       255 ~---------~~~d----l~~al~~l--~~~d~VLIDTaGrsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~-~~~~~~~  318 (420)
T PRK14721        255 K---------DIAD----LQLMLHEL--RGKHMVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATS-SGDTLDE  318 (420)
T ss_pred             C---------CHHH----HHHHHHHh--cCCCEEEecCCCCCcchHHHHHHHHHHhccCCCceEEEEEcCCC-CHHHHHH
Confidence            0         0111    11222222  689999999974332 111  111112   12346777776664 4466677


Q ss_pred             HHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          325 GVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       325 ~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      .+..++.  .++-|+|+++.+....        .+.+-.+....++|+..
T Consensus       319 ~~~~f~~--~~~~~~I~TKlDEt~~--------~G~~l~~~~~~~lPi~y  358 (420)
T PRK14721        319 VISAYQG--HGIHGCIITKVDEAAS--------LGIALDAVIRRKLVLHY  358 (420)
T ss_pred             HHHHhcC--CCCCEEEEEeeeCCCC--------ccHHHHHHHHhCCCEEE
Confidence            7777765  5567999999886542        15667777888888764

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=98.19  E-value=1.3e-05  Score=73.34  Aligned_cols=160  Identities=22%  Similarity=0.277  Sum_probs=88.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeec-cCCceEEecC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTE-YLGVKLVSFG  251 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~-~~~l~vl~~~  251 (386)
                      +.+|.|. |-.|+||||+...|-.++..++.+.-+|.+||.-..++.-.+++-+        +.+...+ -...     +
T Consensus        19 p~~ilVv-GMAGSGKTTF~QrL~~hl~~~~~ppYviNLDPAv~~vpy~aniDIR--------DtVkYkEvMkqY-----~   84 (366)
T KOG1532|consen   19 PVIILVV-GMAGSGKTTFMQRLNSHLHAKKTPPYVINLDPAVRNVPYPANIDIR--------DTVKYKEVMKQY-----Q   84 (366)
T ss_pred             CcEEEEE-ecCCCCchhHHHHHHHHHhhccCCCeEEeCCHHHhcCCCccCCchh--------hhhhHHHHHHHh-----C
Confidence            4466666 8899999999999999999998899999999976666543332211        1110000 0000     0


Q ss_pred             CCCCcccccCCchHHHHHH---HHHHhcCCCCCcEEEEcCCCCCCh---------HHHhhhhhcCCCeEEEEeCCCcch-
Q 016622          252 FSGQGRAIMRGPMVSGVIN---QLLTTTEWGELDYLVIDMPPGTGD---------IQLTLCQVVPLTAAVIVTTPQKLA-  318 (386)
Q Consensus       252 ~~~~~~~~~~~~~~~~~l~---~ll~~~~~~~yD~VIIDtpp~~~~---------~~~~~~~~~~~d~vviV~~~~~~s-  318 (386)
                      ...++.....-..+...+.   .+++... +.+||||||||+....         ..-+++...+.-.+.+|-++...+ 
T Consensus        85 LGPNGgI~TsLNLF~tk~dqv~~~iek~~-~~~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p  163 (366)
T KOG1532|consen   85 LGPNGGIVTSLNLFATKFDQVIELIEKRA-EEFDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSP  163 (366)
T ss_pred             CCCCcchhhhHHHHHHHHHHHHHHHHHhh-cccCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCc
Confidence            0111111111122333444   3333333 6799999999985421         111222222211222333333222 


Q ss_pred             ---HHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          319 ---FIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       319 ---~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                         .....-....|-+..++.+ +++|+.+-..
T Consensus       164 ~tFMSNMlYAcSilyktklp~i-vvfNK~Dv~d  195 (366)
T KOG1532|consen  164 TTFMSNMLYACSILYKTKLPFI-VVFNKTDVSD  195 (366)
T ss_pred             hhHHHHHHHHHHHHHhccCCeE-EEEecccccc
Confidence               4455666677778888866 8889988644

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=98.06  E-value=3.9e-05  Score=71.97  Aligned_cols=96  Identities=20%  Similarity=0.232  Sum_probs=66.3

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG  357 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~  357 (386)
                      |+.+++.|+|||+...........+..+|.+++|+.+.........+.++.+...+.+.+ +++||++......      
T Consensus        61 ~~~~~i~liDtPG~~~f~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~~~~~~~~p~i-ivvNK~D~~~~~~------  133 (268)
T cd04170          61 WKGHKINLIDTPGYADFVGETRAALRAADAALVVVSAQSGVEVGTEKLWEFADEAGIPRI-IFINKMDRERADF------  133 (268)
T ss_pred             ECCEEEEEEECcCHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEE-EEEECCccCCCCH------
Confidence            467899999999754322223334556799999999887666667777888888888866 6889998654311      


Q ss_pred             CChHHHHHHHhCCCeE-EecCCCh
Q 016622          358 RGSGSQVVQQFGIPHL-FDLPIRP  380 (386)
Q Consensus       358 ~~~~~~i~~~~g~pvl-~~IP~d~  380 (386)
                      ....+++.+.++.+++ ..+|...
T Consensus       134 ~~~~~~l~~~~~~~~~~~~ip~~~  157 (268)
T cd04170         134 DKTLAALQEAFGRPVVPLQLPIGE  157 (268)
T ss_pred             HHHHHHHHHHhCCCeEEEEecccC
Confidence            1346778888887655 4677543

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

>COG1341 Predicted GTPase or GTP-binding protein [General function prediction only]

Probab=97.96  E-value=0.00015  Score=70.20  Aligned_cols=43  Identities=37%  Similarity=0.429  Sum_probs=38.2

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSL  217 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl  217 (386)
                      -++++. |--++||||+|.-||-.+-.+|++|.+||+|+.++.+
T Consensus        74 ~~vmvv-G~vDSGKSTLt~~LaN~~l~rG~~v~iiDaDvGQ~ei  116 (398)
T COG1341          74 GVVMVV-GPVDSGKSTLTTYLANKLLARGRKVAIIDADVGQSEI  116 (398)
T ss_pred             cEEEEE-CCcCcCHHHHHHHHHHHHhhcCceEEEEeCCCCCccc
Confidence            388888 5559999999999999999999999999999988764

>cd00477 FTHFS Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate

Probab=97.92  E-value=2e-05  Score=78.20  Aligned_cols=52  Identities=23%  Similarity=0.313  Sum_probs=47.2

Q ss_pred             CceEEEEEeCcC---CCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc
Q 016622          172 ISNIVAVSSCKG---GVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR  226 (386)
Q Consensus       172 ~~kvI~v~s~kG---GvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~  226 (386)
                      ..|+|.|+|..+   |+||||++++||..|++.|+||+++   ++.|++...||....
T Consensus        37 ~~k~IlVTs~~PTp~GEGKTT~si~La~~la~~Gkk~l~~---LR~PSlg~~fg~kgg   91 (524)
T cd00477          37 DGKLILVTAITPTPAGEGKTTTTIGLAQALNAHGKKAIAC---LREPSLGPTFGIKGG   91 (524)
T ss_pred             CCeEEEEEeCCCCCCCCCHHHHHHHHHHHHHHhCCcEEEE---EecCCcCcccCCCCC
Confidence            468999999999   9999999999999999999999988   889999998876543

FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2 fixation (acetogenesis) and the glycine synthase/reductase pathways of purinolysis. The key physiological role of this enzyme in acetogens is to catalyze the formylation of tetrahydrofolate, an initial step in the reduction of carbon dioxide and other one-carbon precursors to acetate. In purinolytic organisms, the enzymatic reaction is reversed, liberating formate from 10-formyltetrahydrofolate with concurrent production of ATP.

>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=97.89  E-value=6.8e-06  Score=75.65  Aligned_cols=39  Identities=31%  Similarity=0.304  Sum_probs=29.1

Q ss_pred             CcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCc
Q 016622          181 CKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPT  219 (386)
Q Consensus       181 ~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~  219 (386)
                      |-.|+||||.+.++..++...|++|.+|.+||....++.
T Consensus         3 GpaGSGKTT~~~~~~~~~~~~~~~~~~vNLDPa~~~~~y   41 (238)
T PF03029_consen    3 GPAGSGKTTFCKGLSEWLESNGRDVYIVNLDPAVENLPY   41 (238)
T ss_dssp             ESTTSSHHHHHHHHHHHHTTT-S-EEEEE--TT-S--SS
T ss_pred             CCCCCCHHHHHHHHHHHHHhccCCceEEEcchHhccccc
Confidence            667999999999999999999999999999997765543

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK13506 formate--tetrahydrofolate ligase; Provisional

Probab=97.85  E-value=2.8e-05  Score=77.96  Aligned_cols=52  Identities=21%  Similarity=0.390  Sum_probs=47.1

Q ss_pred             CceEEEEEeCcC---CCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc
Q 016622          172 ISNIVAVSSCKG---GVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR  226 (386)
Q Consensus       172 ~~kvI~v~s~kG---GvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~  226 (386)
                      ..|+|.|+|.-+   |+||||++++||..|++.|+||  ||+ ++.|++...||....
T Consensus        53 ~~k~IlVTs~~PTp~GEGKTT~si~La~~la~~Gk~~--i~~-LR~Pslg~~fg~kgg  107 (578)
T PRK13506         53 KGKLVLVTAITPTPLGEGKTVTTIGLTQGLNALGQKV--CAC-IRQPSMGPVFGVKGG  107 (578)
T ss_pred             CCeEEEEEecCCCCCCCCHHHHHHHHHHHHHHhCCce--EEE-eccCCcCCccCCCCC
Confidence            468999999999   9999999999999999999999  888 999999988876543

>cd04168 TetM_like Tet(M)-like subfamily

Probab=97.85  E-value=0.00034  Score=64.43  Aligned_cols=89  Identities=16%  Similarity=0.190  Sum_probs=60.8

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG  357 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~  357 (386)
                      |+.+.+.++|||+...........+..+|.+++|+.....-.......++.+++.+.+++ +++||++.....     + 
T Consensus        61 ~~~~~i~liDTPG~~~f~~~~~~~l~~aD~~IlVvd~~~g~~~~~~~~~~~~~~~~~P~i-ivvNK~D~~~a~-----~-  133 (237)
T cd04168          61 WEDTKVNLIDTPGHMDFIAEVERSLSVLDGAILVISAVEGVQAQTRILWRLLRKLNIPTI-IFVNKIDRAGAD-----L-  133 (237)
T ss_pred             ECCEEEEEEeCCCccchHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCEE-EEEECccccCCC-----H-
Confidence            367889999998543222222233456799999988766544566777888888888876 788999865421     1 


Q ss_pred             CChHHHHHHHhCCCeE
Q 016622          358 RGSGSQVVQQFGIPHL  373 (386)
Q Consensus       358 ~~~~~~i~~~~g~pvl  373 (386)
                      ....+++.+.++.+++
T Consensus       134 ~~~~~~i~~~~~~~~~  149 (237)
T cd04168         134 EKVYQEIKEKLSSDIV  149 (237)
T ss_pred             HHHHHHHHHHHCCCeE
Confidence            2467888899986544

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=97.84  E-value=0.00029  Score=66.05  Aligned_cols=94  Identities=16%  Similarity=0.102  Sum_probs=60.2

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG  357 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~  357 (386)
                      |..+.+.++|||+...........+..+|.+++|+.+...--....+.++.++..+.+++ +++||++.....     + 
T Consensus        68 ~~~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvda~~g~~~~~~~i~~~~~~~~~P~i-ivvNK~D~~~a~-----~-  140 (267)
T cd04169          68 YRDCVINLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLRGIPII-TFINKLDREGRD-----P-  140 (267)
T ss_pred             eCCEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCccHHHHHHHHHHHhcCCCEE-EEEECCccCCCC-----H-
Confidence            478899999998643211112233456799999988765433445667777777788865 678999854321     0 


Q ss_pred             CChHHHHHHHhCCCeEE-ecCC
Q 016622          358 RGSGSQVVQQFGIPHLF-DLPI  378 (386)
Q Consensus       358 ~~~~~~i~~~~g~pvl~-~IP~  378 (386)
                      ....+++.+.++.+.+. .+|.
T Consensus       141 ~~~~~~l~~~l~~~~~~~~~Pi  162 (267)
T cd04169         141 LELLDEIEEELGIDCTPLTWPI  162 (267)
T ss_pred             HHHHHHHHHHHCCCceeEEecc
Confidence            12367888888876543 4554

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.

>PLN02974 adenosylmethionine-8-amino-7-oxononanoate transaminase

Probab=97.84  E-value=0.00054  Score=73.50  Aligned_cols=83  Identities=12%  Similarity=0.137  Sum_probs=58.8

Q ss_pred             CCCcEEEEcCCCCCC-----h-HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCce
Q 016622          279 GELDYLVIDMPPGTG-----D-IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKR  352 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~-----~-~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~  352 (386)
                      ..+|++||.+.+|+-     + ....+..... --+|+|+.....++..+.-.++.++..|+++.|+|+|....      
T Consensus       183 ~~~d~vlVEGAGGl~vPl~~~~~~~Dl~~~l~-lPvILV~~~~LG~INhtllt~eaL~~rGi~v~gii~~~~~~------  255 (817)
T PLN02974        183 GGRVLALVETAGGVASPGPSGTLQCDLYRPLR-LPAILVGDGRLGGISATLAAYESLLLRGYDVVAVVIEDHGL------  255 (817)
T ss_pred             ccCCeEEEECCCcccccCCCCCCHHHHHHHhC-CCEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEEEeCCcc------
Confidence            358999999999872     1 1111111111 24899999999999999999999999999999999995321      


Q ss_pred             ecccCCChHHHHHHHh--CCCeEE
Q 016622          353 YYPFGRGSGSQVVQQF--GIPHLF  374 (386)
Q Consensus       353 ~~~~~~~~~~~i~~~~--g~pvl~  374 (386)
                            ...+.+.+.+  ++|++.
T Consensus       256 ------~N~~~l~~~~~~~~pv~~  273 (817)
T PLN02974        256 ------SNEKALLSYLSNRVPVFV  273 (817)
T ss_pred             ------chHHHHHHHHhcCCcEEe
Confidence                  2334444432  888876

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

Probab=97.80  E-value=0.0003  Score=66.08  Aligned_cols=95  Identities=19%  Similarity=0.120  Sum_probs=63.5

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG  357 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~  357 (386)
                      |+.+.+.++|||+...........+..+|.+++|+.+...--....+.++.+.+.+.+++ +++||.+......      
T Consensus        61 ~~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVVDa~~g~~~~t~~~~~~~~~~~~p~i-vviNK~D~~~a~~------  133 (270)
T cd01886          61 WKDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVAGVEPQTETVWRQADRYNVPRI-AFVNKMDRTGADF------  133 (270)
T ss_pred             ECCEEEEEEECCCcHHHHHHHHHHHHHcCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEE-EEEECCCCCCCCH------
Confidence            467889999998643222222333556799999988866544566788888888888887 7889998643211      


Q ss_pred             CChHHHHHHHhCCC-eEEecCCC
Q 016622          358 RGSGSQVVQQFGIP-HLFDLPIR  379 (386)
Q Consensus       358 ~~~~~~i~~~~g~p-vl~~IP~d  379 (386)
                      ....+++.+.++.. +...+|..
T Consensus       134 ~~~~~~l~~~l~~~~~~~~~Pis  156 (270)
T cd01886         134 FRVVEQIREKLGANPVPLQLPIG  156 (270)
T ss_pred             HHHHHHHHHHhCCCceEEEeccc
Confidence            12467888888754 34456654

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

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=97.77  E-value=3.3e-05  Score=66.41  Aligned_cols=54  Identities=24%  Similarity=0.230  Sum_probs=46.9

Q ss_pred             cCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCc
Q 016622          170 QKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPE  224 (386)
Q Consensus       170 ~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~  224 (386)
                      ...+.+|.|| |-.|+||||+|..|...|.++|++|-++|.|.-+..+..-+|..
T Consensus        20 ~~~~~viW~T-GLSGsGKSTiA~ale~~L~~~G~~~y~LDGDnvR~gL~~dLgFs   73 (197)
T COG0529          20 GQKGAVIWFT-GLSGSGKSTIANALEEKLFAKGYHVYLLDGDNVRHGLNRDLGFS   73 (197)
T ss_pred             CCCCeEEEee-cCCCCCHHHHHHHHHHHHHHcCCeEEEecChhHhhcccCCCCCC
Confidence            3456799999 88999999999999999999999999999999888877666543

>COG0857 Pta BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]

Probab=97.73  E-value=0.00024  Score=68.71  Aligned_cols=193  Identities=15%  Similarity=0.175  Sum_probs=99.5

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEE-ec
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLV-SF  250 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl-~~  250 (386)
                      |++++.+.+...|+|||+++.+|++.|-++|.+|.++-.=.  +.    .+.+..     ...+.+.......+..= |.
T Consensus         1 m~~~l~l~p~~~~~G~tsi~lgLl~~l~~k~~kva~~kPI~--~~----~~~~~~-----~~~e~~~~~~~~~l~~~~~~   69 (354)
T COG0857           1 MSRTLLLIPTETGVGKTSISLGLLRALEQKGLKVAYFKPIG--TR----TGKDAD-----DLTEEDIRATSSSLTYAEPL   69 (354)
T ss_pred             CcceEEEeccCCCccHHHHHHHHHHHHHHcCceeEEEeccc--cc----cCCccc-----hhHHHHHHHhhhhcccCccc
Confidence            67899999999999999999999999999999999985421  11    111100     00000000000000000 00


Q ss_pred             CCCCCccccc---CCchHHHHHHHHHHhcCCCCCcEEEEcCC-CCC-----ChHHHhhhhhcCCCeEEEEeCCCcchHHH
Q 016622          251 GFSGQGRAIM---RGPMVSGVINQLLTTTEWGELDYLVIDMP-PGT-----GDIQLTLCQVVPLTAAVIVTTPQKLAFID  321 (386)
Q Consensus       251 ~~~~~~~~~~---~~~~~~~~l~~ll~~~~~~~yD~VIIDtp-p~~-----~~~~~~~~~~~~~d~vviV~~~~~~s~~~  321 (386)
                      .. .......   ..+.+.+.+-.-.+.+. ...|++++..- |..     .+....++.... -.++++..+.......
T Consensus        70 ~~-~~ae~L~~~~~~d~l~e~i~~~y~e~~-~~~~~vv~~g~~~~~~~~~~~~ln~~iA~~Ln-a~~vlva~~~~~~~~~  146 (354)
T COG0857          70 VL-SFAEVLLSTGQDDVLLEEILANYAELA-KDADVVVVEGDVPTREGPYALDLNYEIAKNLN-AAAVLVARALLVTPYE  146 (354)
T ss_pred             ch-hhHHHHhccccchHHHHHHHHHHHHHh-ccCceEEeccceeccccCccccccHHHHhhcC-cchhhccccccCChhh
Confidence            00 0000011   11112222222222333 35566666542 111     111222222223 3456666666555444


Q ss_pred             HHH----HHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhh
Q 016622          322 VAK----GVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVS  383 (386)
Q Consensus       322 ~~~----~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~  383 (386)
                      ...    ....+...+..+.|||+|.+.....     .+.+....++.+..+..+++.+|.++-++
T Consensus       147 ~~~~i~~~~~~~~~~~~~l~gVv~N~~~~~~~-----~~~~~~l~~~~~~~~~~~~~~l~~~~ll~  207 (354)
T COG0857         147 LKSRVELALAAFGAAGNNLAGVVINNAPVDEA-----GRTEDLLAEFLESSGIAVVGVLPPNRLLR  207 (354)
T ss_pred             hhhHHHHHHHHhcccCCceEEEEecCCChhhh-----hhhhhHHHHHhhhccccccccCCHHHHhc
Confidence            443    3344444455899999996665443     23345678888888888999998776543

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=97.69  E-value=0.00037  Score=59.91  Aligned_cols=42  Identities=21%  Similarity=0.246  Sum_probs=37.7

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      |+++++|+ |.-|+||||+.-.|...|.++|+||.+|.-.-..
T Consensus         1 m~~Il~iv-G~k~SGKTTLie~lv~~L~~~G~rVa~iKH~hh~   42 (161)
T COG1763           1 MMKILGIV-GYKNSGKTTLIEKLVRKLKARGYRVATVKHAHHD   42 (161)
T ss_pred             CCcEEEEE-ecCCCChhhHHHHHHHHHHhCCcEEEEEEecCCC
Confidence            57899999 6669999999999999999999999999877655

>cd01884 EF_Tu EF-Tu subfamily

Probab=97.63  E-value=0.00052  Score=61.25  Aligned_cols=69  Identities=16%  Similarity=0.236  Sum_probs=48.9

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +.+.+.++|||+-..-.......+..+|.+++|+.+...--....+.+..+.+.+.+.+-+++||.+..
T Consensus        63 ~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~~~iIvviNK~D~~  131 (195)
T cd01884          63 ANRHYAHVDCPGHADYIKNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQVGVPYIVVFLNKADMV  131 (195)
T ss_pred             CCeEEEEEECcCHHHHHHHHHHHhhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCcEEEEEeCCCCC
Confidence            567789999995322112223335567999999988765456677888888888887666888999863

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.

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=97.63  E-value=0.00022  Score=61.22  Aligned_cols=39  Identities=23%  Similarity=0.296  Sum_probs=33.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      +|+|+ |..|+||||++..|+..|..+|++|.+|+.|..+
T Consensus         1 vi~i~-G~~gsGKTtl~~~l~~~l~~~G~~V~viK~~~~~   39 (155)
T TIGR00176         1 VLQIV-GPKNSGKTTLIERLVKALKARGYRVATIKHDHHD   39 (155)
T ss_pred             CEEEE-CCCCCCHHHHHHHHHHHHHhcCCeEEEEeccccc
Confidence            36676 6679999999999999999999999999988543

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional

Probab=97.58  E-value=0.00033  Score=63.85  Aligned_cols=38  Identities=21%  Similarity=0.226  Sum_probs=34.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      |++|.|++. .|+||||++.+|+..|.++|+||.++..+
T Consensus         1 m~vi~ivG~-~gsGKTtl~~~l~~~L~~~G~~V~viK~~   38 (229)
T PRK14494          1 MRAIGVIGF-KDSGKTTLIEKILKNLKERGYRVATAKHT   38 (229)
T ss_pred             CeEEEEECC-CCChHHHHHHHHHHHHHhCCCeEEEEEec
Confidence            468999966 59999999999999999999999999754

>cd00881 GTP_translation_factor GTP translation factor family

Probab=97.57  E-value=0.00053  Score=59.86  Aligned_cols=69  Identities=14%  Similarity=0.057  Sum_probs=44.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ..++++++|+|+...........+..+|.+++|+.............+..+...+.+++ +|+|+++...
T Consensus        60 ~~~~~~liDtpG~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~i~-iv~nK~D~~~  128 (189)
T cd00881          60 PDRRVNFIDTPGHEDFSSEVIRGLSVSDGAILVVDANEGVQPQTREHLRIAREGGLPII-VAINKIDRVG  128 (189)
T ss_pred             CCEEEEEEeCCCcHHHHHHHHHHHHhcCEEEEEEECCCCCcHHHHHHHHHHHHCCCCeE-EEEECCCCcc
Confidence            36789999998533221222222446799999988776544455566666766666655 8889988643

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.

>cd04167 Snu114p Snu114p subfamily

Probab=97.52  E-value=0.00067  Score=61.28  Aligned_cols=68  Identities=13%  Similarity=0.047  Sum_probs=43.3

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|||+...........+..+|.+++|+...........+.++.+...+.+++ +|+||++..
T Consensus        69 ~~~~i~iiDtpG~~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~~~~~~~~~~~~~p~i-iviNK~D~~  136 (213)
T cd04167          69 KSYLFNIIDTPGHVNFMDEVAAALRLSDGVVLVVDVVEGVTSNTERLIRHAILEGLPIV-LVINKIDRL  136 (213)
T ss_pred             CEEEEEEEECCCCcchHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEE-EEEECcccC
Confidence            46789999999643322223333556799999988755432334455555555566655 888999853

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.

>cd04163 Era Era subfamily

Probab=97.51  E-value=0.0017  Score=54.98  Aligned_cols=68  Identities=12%  Similarity=0.086  Sum_probs=41.6

Q ss_pred             CCCcEEEEcCCCCCChHH--------HhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQ--------LTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~--------~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..++++++|||+-.....        ........+|.+++|+......-.......+.+...+.++ .+|+||++..
T Consensus        49 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~i~~v~d~~~~~~~~~~~~~~~~~~~~~~~-iiv~nK~Dl~  124 (168)
T cd04163          49 DDAQIIFVDTPGIHKPKKKLGERMVKAAWSALKDVDLVLFVVDASEPIGEGDEFILELLKKSKTPV-ILVLNKIDLV  124 (168)
T ss_pred             CCeEEEEEECCCCCcchHHHHHHHHHHHHHHHHhCCEEEEEEECCCccCchHHHHHHHHHHhCCCE-EEEEEchhcc
Confidence            357899999986332110        1112244568888888877653334455556666656664 4888998854

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.

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=97.46  E-value=0.00045  Score=59.53  Aligned_cols=41  Identities=24%  Similarity=0.374  Sum_probs=36.0

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      |++|+|++ ..|+||||++..|...|..+|++|..|..|..+
T Consensus         1 m~vi~i~G-~~gsGKTTli~~L~~~l~~~g~~V~~iK~~~~~   41 (159)
T cd03116           1 MKVIGFVG-YSGSGKTTLLEKLIPALSARGLRVAVIKHDHHD   41 (159)
T ss_pred             CeEEEEEC-CCCCCHHHHHHHHHHHHHHcCCcEEEEEecCCc
Confidence            46889984 469999999999999999999999999987654

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=97.43  E-value=0.00026  Score=60.59  Aligned_cols=44  Identities=27%  Similarity=0.340  Sum_probs=38.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLP  218 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~  218 (386)
                      .+|.++ |..|+||||+|..|...|..+|.+|.++|.|..+..+.
T Consensus         3 ~vIwlt-GlsGsGKtTlA~~L~~~L~~~g~~~~~LDgD~lR~~l~   46 (156)
T PF01583_consen    3 FVIWLT-GLSGSGKTTLARALERRLFARGIKVYLLDGDNLRHGLN   46 (156)
T ss_dssp             EEEEEE-SSTTSSHHHHHHHHHHHHHHTTS-EEEEEHHHHCTTTT
T ss_pred             EEEEEE-CCCCCCHHHHHHHHHHHHHHcCCcEEEecCcchhhccC
Confidence            478888 99999999999999999999999999999998775553

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>PRK00089 era GTPase Era; Reviewed

Probab=97.42  E-value=0.0029  Score=60.00  Aligned_cols=68  Identities=13%  Similarity=0.115  Sum_probs=42.2

Q ss_pred             CCCcEEEEcCCCCCChH--------HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDI--------QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~--------~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +.++++++|||+-....        ......+..+|.+++|++....--......++.+...+.+++ +|+|+++..
T Consensus        51 ~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~~D~il~vvd~~~~~~~~~~~i~~~l~~~~~pvi-lVlNKiDl~  126 (292)
T PRK00089         51 DDAQIIFVDTPGIHKPKRALNRAMNKAAWSSLKDVDLVLFVVDADEKIGPGDEFILEKLKKVKTPVI-LVLNKIDLV  126 (292)
T ss_pred             CCceEEEEECCCCCCchhHHHHHHHHHHHHHHhcCCEEEEEEeCCCCCChhHHHHHHHHhhcCCCEE-EEEECCcCC
Confidence            45789999998643211        111122446788999988766222344555666666566655 788998864

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=97.39  E-value=0.0015  Score=66.96  Aligned_cols=94  Identities=15%  Similarity=0.098  Sum_probs=61.0

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG  357 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~  357 (386)
                      |+.+.+.++|||+...........+..+|.+++|+.+...--..+.+.++.++..+++++ +++|+++.....  +    
T Consensus        76 ~~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~iPii-v~iNK~D~~~a~--~----  148 (526)
T PRK00741         76 YRDCLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQTRKLMEVCRLRDTPIF-TFINKLDRDGRE--P----  148 (526)
T ss_pred             ECCEEEEEEECCCchhhHHHHHHHHHHCCEEEEEEecCCCCCHHHHHHHHHHHhcCCCEE-EEEECCcccccC--H----
Confidence            367889999998643212222333556799999988765434456777888888889866 778998854321  0    


Q ss_pred             CChHHHHHHHhCCCeE-EecCC
Q 016622          358 RGSGSQVVQQFGIPHL-FDLPI  378 (386)
Q Consensus       358 ~~~~~~i~~~~g~pvl-~~IP~  378 (386)
                      ....+++.+.++.+.+ ..+|.
T Consensus       149 ~~~l~~i~~~l~~~~~p~~~Pi  170 (526)
T PRK00741        149 LELLDEIEEVLGIACAPITWPI  170 (526)
T ss_pred             HHHHHHHHHHhCCCCeeEEecc
Confidence            1236788888887643 24443

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=97.36  E-value=0.0009  Score=60.26  Aligned_cols=68  Identities=12%  Similarity=0.175  Sum_probs=44.7

Q ss_pred             CCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ....+.|+|||+ ..+. ......+..+|.+++|+.....-.....+...+++..+.+.+-+|+||++..
T Consensus        75 ~~~~~~liDTpG-~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~~~~~~~~~~~~~~~iIvviNK~D~~  143 (208)
T cd04166          75 PKRKFIIADTPG-HEQYTRNMVTGASTADLAILLVDARKGVLEQTRRHSYILSLLGIRHVVVAVNKMDLV  143 (208)
T ss_pred             CCceEEEEECCc-HHHHHHHHHHhhhhCCEEEEEEECCCCccHhHHHHHHHHHHcCCCcEEEEEEchhcc
Confidence            566889999985 3321 1122234567999999888765444455556666666766555789999864

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.

>PRK14495 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional

Probab=97.34  E-value=0.00076  Score=66.60  Aligned_cols=39  Identities=18%  Similarity=0.242  Sum_probs=34.8

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      |++|+|++.| |+||||+..+|...|..+|+||.+|.-+-
T Consensus         1 MkVi~IvG~s-gSGKTTLiekLI~~L~~rG~rVavIKH~h   39 (452)
T PRK14495          1 MRVYGIIGWK-DAGKTGLVERLVAAIAARGFSVSTVKHSH   39 (452)
T ss_pred             CcEEEEEecC-CCCHHHHHHHHHHHHHhCCCeEEEEeccC
Confidence            4699999655 99999999999999999999999987654

>cd03112 CobW_like The function of this protein family is unkown

Probab=97.34  E-value=0.0036  Score=53.85  Aligned_cols=141  Identities=11%  Similarity=0.107  Sum_probs=71.2

Q ss_pred             EEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCCCcc
Q 016622          178 VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQGR  257 (386)
Q Consensus       178 v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~~~~  257 (386)
                      +..|.-|+||||+...+....  .|.++.++-.|........      ....          .  .+..++..+   .+.
T Consensus         4 ~l~G~~GsGKTtl~~~l~~~~--~~~~~~~i~~~~G~~~~d~------~~~~----------~--~~~~v~~l~---~GC   60 (158)
T cd03112           4 VLTGFLGAGKTTLLNHILTEQ--HGRKIAVIENEFGEVGIDN------QLVV----------D--TDEEIIEMN---NGC   60 (158)
T ss_pred             EEEECCCCCHHHHHHHHHhcc--cCCcEEEEecCCCccchhH------HHHh----------C--CCceEEEeC---CCE
Confidence            344888999999999888653  5889988877753322211      0000          0  011111100   011


Q ss_pred             ccc-CCchHHHHHHHHHHhc--CCCCCcEEEEcCCCCCChHHHh--------hhhhcCCCeEEEEeCCCcchH--HHHHH
Q 016622          258 AIM-RGPMVSGVINQLLTTT--EWGELDYLVIDMPPGTGDIQLT--------LCQVVPLTAAVIVTTPQKLAF--IDVAK  324 (386)
Q Consensus       258 ~~~-~~~~~~~~l~~ll~~~--~~~~yD~VIIDtpp~~~~~~~~--------~~~~~~~d~vviV~~~~~~s~--~~~~~  324 (386)
                      ..- ....+...+.++++.+  ....+|+|+||+++........        .......|.++.++++.....  .....
T Consensus        61 iCC~~~~~l~~~l~~l~~~~~~~~~~~d~I~IEt~G~~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~~  140 (158)
T cd03112          61 ICCTVRGDLIRALLDLLERLDAGKIAFDRIVIETTGLADPGPVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQTE  140 (158)
T ss_pred             eEeeCchhHHHHHHHHHHHHHhccCCCCEEEEECCCcCCHHHHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccHH
Confidence            110 1123444554444332  1257999999998644322111        111223577888888654321  11223


Q ss_pred             HHHHHHcCCCCeEEEEEcCCc
Q 016622          325 GVRMFSKLKVPCIAVVENMCH  345 (386)
Q Consensus       325 ~~~~l~~~~~~i~gvVlN~~~  345 (386)
                      ..++++....    +|+||++
T Consensus       141 ~~~Qi~~ad~----ivlnk~d  157 (158)
T cd03112         141 AQSQIAFADR----ILLNKTD  157 (158)
T ss_pred             HHHHHHHCCE----EEEeccc
Confidence            3344444432    7889875

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.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.34  E-value=0.00055  Score=61.53  Aligned_cols=38  Identities=26%  Similarity=0.353  Sum_probs=34.1

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .++.|+ |.+|+|||+++..++...++.|.+|++||++-
T Consensus        13 ~i~~i~-G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~   50 (209)
T TIGR02237        13 TITQIY-GPPGSGKTNICMILAVNAARQGKKVVYIDTEG   50 (209)
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence            466666 89999999999999999999999999999984

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>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=97.32  E-value=0.0014  Score=57.81  Aligned_cols=68  Identities=18%  Similarity=0.204  Sum_probs=50.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.+||||+-..........+..+|.+++|+.+...--....+.++.+...+++ +-+++|+++..
T Consensus        68 ~~~~i~~iDtPG~~~f~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~~~p-~ivvlNK~D~~  135 (188)
T PF00009_consen   68 NNRKITLIDTPGHEDFIKEMIRGLRQADIAILVVDANDGIQPQTEEHLKILRELGIP-IIVVLNKMDLI  135 (188)
T ss_dssp             SSEEEEEEEESSSHHHHHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHTT-S-EEEEEETCTSS
T ss_pred             cccceeecccccccceeecccceecccccceeeeecccccccccccccccccccccc-eEEeeeeccch
Confidence            678999999995322122223335567999999999876667788999999999999 55888999865

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 ....

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.30  E-value=0.0017  Score=55.01  Aligned_cols=37  Identities=30%  Similarity=0.312  Sum_probs=32.8

Q ss_pred             EeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCC
Q 016622          179 SSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGP  215 (386)
Q Consensus       179 ~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~  215 (386)
                      ..|+.|+||||++..++..++..|.+|++++.+....
T Consensus         4 i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~   40 (165)
T cd01120           4 VFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIE   40 (165)
T ss_pred             EeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchH
Confidence            3488999999999999999999999999999986543

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.

>PRK04296 thymidine kinase; Provisional

Probab=97.30  E-value=0.0073  Score=53.59  Aligned_cols=35  Identities=26%  Similarity=0.308  Sum_probs=30.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      .++.++ |..|+||||.+..++..++.+|++|+++.
T Consensus         3 ~i~lit-G~~GsGKTT~~l~~~~~~~~~g~~v~i~k   37 (190)
T PRK04296          3 KLEFIY-GAMNSGKSTELLQRAYNYEERGMKVLVFK   37 (190)
T ss_pred             EEEEEE-CCCCCHHHHHHHHHHHHHHHcCCeEEEEe
Confidence            345554 88899999999999999999999999994

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=97.29  E-value=0.00074  Score=56.91  Aligned_cols=43  Identities=30%  Similarity=0.277  Sum_probs=33.2

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEE-EEEcCCCCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVG-IFDADVYGPSL  217 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVl-lID~D~~~~sl  217 (386)
                      ++|+|++.| |+||||++..|...|.++|++|+ +.|.|..++.+
T Consensus         1 pvv~VvG~~-~sGKTTl~~~Li~~l~~~g~~v~~ik~~~~g~~~~   44 (140)
T PF03205_consen    1 PVVQVVGPK-NSGKTTLIRKLINELKRRGYRVAVIKHTDHGQFEI   44 (140)
T ss_dssp             -EEEEEEST-TSSHHHHHHHHHHHHHHTT--EEEEEE-STTSTTC
T ss_pred             CEEEEECCC-CCCHHHHHHHHHHHHhHcCCceEEEEEccCCCccc
Confidence            378999655 99999999999999999999999 88888744443

>TIGR00503 prfC peptide chain release factor 3

Probab=97.27  E-value=0.002  Score=66.16  Aligned_cols=87  Identities=13%  Similarity=0.039  Sum_probs=56.2

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG  357 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~  357 (386)
                      |+.+.+.|+|||+...-.......+..+|.+++|+.+...-...+...++.++..+.+++ +++||++......      
T Consensus        77 ~~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~~Pii-vviNKiD~~~~~~------  149 (527)
T TIGR00503        77 YRDCLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRLRDTPIF-TFMNKLDRDIRDP------  149 (527)
T ss_pred             eCCeEEEEEECCChhhHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEE-EEEECccccCCCH------
Confidence            367889999999642211112233556799999998876434456677777777777755 7789998643211      


Q ss_pred             CChHHHHHHHhCCC
Q 016622          358 RGSGSQVVQQFGIP  371 (386)
Q Consensus       358 ~~~~~~i~~~~g~p  371 (386)
                      ....+++.+.++..
T Consensus       150 ~~ll~~i~~~l~~~  163 (527)
T TIGR00503       150 LELLDEVENELKIN  163 (527)
T ss_pred             HHHHHHHHHHhCCC
Confidence            12457777777754

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.

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

Probab=97.26  E-value=0.0022  Score=54.95  Aligned_cols=68  Identities=15%  Similarity=0.112  Sum_probs=44.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+++.++|||+..............+|.+++|+.+...........+..++..+.+++ +|+|+++..
T Consensus        48 ~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~d~~~~~~~~~~~~~~~~~~~~~p~i-vv~NK~Dl~  115 (168)
T cd01887          48 KIPGITFIDTPGHEAFTNMRARGASLTDIAILVVAADDGVMPQTIEAIKLAKAANVPFI-VALNKIDKP  115 (168)
T ss_pred             CcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEEECCCCccHHHHHHHHHHHHcCCCEE-EEEEceecc
Confidence            47899999998632221222222445789999988876444455556666777777754 788998854

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.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=97.26  E-value=0.0019  Score=56.22  Aligned_cols=42  Identities=24%  Similarity=0.376  Sum_probs=36.0

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      ++++|+|+ |..|+||||+...|...|..+|+||..|.-+..+
T Consensus         5 ~~~ii~iv-G~sgsGKTTLi~~li~~l~~~g~~vg~Ik~~~~~   46 (173)
T PRK10751          5 MIPLLAIA-AWSGTGKTTLLKKLIPALCARGIRPGLIKHTHHD   46 (173)
T ss_pred             CceEEEEE-CCCCChHHHHHHHHHHHHhhcCCeEEEEEEcCCC
Confidence            45677887 7889999999999999999999999999876544

>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=97.25  E-value=0.0013  Score=56.35  Aligned_cols=92  Identities=13%  Similarity=0.104  Sum_probs=56.7

Q ss_pred             CCCcEEEEcCCCCCC------hHHHhhhh--hcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCC
Q 016622          279 GELDYLVIDMPPGTG------DIQLTLCQ--VVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADG  350 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~------~~~~~~~~--~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~  350 (386)
                      ....+.++|+|+-.+      +.......  ....|.++.|+++...  +.-..+...+.+.|.+++ +++||++.....
T Consensus        45 ~~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~ii~VvDa~~l--~r~l~l~~ql~e~g~P~v-vvlN~~D~a~~~  121 (156)
T PF02421_consen   45 GDQQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLIIVVVDATNL--ERNLYLTLQLLELGIPVV-VVLNKMDEAERK  121 (156)
T ss_dssp             TTEEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEEEEEEEGGGH--HHHHHHHHHHHHTTSSEE-EEEETHHHHHHT
T ss_pred             cCceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEEEEECCCCCH--HHHHHHHHHHHHcCCCEE-EEEeCHHHHHHc
Confidence            457899999997322      12221111  2357899999888764  444567777788899966 888998865422


Q ss_pred             ceecccCCChHHHHHHHhCCCeEEecCC
Q 016622          351 KRYYPFGRGSGSQVVQQFGIPHLFDLPI  378 (386)
Q Consensus       351 ~~~~~~~~~~~~~i~~~~g~pvl~~IP~  378 (386)
                      ...     -..+.+.+.+|+|++...-.
T Consensus       122 g~~-----id~~~Ls~~Lg~pvi~~sa~  144 (156)
T PF02421_consen  122 GIE-----IDAEKLSERLGVPVIPVSAR  144 (156)
T ss_dssp             TEE-----E-HHHHHHHHTS-EEEEBTT
T ss_pred             CCE-----ECHHHHHHHhCCCEEEEEeC
Confidence            211     24789999999998765543

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 ....

>PRK12740 elongation factor G; Reviewed

Probab=97.22  E-value=0.0018  Score=68.66  Aligned_cols=94  Identities=21%  Similarity=0.168  Sum_probs=62.5

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG  357 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~  357 (386)
                      |..|++.++|||+...........+..+|.+++|+.+...........+..+...+.+++ +|+||++.....      .
T Consensus        57 ~~~~~i~liDtPG~~~~~~~~~~~l~~aD~vllvvd~~~~~~~~~~~~~~~~~~~~~p~i-iv~NK~D~~~~~------~  129 (668)
T PRK12740         57 WKGHKINLIDTPGHVDFTGEVERALRVLDGAVVVVCAVGGVEPQTETVWRQAEKYGVPRI-IFVNKMDRAGAD------F  129 (668)
T ss_pred             ECCEEEEEEECCCcHHHHHHHHHHHHHhCeEEEEEeCCCCcCHHHHHHHHHHHHcCCCEE-EEEECCCCCCCC------H
Confidence            468999999999643211222233556799999999877555556667777777788866 688999865321      1


Q ss_pred             CChHHHHHHHhCCCeE-EecCC
Q 016622          358 RGSGSQVVQQFGIPHL-FDLPI  378 (386)
Q Consensus       358 ~~~~~~i~~~~g~pvl-~~IP~  378 (386)
                      ....+++.+.++.+.+ ..+|.
T Consensus       130 ~~~~~~l~~~l~~~~~~~~~p~  151 (668)
T PRK12740        130 FRVLAQLQEKLGAPVVPLQLPI  151 (668)
T ss_pred             HHHHHHHHHHHCCCceeEEecc
Confidence            1356778888887653 35554

>KOG1533 consensus Predicted GTPase [General function prediction only]

Probab=97.22  E-value=0.00044  Score=62.12  Aligned_cols=100  Identities=21%  Similarity=0.243  Sum_probs=60.5

Q ss_pred             CcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCCCccccc
Q 016622          181 CKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIM  260 (386)
Q Consensus       181 ~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~~~~~~~  260 (386)
                      |-+|+||||-...+...|...|.+|.+|.+||.+.+++.-++.+-.  +.....+ +.    +.+.+     ..++....
T Consensus         9 GPPgSGKsTYc~g~~~fls~~gr~~~vVNLDPaNd~~~Y~~~v~I~--elit~ed-vm----~~~~L-----GPNg~l~y   76 (290)
T KOG1533|consen    9 GPPGSGKSTYCNGMSQFLSAIGRPVAVVNLDPANDNLPYECAVDIR--ELITVED-VM----EELGL-----GPNGALKY   76 (290)
T ss_pred             cCCCCCccchhhhHHHHHHHhCCceEEEecCCcccCCCCCCcccHH--HHccHHH-HH----HHhCC-----CCchhHHH
Confidence            8899999999999999999999999999999988777644332211  0000000 00    00111     11111111


Q ss_pred             CCchHHHHHHHHHHhcCCCCCcEEEEcCCCCC
Q 016622          261 RGPMVSGVINQLLTTTEWGELDYLVIDMPPGT  292 (386)
Q Consensus       261 ~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~  292 (386)
                      --+.+..-++.++..++.....|+|+|+|+..
T Consensus        77 c~E~l~~~idwl~~~l~~~~~~Y~lFDcPGQV  108 (290)
T KOG1533|consen   77 CMEYLEANIDWLLEKLKPLTDHYVLFDCPGQV  108 (290)
T ss_pred             HHHHHHhhhHHHHHHhhhccCcEEEEeCCCcE
Confidence            11223344555555555457889999999854

>PRK00889 adenylylsulfate kinase; Provisional

Probab=97.20  E-value=0.00071  Score=59.08  Aligned_cols=41  Identities=32%  Similarity=0.358  Sum_probs=36.3

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      +++|.|+ |-.|+||||++..|+..+...|.++.++|.|..+
T Consensus         4 g~~i~~~-G~~GsGKST~a~~la~~l~~~g~~v~~id~D~~~   44 (175)
T PRK00889          4 GVTVWFT-GLSGAGKTTIARALAEKLREAGYPVEVLDGDAVR   44 (175)
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHHcCCeEEEEcCccHH
Confidence            4578887 9999999999999999999889999999999644

>PRK00007 elongation factor G; Reviewed

Probab=97.18  E-value=0.0043  Score=66.10  Aligned_cols=94  Identities=21%  Similarity=0.162  Sum_probs=63.3

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG  357 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~  357 (386)
                      |.++.+.+||||+-..........+..+|.+++|+.+...--....+.+.++.+.+.+++ +++||.+.....  .    
T Consensus        72 ~~~~~~~liDTPG~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~~~~~~~~~~~p~i-v~vNK~D~~~~~--~----  144 (693)
T PRK00007         72 WKDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSETVWRQADKYKVPRI-AFVNKMDRTGAD--F----  144 (693)
T ss_pred             ECCeEEEEEeCCCcHHHHHHHHHHHHHcCEEEEEEECCCCcchhhHHHHHHHHHcCCCEE-EEEECCCCCCCC--H----
Confidence            467899999999533211112233556799999998766555667888889999999987 889999965422  1    


Q ss_pred             CChHHHHHHHhCCCe-EEecCC
Q 016622          358 RGSGSQVVQQFGIPH-LFDLPI  378 (386)
Q Consensus       358 ~~~~~~i~~~~g~pv-l~~IP~  378 (386)
                      ....+++.+.++... ...||.
T Consensus       145 ~~~~~~i~~~l~~~~~~~~ipi  166 (693)
T PRK00007        145 YRVVEQIKDRLGANPVPIQLPI  166 (693)
T ss_pred             HHHHHHHHHHhCCCeeeEEecC
Confidence            135677888887532 334554

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=97.17  E-value=0.0018  Score=69.16  Aligned_cols=70  Identities=14%  Similarity=-0.024  Sum_probs=49.1

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      |.+|++.|+|||+-..-.......+..+|.+++|+.....-.......++.+.+.+.+++ +++||++...
T Consensus        83 ~~~~~i~liDTPG~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~~~~~~~~~p~i-vviNKiD~~~  152 (720)
T TIGR00490        83 GNEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQALKENVKPV-LFINKVDRLI  152 (720)
T ss_pred             CCceEEEEEeCCCccccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHHHHHHHcCCCEE-EEEEChhccc
Confidence            478999999999643212223344566899999998765434455677777767788877 8999998653

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.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.17  E-value=0.0034  Score=53.46  Aligned_cols=39  Identities=31%  Similarity=0.475  Sum_probs=33.7

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      +++..|.|+ |.+|+||||++..+|-.|.+.|++|.-+=+
T Consensus         3 ~~~mki~IT-G~PGvGKtTl~~ki~e~L~~~g~kvgGf~t   41 (179)
T COG1618           3 KMAMKIFIT-GRPGVGKTTLVLKIAEKLREKGYKVGGFIT   41 (179)
T ss_pred             CcceEEEEe-CCCCccHHHHHHHHHHHHHhcCceeeeEEe
Confidence            356788888 999999999999999999999999975533

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.15  E-value=0.002  Score=55.37  Aligned_cols=33  Identities=39%  Similarity=0.630  Sum_probs=28.3

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEE
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIF  208 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllI  208 (386)
                      .|-|+.+. |.||||.|..+|...+.+|+||+++
T Consensus         4 ~i~vy~g~-G~Gkt~~a~g~~~ra~~~g~~v~~v   36 (159)
T cd00561           4 LIQVYTGN-GKGKTTAALGLALRALGHGYRVGVV   36 (159)
T ss_pred             EEEEECCC-CCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            45566344 9999999999999999999999995

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>COG3367 Uncharacterized conserved protein [Function unknown]

Probab=97.15  E-value=0.0067  Score=57.10  Aligned_cols=169  Identities=18%  Similarity=0.214  Sum_probs=108.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF  252 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~  252 (386)
                      .+++.+.++---+||=|++..|...+...|.++..+-.+..+-.+                       ...|+-+ .   
T Consensus       148 a~~V~vvGTd~~vGKrTTa~~L~~~~~e~G~~a~fvaTgqtgil~-----------------------~~~gvvv-d---  200 (339)
T COG3367         148 AKVVLVVGTDCAVGKRTTALELREAAREEGIKAGFVATGQTGILI-----------------------ADDGVVV-D---  200 (339)
T ss_pred             CcEEEEeccccccchhHHHHHHHHHHHHhCCccceEecCceeeEE-----------------------ecCceEe-c---
Confidence            579999999999999999999999999999999888776533110                       0011111 0   


Q ss_pred             CCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHH----HhhhhhcCCCeEEEEeCCCcchH---------
Q 016622          253 SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQ----LTLCQVVPLTAAVIVTTPQKLAF---------  319 (386)
Q Consensus       253 ~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~----~~~~~~~~~d~vviV~~~~~~s~---------  319 (386)
                            ....+..+..++.+.-.+...++|||+|..-+++.+..    +.+..-.+.|.++++-.|+....         
T Consensus       201 ------av~~DfaAGave~~v~~~~e~~~Dii~VEGQgsl~HP~y~vtl~il~gs~PDavvL~H~P~r~~~~g~P~~ip~  274 (339)
T COG3367         201 ------AVVMDFAAGAVESAVYEAEEKNPDIIFVEGQGSLTHPAYGVTLGILHGSAPDAVVLCHDPNRKYRDGFPEPIPP  274 (339)
T ss_pred             ------chhHHHHHHHHHHHHHHhhhcCCCEEEEeccccccCCCcccchhhhcCCCCCeEEEEecCCCccccCCCCcCCC
Confidence                  01122234455554444432489999999987664322    22222335689999988876533         


Q ss_pred             -HHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhh
Q 016622          320 -IDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTV  382 (386)
Q Consensus       320 -~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i  382 (386)
                       ++...+...+.  +.+++|+.+|--+.+..      +.+...+++...||+|+...+-+-+++
T Consensus       275 leevi~l~e~l~--~a~Vvgi~lNtr~~dE~------~are~~a~l~~efglP~~Dp~~~~~d~  330 (339)
T COG3367         275 LEEVIALYELLS--NAKVVGIALNTRNLDEE------EARELCAKLEAEFGLPVTDPLRFGEDV  330 (339)
T ss_pred             HHHHHHHHHHcc--CCcEEEEEecccccChH------HHHHHHHHHhhccCCccccccccchHH
Confidence             34444444443  47899999997554431      234567888888998888766655444

>PRK08233 hypothetical protein; Provisional

Probab=97.13  E-value=0.0021  Score=56.18  Aligned_cols=37  Identities=24%  Similarity=0.417  Sum_probs=28.7

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      .+|+|+| .+|+||||+|..|+..|.  +..++.+|.+..
T Consensus         4 ~iI~I~G-~~GsGKtTla~~L~~~l~--~~~~~~~d~~~~   40 (182)
T PRK08233          4 KIITIAA-VSGGGKTTLTERLTHKLK--NSKALYFDRYDF   40 (182)
T ss_pred             eEEEEEC-CCCCCHHHHHHHHHhhCC--CCceEEECCEEc
Confidence            5788885 559999999999999874  347777877643

>COG1159 Era GTPase [General function prediction only]

Probab=97.10  E-value=0.0086  Score=56.00  Aligned_cols=113  Identities=19%  Similarity=0.148  Sum_probs=73.7

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSG  254 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~  254 (386)
                      .+++. |++.+||||+.-+|      .|.|+.++.--+|..-. .                 +     .|+..       
T Consensus         8 fVaIi-GrPNvGKSTLlN~l------~G~KisIvS~k~QTTR~-~-----------------I-----~GI~t-------   50 (298)
T COG1159           8 FVAII-GRPNVGKSTLLNAL------VGQKISIVSPKPQTTRN-R-----------------I-----RGIVT-------   50 (298)
T ss_pred             EEEEE-cCCCCcHHHHHHHH------hcCceEeecCCcchhhh-h-----------------e-----eEEEE-------
Confidence            67888 99999999996544      58999988655433110 0                 0     01111       


Q ss_pred             CcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh--------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHH
Q 016622          255 QGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD--------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGV  326 (386)
Q Consensus       255 ~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~--------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~  326 (386)
                                             .+++.+|++|||+-...        .......+..+|.+++|++.+..--..-...+
T Consensus        51 -----------------------~~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~dvDlilfvvd~~~~~~~~d~~il  107 (298)
T COG1159          51 -----------------------TDNAQIIFVDTPGIHKPKHALGELMNKAARSALKDVDLILFVVDADEGWGPGDEFIL  107 (298)
T ss_pred             -----------------------cCCceEEEEeCCCCCCcchHHHHHHHHHHHHHhccCcEEEEEEeccccCCccHHHHH
Confidence                                   16788999999963321        11111224457999999998885445667777


Q ss_pred             HHHHcCCCCeEEEEEcCCcCCC
Q 016622          327 RMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       327 ~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      +.+++.+.+++ +++|+++...
T Consensus       108 ~~lk~~~~pvi-l~iNKID~~~  128 (298)
T COG1159         108 EQLKKTKTPVI-LVVNKIDKVK  128 (298)
T ss_pred             HHHhhcCCCeE-EEEEccccCC
Confidence            88887666766 6779988543

>cd04171 SelB SelB subfamily

Probab=97.07  E-value=0.0029  Score=53.75  Aligned_cols=68  Identities=13%  Similarity=0.072  Sum_probs=40.0

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      .+.+.++|||+.-............+|.+++|..............+..++..+.+.+-+|+|+++..
T Consensus        50 ~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d~~~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~  117 (164)
T cd04171          50 GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVAADEGIMPQTREHLEILELLGIKRGLVVLTKADLV  117 (164)
T ss_pred             CcEEEEEECCChHHHHHHHHhhhhcCCEEEEEEECCCCccHhHHHHHHHHHHhCCCcEEEEEECcccc
Confidence            45688999985322111222224457999999887653233344444455555653455888998853

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

>cd04165 GTPBP1_like GTPBP1-like

Probab=97.05  E-value=0.0091  Score=54.47  Aligned_cols=67  Identities=15%  Similarity=0.093  Sum_probs=47.3

Q ss_pred             CCCcEEEEcCCCCCChHHH-hhhhhc--CCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQL-TLCQVV--PLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~-~~~~~~--~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+-+.+||||+ ..+... ....+.  .+|.+++|+.++..-.....+.+.++...+.+++ +|+|+++..
T Consensus        82 ~~~~i~liDtpG-~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~~~~ip~i-vvvNK~D~~  151 (224)
T cd04165          82 SSKLVTFIDLAG-HERYLKTTLFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLALALNIPVF-VVVTKIDLA  151 (224)
T ss_pred             CCcEEEEEECCC-cHHHHHHHHHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEE-EEEECcccc
Confidence            567899999995 332211 122222  4689999988776555677888889999999854 888999853

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

>PRK00049 elongation factor Tu; Reviewed

Probab=97.04  E-value=0.0055  Score=60.85  Aligned_cols=68  Identities=18%  Similarity=0.312  Sum_probs=48.8

Q ss_pred             CCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +.+.++++|||+ ..+. ......+..+|.+++|+.+...-.....+.+.++...+.+.+-+++||++..
T Consensus        73 ~~~~i~~iDtPG-~~~f~~~~~~~~~~aD~~llVVDa~~g~~~qt~~~~~~~~~~g~p~iiVvvNK~D~~  141 (396)
T PRK00049         73 EKRHYAHVDCPG-HADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNKCDMV  141 (396)
T ss_pred             CCeEEEEEECCC-HHHHHHHHHhhhccCCEEEEEEECCCCCchHHHHHHHHHHHcCCCEEEEEEeecCCc
Confidence            456789999995 3221 1122334567999999988765456677888888888988776788999864

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=97.04  E-value=0.0063  Score=55.41  Aligned_cols=68  Identities=16%  Similarity=0.037  Sum_probs=47.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..|.+.|+|||+-..-.......+..+|.+++|+..........+..++.+...+.+++ +++||++..
T Consensus        71 ~~~~i~iiDTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~~~~~~~~p~i-lviNKiD~~  138 (222)
T cd01885          71 NEYLINLIDSPGHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTETVLRQALKERVKPV-LVINKIDRL  138 (222)
T ss_pred             CceEEEEECCCCccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHHHHHHHHHcCCCEE-EEEECCCcc
Confidence            46788999999644322233344566799999988776544556777777777778755 888999864

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

>PRK00093 GTP-binding protein Der; Reviewed

Probab=97.03  E-value=0.0027  Score=63.82  Aligned_cols=68  Identities=13%  Similarity=0.039  Sum_probs=42.5

Q ss_pred             CCCcEEEEcCCCCCCh-H-------HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGD-I-------QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~-~-------~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+++.|+|||+.... .       ......+..+|.+++|+.....-...-....+++++.+.+++ +|+|+++..
T Consensus        47 ~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvd~~~~~~~~~~~~~~~l~~~~~pii-lv~NK~D~~  122 (435)
T PRK00093         47 LGREFILIDTGGIEPDDDGFEKQIREQAELAIEEADVILFVVDGRAGLTPADEEIAKILRKSNKPVI-LVVNKVDGP  122 (435)
T ss_pred             CCcEEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCcEE-EEEECccCc
Confidence            4577999999854320 0       011122445799999988765322223455667777777766 788999843

>cd01894 EngA1 EngA1 subfamily

Probab=97.02  E-value=0.0051  Score=51.76  Aligned_cols=69  Identities=16%  Similarity=0.091  Sum_probs=42.0

Q ss_pred             CCCcEEEEcCCCCCChHH--------HhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQ--------LTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~--------~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ..+++.|+|||+......        ........+|.+++|+.+............+++++.+.+++ +|+||++...
T Consensus        43 ~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~pii-iv~nK~D~~~  119 (157)
T cd01894          43 GGREFILIDTGGIEPDDEGISKEIREQAELAIEEADVILFVVDGREGLTPADEEIAKYLRKSKKPVI-LVVNKVDNIK  119 (157)
T ss_pred             CCeEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCCEEEEEEeccccCCccHHHHHHHHHhcCCCEE-EEEECcccCC
Confidence            457899999996443211        11122345789999987754322223345666766676655 7889987543

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.

>PF07755 DUF1611: Protein of unknown function (DUF1611); InterPro: IPR011669 This entry contains a number of hypothetical bacterial and archaeal proteins

Probab=97.01  E-value=0.0047  Score=58.32  Aligned_cols=164  Identities=17%  Similarity=0.263  Sum_probs=96.2

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFG  251 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~  251 (386)
                      ..++|++.+.-.-+||=|++..|..+|.++|.++..+-....+-..                       ...|+      
T Consensus       111 ~~~rv~~vGTDcavGK~tTal~L~~~l~~~G~~a~fvaTGQTGimi-----------------------a~~Gv------  161 (301)
T PF07755_consen  111 KAKRVLTVGTDCAVGKMTTALELRRALRERGINAGFVATGQTGIMI-----------------------AGYGV------  161 (301)
T ss_dssp             SSEEEEEEESSSSSSHHHHHHHHHHHHHHTT--EEEEE-SHHHHHC-----------------------HSEC-------
T ss_pred             CCCEEEEEccCccccHHHHHHHHHHHHHHcCCCceEEecCCceEEE-----------------------ecCCe------
Confidence            5689999999999999999999999999999999888765433111                       00010      


Q ss_pred             CCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh-----HHHhhhhhcCCCeEEEEeCCCcch--------
Q 016622          252 FSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD-----IQLTLCQVVPLTAAVIVTTPQKLA--------  318 (386)
Q Consensus       252 ~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~-----~~~~~~~~~~~d~vviV~~~~~~s--------  318 (386)
                       .   ............++.+...... +.|+|||..-+++..     ..+.+..-...|.+|+.-.|+...        
T Consensus       162 -~---iDav~~DFvaGavE~~v~~~~~-~~d~ivVEGQgsL~hPay~gvsl~lL~Gs~Pd~lVL~H~p~r~~~~~~p~~~  236 (301)
T PF07755_consen  162 -P---IDAVPSDFVAGAVEALVPEAAE-EHDWIVVEGQGSLSHPAYSGVSLGLLHGSQPDALVLCHAPGRKHRDGFPHYP  236 (301)
T ss_dssp             -----GGGSBGGGHHHHHHHHHHHHCC-C-SEEEEE--S-TTSTTTHHCHHHHHHHH--SEEEEEEETT-SC-TTSTTSC
T ss_pred             -e---ccchhhhhHHHHHHHHHHhhCc-CCCEEEEeccccccCccccccchhhhccCCCCeEEEEecCCcccccCCCcCC
Confidence             0   0012334556677777777653 669999999887642     133333344579999998884432        


Q ss_pred             HHHHHHHHHHHHcC-----CCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEe
Q 016622          319 FIDVAKGVRMFSKL-----KVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFD  375 (386)
Q Consensus       319 ~~~~~~~~~~l~~~-----~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~  375 (386)
                      +..+.+.++..+.+     ..+++|+-+|-.....+.      .+...+++.+++|+|+.-.
T Consensus       237 ip~l~~~I~l~e~la~~~~~~~VvgIslNt~~l~~~e------~~~~~~~~~~e~glPv~Dp  292 (301)
T PF07755_consen  237 IPPLEEEIELIEALAGTKPPAKVVGISLNTSGLSEEE------AKAAIERIEEELGLPVTDP  292 (301)
T ss_dssp             ---HHHHHHHHHHCCCGC---EEEEEECC-TTS-HHH------HHHHHHHHHHHH-S-EE-H
T ss_pred             CCCHHHHHHHHHHhhccCCCccEEEEEEECCCCCHHH------HHHHHHHHHHHHCCCeeec
Confidence            33455555555544     234899999976544221      1245889999999988653

The region is approximately 350 residues long. A member of this family (Q6M063 from SWISSPROT) is thought to associate with another subunit to form an H+-transporting ATPase, but no evidence has been found to support this.; PDB: 2G0T_A 2OBN_A.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=97.00  E-value=0.0013  Score=60.61  Aligned_cols=41  Identities=29%  Similarity=0.298  Sum_probs=33.2

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHH------------CCCcEEEEEcCCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAG------------MGARVGIFDADVYGP  215 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~------------~G~rVllID~D~~~~  215 (386)
                      .+++..+.+|+||||++..+|..+|.            .+.+|++++++-...
T Consensus         2 ~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~~   54 (239)
T cd01125           2 YVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPRE   54 (239)
T ss_pred             ceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCHH
Confidence            35666799999999999999998873            457899999876443

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>PRK12739 elongation factor G; Reviewed

Probab=96.99  E-value=0.007  Score=64.46  Aligned_cols=94  Identities=22%  Similarity=0.140  Sum_probs=61.7

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG  357 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~  357 (386)
                      |+.+.+.++|||+-..........+..+|.+++|+.....--...++.+..+.+.+.+++ +++||.+.....  .    
T Consensus        70 ~~~~~i~liDTPG~~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~~i~~~~~~~~~p~i-v~iNK~D~~~~~--~----  142 (691)
T PRK12739         70 WKGHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSETVWRQADKYGVPRI-VFVNKMDRIGAD--F----  142 (691)
T ss_pred             ECCEEEEEEcCCCHHHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCEE-EEEECCCCCCCC--H----
Confidence            467889999999532211122233445799999998866544556778888888899987 888999865422  1    


Q ss_pred             CChHHHHHHHhCCC-eEEecCC
Q 016622          358 RGSGSQVVQQFGIP-HLFDLPI  378 (386)
Q Consensus       358 ~~~~~~i~~~~g~p-vl~~IP~  378 (386)
                      ....+++.+.++.. +...+|.
T Consensus       143 ~~~~~~i~~~l~~~~~~~~iPi  164 (691)
T PRK12739        143 FRSVEQIKDRLGANAVPIQLPI  164 (691)
T ss_pred             HHHHHHHHHHhCCCceeEEecc
Confidence            13567777777653 2345564

>COG2403 Predicted GTPase [General function prediction only]

Probab=96.98  E-value=0.0044  Score=59.35  Aligned_cols=37  Identities=35%  Similarity=0.479  Sum_probs=35.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      .+|+|++...|+|||+++..+|+.|.++|+||++|-.
T Consensus       127 PviaV~atrtg~GKsaVS~~v~r~l~ergyrv~vVrh  163 (449)
T COG2403         127 PVIAVTATRTGVGKSAVSRYVARLLRERGYRVCVVRH  163 (449)
T ss_pred             ceEEEEEeccccchhHHHHHHHHHHHHcCCceEEEec
Confidence            5999999999999999999999999999999999966

>PLN03127 Elongation factor Tu; Provisional

Probab=96.97  E-value=0.011  Score=59.47  Aligned_cols=69  Identities=12%  Similarity=0.218  Sum_probs=49.3

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +.+.++++|||+-..-.......+..+|.+++|+.+...-....++.+..+...+++.+-+++||++..
T Consensus       122 ~~~~i~~iDtPGh~~f~~~~~~g~~~aD~allVVda~~g~~~qt~e~l~~~~~~gip~iIvviNKiDlv  190 (447)
T PLN03127        122 AKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVPSLVVFLNKVDVV  190 (447)
T ss_pred             CCeEEEEEECCCccchHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEEEeeccC
Confidence            456789999995322222222334457999999998765456678888889889998766788999864

>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional

Probab=96.95  E-value=0.0031  Score=61.96  Aligned_cols=42  Identities=24%  Similarity=0.335  Sum_probs=37.9

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      .+++|.|+ +..|+||||+...|...|.++|++|.+|.-|-.+
T Consensus       204 ~~~~~~~~-g~~~~GKtt~~~~l~~~l~~~g~~v~~iKh~~h~  245 (366)
T PRK14489        204 APPLLGVV-GYSGTGKTTLLEKLIPELIARGYRIGLIKHSHHR  245 (366)
T ss_pred             CccEEEEe-cCCCCCHHHHHHHHHHHHHHcCCEEEEEEECCcc
Confidence            57799999 7789999999999999999999999999987654

>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=96.95  E-value=0.0025  Score=55.87  Aligned_cols=142  Identities=17%  Similarity=0.145  Sum_probs=73.2

Q ss_pred             EEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCCCc
Q 016622          177 AVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQG  256 (386)
Q Consensus       177 ~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~~~  256 (386)
                      .+.+|-=|+||||+-.+|.. ....|.|+.+|-.|...-...      ..+..            ..+..+.....   +
T Consensus         3 ~ii~GfLGsGKTTli~~ll~-~~~~~~~~~vI~ne~g~~~iD------~~~l~------------~~~~~v~~l~~---g   60 (178)
T PF02492_consen    3 IIITGFLGSGKTTLINHLLK-RNRQGERVAVIVNEFGEVNID------AELLQ------------EDGVPVVELNN---G   60 (178)
T ss_dssp             EEEEESTTSSHHHHHHHHHH-HHTTTS-EEEEECSTTSTHHH------HHHHH------------TTT-EEEEECT---T
T ss_pred             EEEEcCCCCCHHHHHHHHHH-HhcCCceeEEEEccccccccc------hhhhc------------ccceEEEEecC---C
Confidence            44558889999999999998 667899999998887542221      11110            01222222111   1


Q ss_pred             cccc-CCchHHHHHHHHHHhcCCC--CCcEEEEcCCCCCChHHH-----hhhhhcCCCeEEEEeCCCcch-HHHH-HHHH
Q 016622          257 RAIM-RGPMVSGVINQLLTTTEWG--ELDYLVIDMPPGTGDIQL-----TLCQVVPLTAAVIVTTPQKLA-FIDV-AKGV  326 (386)
Q Consensus       257 ~~~~-~~~~~~~~l~~ll~~~~~~--~yD~VIIDtpp~~~~~~~-----~~~~~~~~d~vviV~~~~~~s-~~~~-~~~~  326 (386)
                      ...- ....+...+.++.   ...  .+|+|||.+.+......+     ........+.++.|+.+.... .... ....
T Consensus        61 cicc~~~~~~~~~l~~l~---~~~~~~~d~IiIE~sG~a~p~~l~~~~~~~~~~~~~~~iI~vVDa~~~~~~~~~~~~~~  137 (178)
T PF02492_consen   61 CICCTLRDDLVEALRRLL---REYEERPDRIIIETSGLADPAPLILQDPPLKEDFRLDSIITVVDATNFDELENIPELLR  137 (178)
T ss_dssp             TESS-TTS-HHHHHHHHC---CCCHGC-SEEEEEEECSSGGGGHHHHSHHHHHHESESEEEEEEEGTTHGGHTTHCHHHH
T ss_pred             CcccccHHHHHHHHHHHH---HhcCCCcCEEEECCccccccchhhhccccccccccccceeEEeccccccccccchhhhh
Confidence            1110 1122334454444   223  579999999863332222     111123457788888875531 2222 2223


Q ss_pred             HHHHcCCCCeEEEEEcCCcCC
Q 016622          327 RMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       327 ~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ++++..+    -+|+|+++..
T Consensus       138 ~Qi~~AD----vIvlnK~D~~  154 (178)
T PF02492_consen  138 EQIAFAD----VIVLNKIDLV  154 (178)
T ss_dssp             HHHCT-S----EEEEE-GGGH
T ss_pred             hcchhcC----EEEEeccccC
Confidence            4444443    3899998754

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.

>PRK07667 uridine kinase; Provisional

Probab=96.94  E-value=0.0019  Score=57.44  Aligned_cols=39  Identities=28%  Similarity=0.374  Sum_probs=35.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      .+|+|. |-+|+||||+|..|+..|.+.|.+|.+++.|-.
T Consensus        18 ~iIgI~-G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd~   56 (193)
T PRK07667         18 FILGID-GLSRSGKTTFVANLKENMKQEGIPFHIFHIDDY   56 (193)
T ss_pred             EEEEEE-CCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCcc
Confidence            477777 999999999999999999999999999999964

>cd01394 radB RadB

Probab=96.94  E-value=0.0017  Score=58.79  Aligned_cols=39  Identities=31%  Similarity=0.447  Sum_probs=33.5

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      .+....+.+|+||||++.++|..++.+|.+|+++|++..
T Consensus        20 ~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~e~~   58 (218)
T cd01394          20 TVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTEGL   58 (218)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEECCCC
Confidence            444444899999999999999999999999999998753

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=96.93  E-value=0.00072  Score=65.63  Aligned_cols=37  Identities=30%  Similarity=0.364  Sum_probs=32.2

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      -+...+|-+|.||||+-..+|..+|+++ +||+|-..-
T Consensus        94 s~iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVsGEE  130 (456)
T COG1066          94 SVILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVSGEE  130 (456)
T ss_pred             cEEEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEeCCc
Confidence            4455569999999999999999999998 999997764

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.91  E-value=0.0028  Score=58.10  Aligned_cols=38  Identities=18%  Similarity=0.392  Sum_probs=33.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .++.++ +..|+|||+++.++++..+++|.+|++++++-
T Consensus        26 ~~~~i~-G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~   63 (234)
T PRK06067         26 SLILIE-GDHGTGKSVLSQQFVYGALKQGKKVYVITTEN   63 (234)
T ss_pred             cEEEEE-CCCCCChHHHHHHHHHHHHhCCCEEEEEEcCC
Confidence            456666 89999999999999999888999999999974

>cd01890 LepA LepA subfamily

Probab=96.90  E-value=0.011  Score=51.34  Aligned_cols=85  Identities=11%  Similarity=0.028  Sum_probs=48.0

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG  357 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~  357 (386)
                      ..+.+.|+|||+...........+..+|.+++|...... +.... ..+..+...+.++ -+|+||++.....  .    
T Consensus        65 ~~~~~~l~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~~~~~~-~~~~~~~~~~~~i-iiv~NK~Dl~~~~--~----  136 (179)
T cd01890          65 QEYLLNLIDTPGHVDFSYEVSRSLAACEGALLLVDATQGVEAQTL-ANFYLALENNLEI-IPVINKIDLPSAD--P----  136 (179)
T ss_pred             CcEEEEEEECCCChhhHHHHHHHHHhcCeEEEEEECCCCccHhhH-HHHHHHHHcCCCE-EEEEECCCCCcCC--H----
Confidence            567889999985332222222234567999999887653 22222 2233334456664 4788999863211  0    


Q ss_pred             CChHHHHHHHhCCC
Q 016622          358 RGSGSQVVQQFGIP  371 (386)
Q Consensus       358 ~~~~~~i~~~~g~p  371 (386)
                      ....+++++.++++
T Consensus       137 ~~~~~~~~~~~~~~  150 (179)
T cd01890         137 ERVKQQIEDVLGLD  150 (179)
T ss_pred             HHHHHHHHHHhCCC
Confidence            11245667777764

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.

>cd03113 CTGs CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain

Probab=96.90  E-value=0.023  Score=51.81  Aligned_cols=180  Identities=16%  Similarity=0.208  Sum_probs=100.0

Q ss_pred             EEEEeC-cCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc--ccccCCC-C-----------------
Q 016622          176 VAVSSC-KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR--LLEMNPE-K-----------------  234 (386)
Q Consensus       176 I~v~s~-kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~--~~~~~~~-~-----------------  234 (386)
                      |.|+++ -.|.||=.+|+.++..|..+|++|..+.+||+-+--+..+.+-..  ....++. +                 
T Consensus         3 i~vtGgv~s~lgkgi~~as~g~ll~~~g~~v~~~K~DpYlNvd~GtmsP~~HGEvfVt~DG~E~DlDlG~YERfl~~~l~   82 (255)
T cd03113           3 IFVTGGVVSSLGKGITAASLGRLLKARGLKVTAQKLDPYLNVDPGTMSPYQHGEVFVTDDGAETDLDLGHYERFLDTNLS   82 (255)
T ss_pred             EEEeCCcccCcchHHHHHHHHHHHHHCCCeEEEEeecccccCCCCCCCCccceeEEEccCCCcccccccchhhhcCCCCc
Confidence            444433 468899999999999999999999999999976433322221110  0000000 0                 


Q ss_pred             --C---------ceeeeccCC------ceEEecCCCCCcccccCCchHHHHHHHHHHhcC-CCCCcEEEEcCCCCCChHH
Q 016622          235 --R---------TIIPTEYLG------VKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTE-WGELDYLVIDMPPGTGDIQ  296 (386)
Q Consensus       235 --~---------~i~~~~~~~------l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~-~~~yD~VIIDtpp~~~~~~  296 (386)
                        .         .+...+..|      +.++              |.....+++.+..+. ...+|++|+..++..+|..
T Consensus        83 ~~~niTtGkiy~~vi~kER~G~ylG~TVQvi--------------PHit~eIk~~i~~~~~~~~~dv~i~EiGGTvGDiE  148 (255)
T cd03113          83 RDNNITTGKIYSSVIEKERRGDYLGKTVQVI--------------PHITDEIKERIRRVAEKSGADVVIVEIGGTVGDIE  148 (255)
T ss_pred             CccCcChHHHHHHHHHHhhccCccCceEEEC--------------cCccHHHHHHHHHhhccCCCCEEEEEeCCcccccc
Confidence              0         000001000      1122              222233444333332 2689999999998777521


Q ss_pred             H-----hhhhhc---CCCeE------EEE--eCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCCh
Q 016622          297 L-----TLCQVV---PLTAA------VIV--TTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGS  360 (386)
Q Consensus       297 ~-----~~~~~~---~~d~v------viV--~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~  360 (386)
                      -     ++.++.   ..+.+      +++  -..+...-.-++..++.|++.|+...++|+|.-+.         .....
T Consensus       149 s~pf~EAirq~~~~~g~~n~~~ihvt~vp~~~~~gE~KTKPtQhSVeaLRs~GIqPDgIVcRse~p---------L~e~~  219 (255)
T cd03113         149 SLPFLEAIRQMKLELGRENVLFIHVTLVPYLKAAGELKTKPTQHSVKELRSIGIQPDILVCRSEKP---------LPPEI  219 (255)
T ss_pred             ccHHHHHHHHHHHHhCcCcEEEEEEeeeeeecCCCccccCchHHHHHHHHhCCCCCCEEEEeCCCC---------CchHH
Confidence            1     111111   11211      222  11233444567888999999999999999997221         11245


Q ss_pred             HHHHHHHhCCCeEEecCC
Q 016622          361 GSQVVQQFGIPHLFDLPI  378 (386)
Q Consensus       361 ~~~i~~~~g~pvl~~IP~  378 (386)
                      .+.++.-.++|+.+.+|.
T Consensus       220 keKIAlFcnVpve~VI~~  237 (255)
T cd03113         220 REKIALFCDVPPEAVISA  237 (255)
T ss_pred             HHHHHHhcCCCHHHeeec
Confidence            567777778887766654

The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent ammonia to the acceptor substrate at the synthetase domain to form an aminated product. Glutaminase domains have evolved from the same ancestor, whereas the synthetase domains are evolutionarily unrelated and have different functions. This protein family is classified based on the N-terminal synthetase domain.

>COG1160 Predicted GTPases [General function prediction only]

Probab=96.89  E-value=0.0089  Score=58.99  Aligned_cols=70  Identities=16%  Similarity=0.161  Sum_probs=45.1

Q ss_pred             CCCCcEEEEcCCCCCC-h--------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          278 WGELDYLVIDMPPGTG-D--------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~-~--------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      |..+.+.+|||++-.. +        ...+..++..+|.+++|+.....--.+=..+.++|++.+.+++ +|+|+++...
T Consensus        48 ~~~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~eADvilfvVD~~~Git~~D~~ia~~Lr~~~kpvi-LvvNK~D~~~  126 (444)
T COG1160          48 WLGREFILIDTGGLDDGDEDELQELIREQALIAIEEADVILFVVDGREGITPADEEIAKILRRSKKPVI-LVVNKIDNLK  126 (444)
T ss_pred             EcCceEEEEECCCCCcCCchHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEE-EEEEcccCch
Confidence            4677799999985331 1        0112233456899999988776333344556677776667766 6779999753

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

Probab=96.86  E-value=0.0042  Score=55.06  Aligned_cols=68  Identities=10%  Similarity=-0.009  Sum_probs=43.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +.+.+.|+|||+...-.......+..+|.+++|+.............+..+...+.+++ +|+||++..
T Consensus        63 ~~~~~~l~DtpG~~~~~~~~~~~~~~~d~~ilV~d~~~~~~~~~~~~~~~~~~~~~p~i-iv~NK~Dl~  130 (194)
T cd01891          63 KDTKINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALELGLKPI-VVINKIDRP  130 (194)
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHhcCEEEEEEECCCCccHHHHHHHHHHHHcCCCEE-EEEECCCCC
Confidence            56788999998532211222222445799999988766443444555566656677754 788999864

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

>TIGR00436 era GTP-binding protein Era

Probab=96.86  E-value=0.018  Score=54.05  Aligned_cols=67  Identities=13%  Similarity=0.101  Sum_probs=41.5

Q ss_pred             CCCcEEEEcCCCCCCh-HH-------HhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGD-IQ-------LTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~-~~-------~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +.+.++++|||+-... ..       .....+..+|.+++|++++.....+ ....+.+...+.+++ +|+|+++..
T Consensus        46 ~~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aDvvl~VvD~~~~~~~~-~~i~~~l~~~~~p~i-lV~NK~Dl~  120 (270)
T TIGR00436        46 GASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVDLILFVVDSDQWNGDG-EFVLTKLQNLKRPVV-LTRNKLDNK  120 (270)
T ss_pred             CCcEEEEEECcCCCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCchH-HHHHHHHHhcCCCEE-EEEECeeCC
Confidence            3456899999863221 00       0112244678999998876643333 555666777777765 788998853

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

>KOG0635 consensus Adenosine 5'-phosphosulfate kinase [Inorganic ion transport and metabolism]

Probab=96.82  E-value=0.003  Score=53.01  Aligned_cols=55  Identities=25%  Similarity=0.245  Sum_probs=46.8

Q ss_pred             cccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCC
Q 016622          168 GLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSP  223 (386)
Q Consensus       168 ~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~  223 (386)
                      .++..+-+|.++ +-.|+||||+|..|.++|-++|+-.-.+|.|--+..+..-+|.
T Consensus        26 l~~qkGcviWiT-GLSgSGKStlACaL~q~L~qrgkl~Y~LDGDNvRhGLN~DL~F   80 (207)
T KOG0635|consen   26 LLKQKGCVIWIT-GLSGSGKSTLACALSQALLQRGKLTYILDGDNVRHGLNKDLGF   80 (207)
T ss_pred             HhcCCCcEEEEe-ccCCCCchhHHHHHHHHHHhcCceEEEecCcccccccccccCc
Confidence            455566799999 8889999999999999999999999999999877776655543

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.80  E-value=0.0025  Score=56.91  Aligned_cols=43  Identities=28%  Similarity=0.298  Sum_probs=37.4

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      ..+.+|+|+ |..|+||||++..|+..|...|..++++|.|...
T Consensus        22 ~~~~~i~i~-G~~GsGKSTla~~l~~~l~~~~~~~~~ld~d~~~   64 (198)
T PRK03846         22 HKGVVLWFT-GLSGSGKSTVAGALEEALHELGVSTYLLDGDNVR   64 (198)
T ss_pred             CCCEEEEEE-CCCCCCHHHHHHHHHHHHHhCCCCEEEEcCEeHH
Confidence            345688888 8889999999999999999889999999998755

>PRK10218 GTP-binding protein; Provisional

Probab=96.79  E-value=0.018  Score=60.05  Aligned_cols=70  Identities=11%  Similarity=0.030  Sum_probs=49.2

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      |+.+.+.|+|||+-..........+..+|.+++|+..........+..+..+...+++.+ +++||++...
T Consensus        65 ~~~~~inliDTPG~~df~~~v~~~l~~aDg~ILVVDa~~G~~~qt~~~l~~a~~~gip~I-VviNKiD~~~  134 (607)
T PRK10218         65 WNDYRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFAYGLKPI-VVINKVDRPG  134 (607)
T ss_pred             cCCEEEEEEECCCcchhHHHHHHHHHhCCEEEEEEecccCccHHHHHHHHHHHHcCCCEE-EEEECcCCCC
Confidence            367889999998533221222233556799999998876555566777777778899876 7889998643

>PRK13351 elongation factor G; Reviewed

Probab=96.77  E-value=0.014  Score=62.21  Aligned_cols=94  Identities=18%  Similarity=0.137  Sum_probs=61.5

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG  357 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~  357 (386)
                      |..+.+.++|||+-..........+..+|.+++|+......-......++.+...+.+++ +++|+++......      
T Consensus        70 ~~~~~i~liDtPG~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-iviNK~D~~~~~~------  142 (687)
T PRK13351         70 WDNHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVWRQADRYGIPRL-IFINKMDRVGADL------  142 (687)
T ss_pred             ECCEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEE-EEEECCCCCCCCH------
Confidence            367889999998543212222333456799999988776544556677777888888876 7889998653211      


Q ss_pred             CChHHHHHHHhCCCeEE-ecCC
Q 016622          358 RGSGSQVVQQFGIPHLF-DLPI  378 (386)
Q Consensus       358 ~~~~~~i~~~~g~pvl~-~IP~  378 (386)
                      ....+++.+.++.+... .+|.
T Consensus       143 ~~~~~~i~~~l~~~~~~~~~P~  164 (687)
T PRK13351        143 FKVLEDIEERFGKRPLPLQLPI  164 (687)
T ss_pred             HHHHHHHHHHHCCCeEEEEecc
Confidence            13567888888876442 4553

>TIGR00484 EF-G translation elongation factor EF-G

Probab=96.76  E-value=0.015  Score=62.02  Aligned_cols=94  Identities=20%  Similarity=0.160  Sum_probs=60.4

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG  357 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~  357 (386)
                      |+++.+.++|||+-..........+..+|.+++|+.....--......++.+.+.+.+++ +++||++.....  .    
T Consensus        72 ~~~~~i~liDTPG~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~p~i-vviNK~D~~~~~--~----  144 (689)
T TIGR00484        72 WKGHRINIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVWRQANRYEVPRI-AFVNKMDKTGAN--F----  144 (689)
T ss_pred             ECCeEEEEEECCCCcchhHHHHHHHHHhCEEEEEEeCCCCCChhHHHHHHHHHHcCCCEE-EEEECCCCCCCC--H----
Confidence            467889999999643221222233455799999988766434455677778888888876 788999865421  1    


Q ss_pred             CChHHHHHHHhCCCe-EEecCC
Q 016622          358 RGSGSQVVQQFGIPH-LFDLPI  378 (386)
Q Consensus       358 ~~~~~~i~~~~g~pv-l~~IP~  378 (386)
                      ....+++.+.++... ...||.
T Consensus       145 ~~~~~~i~~~l~~~~~~~~ipi  166 (689)
T TIGR00484       145 LRVVNQIKQRLGANAVPIQLPI  166 (689)
T ss_pred             HHHHHHHHHHhCCCceeEEecc
Confidence            134677777776432 335554

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.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.76  E-value=0.003  Score=57.45  Aligned_cols=37  Identities=27%  Similarity=0.398  Sum_probs=33.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      .++.|+ |.+|+|||+++.++|..+++.|.+|++||++
T Consensus        24 ~i~~i~-G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e   60 (225)
T PRK09361         24 TITQIY-GPPGSGKTNICLQLAVEAAKNGKKVIYIDTE   60 (225)
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence            455555 8999999999999999999999999999998

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=96.76  E-value=0.008  Score=52.28  Aligned_cols=35  Identities=34%  Similarity=0.567  Sum_probs=29.4

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      .|-+. +..|.||||.|..+|..++.+|++|+++=+
T Consensus         7 li~v~-~g~GkGKtt~a~g~a~ra~~~g~~v~ivQF   41 (173)
T TIGR00708         7 IIIVH-TGNGKGKTTAAFGMALRALGHGKKVGVIQF   41 (173)
T ss_pred             EEEEE-CCCCCChHHHHHHHHHHHHHCCCeEEEEEE
Confidence            44455 338999999999999999999999998844

Alternate name: corrinoid adenosyltransferase.

>TIGR02012 tigrfam_recA protein RecA

Probab=96.75  E-value=0.0028  Score=60.72  Aligned_cols=38  Identities=21%  Similarity=0.312  Sum_probs=33.2

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +++.|+ +..|+||||++.+++...++.|.+|++||+.-
T Consensus        56 ~iteI~-G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~   93 (321)
T TIGR02012        56 RIIEIY-GPESSGKTTLALHAIAEAQKAGGTAAFIDAEH   93 (321)
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHHHcCCcEEEEcccc
Confidence            456666 78999999999999999999999999998863

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=96.73  E-value=0.0068  Score=53.53  Aligned_cols=35  Identities=34%  Similarity=0.554  Sum_probs=30.9

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      .|.|+ +..|-||||.|..+|...+.+|.+|+++=+
T Consensus        24 ~v~v~-~g~GkGKtt~a~g~a~ra~g~G~~V~ivQF   58 (191)
T PRK05986         24 LLIVH-TGNGKGKSTAAFGMALRAVGHGKKVGVVQF   58 (191)
T ss_pred             eEEEE-CCCCCChHHHHHHHHHHHHHCCCeEEEEEE
Confidence            55566 678999999999999999999999999965

>cd01889 SelB_euk SelB subfamily

Probab=96.72  E-value=0.008  Score=53.17  Aligned_cols=67  Identities=16%  Similarity=0.098  Sum_probs=39.3

Q ss_pred             CCCcEEEEcCCCCCChHHH-hhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQL-TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~-~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +.+.+.++|||+ ...... .......+|.+++|+......-....+.+......+.+++ +|+||++..
T Consensus        66 ~~~~~~i~DtpG-~~~~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~~~~~~~~~i-iv~NK~Dl~  133 (192)
T cd01889          66 ENLQITLVDCPG-HASLIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLVIGEILCKKLI-VVLNKIDLI  133 (192)
T ss_pred             cCceEEEEECCC-cHHHHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHHHHHHcCCCEE-EEEECcccC
Confidence            578999999985 332111 1122334689999988765322222233334444566655 788998864

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

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=96.71  E-value=0.0067  Score=55.01  Aligned_cols=34  Identities=24%  Similarity=0.349  Sum_probs=27.3

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      .++.+.|+ |++|+||||+|.+|+       .++++++.|-.
T Consensus        11 ~~~~~liy-G~~G~GKtt~a~~~~-------~~~~~~~~d~~   44 (220)
T TIGR01618        11 IPNMYLIY-GKPGTGKTSTIKYLP-------GKTLVLSFDMS   44 (220)
T ss_pred             CCcEEEEE-CCCCCCHHHHHHhcC-------CCCEEEecccc
Confidence            34567777 999999999988773       47999999963

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>PRK15453 phosphoribulokinase; Provisional

Probab=96.71  E-value=0.0033  Score=58.82  Aligned_cols=43  Identities=19%  Similarity=0.303  Sum_probs=37.9

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGP  215 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~  215 (386)
                      ...+|+|+ |..|+||||++..|+..|...|.++.+++.|.+..
T Consensus         4 k~piI~It-G~SGsGKTTva~~l~~if~~~~~~~~vi~~D~yh~   46 (290)
T PRK15453          4 KHPIIAVT-GSSGAGTTTVKRAFEKIFRRENINAAVVEGDSFHR   46 (290)
T ss_pred             CCcEEEEE-CCCCCCHHHHHHHHHHHHhhcCCCeEEEecccccc
Confidence            34689998 88899999999999999988888999999998764

>cd00154 Rab Rab family

Probab=96.69  E-value=0.031  Score=46.63  Aligned_cols=91  Identities=13%  Similarity=0.162  Sum_probs=54.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcCC---CCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKLK---VPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~~---~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+++.++|+|+...........+..+|.+++|..+.. .+...+...+..+....   .+ +-+|.|+++......   
T Consensus        47 ~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~---  122 (159)
T cd00154          47 KTVKLQIWDTAGQERFRSITPSYYRGAHGAILVYDITNRESFENLDKWLKELKEYAPENIP-IILVGNKIDLEDQRQ---  122 (159)
T ss_pred             EEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCc-EEEEEEccccccccc---
Confidence            45788999998643322223333456799998888755 45667777676665543   44 458889988641111   


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                       .......++.+..+.+++.
T Consensus       123 -~~~~~~~~~~~~~~~~~~~  141 (159)
T cd00154         123 -VSTEEAQQFAKENGLLFFE  141 (159)
T ss_pred             -ccHHHHHHHHHHcCCeEEE
Confidence             1123455566655666554

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

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=96.68  E-value=0.012  Score=61.33  Aligned_cols=68  Identities=12%  Similarity=0.066  Sum_probs=49.5

Q ss_pred             CCCCcEEEEcCCCCCChHH-HhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          278 WGELDYLVIDMPPGTGDIQ-LTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~-~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      |..+.+-|||||+ ..+.. .....+..+|.+++|+.+.......+...++.+.+.+++++ +++||++..
T Consensus        61 ~~~~kinlIDTPG-h~DF~~ev~~~l~~aD~alLVVDa~~G~~~qT~~~l~~a~~~~ip~I-VviNKiD~~  129 (594)
T TIGR01394        61 YNGTKINIVDTPG-HADFGGEVERVLGMVDGVLLLVDASEGPMPQTRFVLKKALELGLKPI-VVINKIDRP  129 (594)
T ss_pred             ECCEEEEEEECCC-HHHHHHHHHHHHHhCCEEEEEEeCCCCCcHHHHHHHHHHHHCCCCEE-EEEECCCCC
Confidence            4678899999985 43321 22223455799999998876556677788888888899875 788999964

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.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.67  E-value=0.0052  Score=56.29  Aligned_cols=40  Identities=20%  Similarity=0.326  Sum_probs=34.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      .++.++ |..|+||||++.+++..++++|.++++++++...
T Consensus        25 ~~~~i~-G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~~~   64 (230)
T PRK08533         25 SLILIE-GDESTGKSILSQRLAYGFLQNGYSVSYVSTQLTT   64 (230)
T ss_pred             cEEEEE-CCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCCCH
Confidence            366666 9999999999999999999999999999987643

>PRK12736 elongation factor Tu; Reviewed

Probab=96.66  E-value=0.014  Score=57.97  Aligned_cols=68  Identities=15%  Similarity=0.248  Sum_probs=48.3

Q ss_pred             CCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.++|||+ ..+. ......+..+|.+++|+.....-.....+.+.++...+++.+-+++|+.+..
T Consensus        73 ~~~~i~~iDtPG-h~~f~~~~~~~~~~~d~~llVvd~~~g~~~~t~~~~~~~~~~g~~~~IvviNK~D~~  141 (394)
T PRK12736         73 EKRHYAHVDCPG-HADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQVGVPYLVVFLNKVDLV  141 (394)
T ss_pred             CCcEEEEEECCC-HHHHHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHcCCCEEEEEEEecCCc
Confidence            466889999995 3221 1222334457999999988765455667788888888988777889999864

>PRK14491 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional

Probab=96.65  E-value=0.0067  Score=63.27  Aligned_cols=42  Identities=19%  Similarity=0.260  Sum_probs=37.2

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      ++++|+|+ +..|+||||+...|...|.++|+||..|.-|-.+
T Consensus         9 ~~~vi~iv-G~s~sGKTTlie~li~~L~~~G~rVavIKh~~h~   50 (597)
T PRK14491          9 SIPLLGFC-AYSGTGKTTLLEQLIPELNQRGLRLAVIKHAHHN   50 (597)
T ss_pred             CccEEEEE-cCCCCCHHHHHHHHHHHHHhCCceEEEEEcCCcC
Confidence            46799999 6689999999999999999999999999986543

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.64  E-value=0.0052  Score=50.09  Aligned_cols=40  Identities=28%  Similarity=0.296  Sum_probs=33.6

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      ..+.+. |..|+||||++..+|..+...++.+++++++...
T Consensus         3 ~~~~l~-G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~   42 (148)
T smart00382        3 EVILIV-GPPGSGKTTLARALARELGPPGGGVIYIDGEDIL   42 (148)
T ss_pred             CEEEEE-CCCCCcHHHHHHHHHhccCCCCCCEEEECCEEcc
Confidence            366676 7799999999999999998877789999887654

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=96.59  E-value=0.0047  Score=61.52  Aligned_cols=68  Identities=13%  Similarity=0.143  Sum_probs=47.0

Q ss_pred             CCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      .++.+.|+|||+ ..+. ......+..+|.+++|+.+...-.....+.+..+...+.+.+-+++|+++..
T Consensus        78 ~~~~~~liDtPG-h~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~~~~~~~~~~~iivviNK~D~~  146 (406)
T TIGR02034        78 DKRKFIVADTPG-HEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHSYIASLLGIRHVVLAVNKMDLV  146 (406)
T ss_pred             CCeEEEEEeCCC-HHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHHHHHHHHcCCCcEEEEEEecccc
Confidence            567899999995 3221 1222335567999999988765445566667777777777666899999864

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).

>PRK12735 elongation factor Tu; Reviewed

Probab=96.58  E-value=0.018  Score=57.11  Aligned_cols=68  Identities=18%  Similarity=0.317  Sum_probs=47.5

Q ss_pred             CCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +...++++|||+ ..+. ......+..+|.+++|+.+...-.....+.+..+...+++.+-+++|+++..
T Consensus        73 ~~~~i~~iDtPG-h~~f~~~~~~~~~~aD~~llVvda~~g~~~qt~e~l~~~~~~gi~~iivvvNK~Dl~  141 (396)
T PRK12735         73 ANRHYAHVDCPG-HADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNKCDMV  141 (396)
T ss_pred             CCcEEEEEECCC-HHHHHHHHHhhhccCCEEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEEEecCCc
Confidence            456789999995 3221 1222334467999999888764445667778888888888776788999864

>PRK06696 uridine kinase; Validated

Probab=96.57  E-value=0.0045  Score=56.37  Aligned_cols=40  Identities=28%  Similarity=0.171  Sum_probs=34.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      .+|+|. |.+|+||||+|..|+..|...|.+|+.+-+|-..
T Consensus        23 ~iI~I~-G~sgsGKSTlA~~L~~~l~~~g~~v~~~~~Ddf~   62 (223)
T PRK06696         23 LRVAID-GITASGKTTFADELAEEIKKRGRPVIRASIDDFH   62 (223)
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHHHcCCeEEEecccccc
Confidence            467776 8999999999999999999889999997777554

>TIGR00485 EF-Tu translation elongation factor TU

Probab=96.56  E-value=0.021  Score=56.70  Aligned_cols=68  Identities=18%  Similarity=0.311  Sum_probs=47.6

Q ss_pred             CCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|||+ ..+. ......+..+|.+++|+.....-.....+.+..+...+++.+-+++||++..
T Consensus        73 ~~~~~~liDtpG-h~~f~~~~~~~~~~~D~~ilVvda~~g~~~qt~e~l~~~~~~gi~~iIvvvNK~Dl~  141 (394)
T TIGR00485        73 ENRHYAHVDCPG-HADYVKNMITGAAQMDGAILVVSATDGPMPQTREHILLARQVGVPYIVVFLNKCDMV  141 (394)
T ss_pred             CCEEEEEEECCc-hHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEEecccC
Confidence            456789999995 3221 1222334456999999888765455677888888888888776789999854

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.

>PRK05973 replicative DNA helicase; Provisional

Probab=96.55  E-value=0.0038  Score=57.25  Aligned_cols=40  Identities=18%  Similarity=0.211  Sum_probs=35.2

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      .+.+.++.+|+|||+++.++|...+++|++|+++.++...
T Consensus        65 sl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlEes~  104 (237)
T PRK05973         65 DLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLEYTE  104 (237)
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEeCCH
Confidence            4556669999999999999999999999999999998643

>PRK06762 hypothetical protein; Provisional

Probab=96.54  E-value=0.0036  Score=54.05  Aligned_cols=39  Identities=26%  Similarity=0.431  Sum_probs=31.3

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      |+++|.++ |..|+||||+|..|+..+   |..+.+++.|...
T Consensus         1 m~~li~i~-G~~GsGKST~A~~L~~~l---~~~~~~i~~D~~r   39 (166)
T PRK06762          1 MTTLIIIR-GNSGSGKTTIAKQLQERL---GRGTLLVSQDVVR   39 (166)
T ss_pred             CCeEEEEE-CCCCCCHHHHHHHHHHHh---CCCeEEecHHHHH
Confidence            45677776 999999999999999888   4568888877644

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=96.54  E-value=0.0063  Score=61.33  Aligned_cols=69  Identities=16%  Similarity=0.091  Sum_probs=50.2

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchH-------HHHHHHHHHHHcCCCCeEEEEEcCCcC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAF-------IDVAKGVRMFSKLKVPCIAVVENMCHF  346 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~-------~~~~~~~~~l~~~~~~i~gvVlN~~~~  346 (386)
                      +..+.+.|||||+-..-.......+..+|.+++|+.+...-.       ..+++.+..+..+|++.+-+++|+.+.
T Consensus        82 ~~~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~gi~~iiv~vNKmD~  157 (446)
T PTZ00141         82 TPKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTLGVKQMIVCINKMDD  157 (446)
T ss_pred             cCCeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHcCCCeEEEEEEcccc
Confidence            367899999999522222222333556799999988876432       467888888999999988889999984

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=96.54  E-value=0.0038  Score=54.75  Aligned_cols=37  Identities=22%  Similarity=0.169  Sum_probs=33.0

Q ss_pred             EEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          178 VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       178 v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      +..|.+|+|||+++.+++...++.|.+|+++.++...
T Consensus         3 li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~~~   39 (187)
T cd01124           3 LLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEESP   39 (187)
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECCCCH
Confidence            4459999999999999999999999999999987643

A related protein is found in archaea.

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=96.53  E-value=0.0037  Score=54.93  Aligned_cols=38  Identities=29%  Similarity=0.328  Sum_probs=33.7

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      |+|. |..|+||||+|..|+..+...|.++.+|..|-..
T Consensus         2 i~i~-G~sgsGKttla~~l~~~l~~~~~~~~~i~~Ddf~   39 (179)
T cd02028           2 VGIA-GPSGSGKTTFAKKLSNQLRVNGIGPVVISLDDYY   39 (179)
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHHHHcCCCEEEEehhhcc
Confidence            5565 8999999999999999999999999999998654

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=96.53  E-value=0.053  Score=45.86  Aligned_cols=91  Identities=13%  Similarity=0.192  Sum_probs=50.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+.+.|+|+|+...........+..+|.+++|.... ..++.........+..    .+.+ +-+|.|+++....... 
T Consensus        46 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iiiv~NK~D~~~~~~~-  123 (164)
T cd04139          46 EDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVP-LLLVGNKCDLEDKRQV-  123 (164)
T ss_pred             EEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEEcccccccccc-
Confidence            3567899999874332222223344567777776543 3445555555554443    2455 4588899986431110 


Q ss_pred             cccCCChHHHHHHHhCCCeEE
Q 016622          354 YPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl~  374 (386)
                         .......+.+.++.+++.
T Consensus       124 ---~~~~~~~~~~~~~~~~~~  141 (164)
T cd04139         124 ---SSEEAANLARQWGVPYVE  141 (164)
T ss_pred             ---CHHHHHHHHHHhCCeEEE
Confidence               112345666777766653

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=96.52  E-value=0.046  Score=46.28  Aligned_cols=90  Identities=13%  Similarity=0.182  Sum_probs=52.0

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.++|+|+...........+..+|.+++|..... .+...+.+.+..+...   +.+ +-+|.|+++.....    .
T Consensus        48 ~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~l~~~~~~~~~~~p-ivvv~nK~D~~~~~----~  122 (164)
T smart00175       48 RVKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITNRESFENLKNWLKELREYADPNVV-IMLVGNKSDLEDQR----Q  122 (164)
T ss_pred             EEEEEEEECCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCe-EEEEEEchhccccc----C
Confidence            4578899998643222222333456799888887755 3566665555555432   344 45888998854311    1


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                      ......+.+.+.++.+++.
T Consensus       123 ~~~~~~~~~~~~~~~~~~e  141 (164)
T smart00175      123 VSREEAEAFAEEHGLPFFE  141 (164)
T ss_pred             CCHHHHHHHHHHcCCeEEE
Confidence            1113455667777876543

Rab GTPases are implicated in vesicle trafficking.

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

Probab=96.52  E-value=0.0067  Score=55.03  Aligned_cols=69  Identities=14%  Similarity=0.072  Sum_probs=43.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-------hHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-------AFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-------s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.++|||+...........+..+|.+++|+.....       ....+.+.+..+...+.+.+-+++||.+..
T Consensus        75 ~~~~i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiivvNK~Dl~  150 (219)
T cd01883          75 EKYRFTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLARTLGVKQLIVAVNKMDDV  150 (219)
T ss_pred             CCeEEEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHHHcCCCeEEEEEEccccc
Confidence            678899999985322122222234457999999887653       112344555556666766566789999865

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

>CHL00071 tufA elongation factor Tu

Probab=96.50  E-value=0.02  Score=57.14  Aligned_cols=68  Identities=16%  Similarity=0.215  Sum_probs=48.9

Q ss_pred             CCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +.+.++++|||+ ..+. ......+..+|.+++|+.+...-.....+.+..+...+++.+-+++|+.+..
T Consensus        73 ~~~~~~~iDtPG-h~~~~~~~~~~~~~~D~~ilVvda~~g~~~qt~~~~~~~~~~g~~~iIvvvNK~D~~  141 (409)
T CHL00071         73 ENRHYAHVDCPG-HADYVKNMITGAAQMDGAILVVSAADGPMPQTKEHILLAKQVGVPNIVVFLNKEDQV  141 (409)
T ss_pred             CCeEEEEEECCC-hHHHHHHHHHHHHhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEEccCCC
Confidence            566789999995 3321 1122334457999999988765556677888888888998676889999864

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.49  E-value=0.0081  Score=54.53  Aligned_cols=38  Identities=24%  Similarity=0.284  Sum_probs=33.1

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCC------CcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMG------ARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G------~rVllID~D~  212 (386)
                      +++.|+ |..|+|||+++.++|...+..|      .+|++||.+-
T Consensus        20 ~v~~I~-G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~   63 (226)
T cd01393          20 RITEIF-GEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG   63 (226)
T ss_pred             cEEEEe-CCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence            466666 8999999999999999988777      8999999974

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>PRK07952 DNA replication protein DnaC; Validated

Probab=96.47  E-value=0.0042  Score=57.31  Aligned_cols=34  Identities=29%  Similarity=0.290  Sum_probs=30.5

Q ss_pred             EEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          177 AVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       177 ~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      .+..|++|+|||+++.++|..|.++|++|+++++
T Consensus       102 ~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~  135 (244)
T PRK07952        102 FIFSGKPGTGKNHLAAAICNELLLRGKSVLIITV  135 (244)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEH
Confidence            3445999999999999999999999999999965

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.47  E-value=0.0055  Score=62.48  Aligned_cols=40  Identities=13%  Similarity=0.171  Sum_probs=35.2

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      .+.+.+|-.|+||||++.+++...+++|.+|+++-.+-..
T Consensus       264 s~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~eEs~  303 (484)
T TIGR02655       264 SIILATGATGTGKTLLVSKFLENACANKERAILFAYEESR  303 (484)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCH
Confidence            5555669999999999999999999999999999988643

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>PF13479 AAA_24: AAA domain

Probab=96.44  E-value=0.013  Score=52.95  Aligned_cols=31  Identities=23%  Similarity=0.285  Sum_probs=26.1

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      .++|+ |..|+||||++..+        .++++||+|-..
T Consensus         5 ~~lIy-G~~G~GKTt~a~~~--------~k~l~id~E~g~   35 (213)
T PF13479_consen    5 KILIY-GPPGSGKTTLAASL--------PKPLFIDTENGS   35 (213)
T ss_pred             EEEEE-CCCCCCHHHHHHhC--------CCeEEEEeCCCc
Confidence            56676 99999999998776        699999999643

>cd04127 Rab27A Rab27a subfamily

Probab=96.44  E-value=0.064  Score=46.45  Aligned_cols=91  Identities=11%  Similarity=0.166  Sum_probs=53.9

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+.+-|+|+|+...........+..+|.+++|.... ..++.++...+..+...    +.+ +.+|.|+++......  
T Consensus        61 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~Dl~~~~~--  137 (180)
T cd04127          61 QRIHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPD-IVLCGNKADLEDQRQ--  137 (180)
T ss_pred             CEEEEEEEeCCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc-EEEEEeCccchhcCc--
Confidence            3567889999863221122222244678888887765 35566666665555442    334 558899988643211  


Q ss_pred             cccCCChHHHHHHHhCCCeEE
Q 016622          354 YPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl~  374 (386)
                        .......++++.++++++.
T Consensus       138 --v~~~~~~~~~~~~~~~~~e  156 (180)
T cd04127         138 --VSEEQAKALADKYGIPYFE  156 (180)
T ss_pred             --cCHHHHHHHHHHcCCeEEE
Confidence              1123467788888877653

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

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=96.42  E-value=0.0053  Score=57.05  Aligned_cols=40  Identities=23%  Similarity=0.407  Sum_probs=36.1

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGP  215 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~  215 (386)
                      +|+|+ |..|+||||++..|+..|.+.|.+|.+|+.|.+..
T Consensus         1 IIgIt-G~SGSGKTTv~~~l~~~l~~~g~~v~vI~~D~yyr   40 (277)
T cd02029           1 VIAVT-GSSGAGTTTVKRAFEHIFAREGIHPAVVEGDSFHR   40 (277)
T ss_pred             CEEEE-CCCCCCHHHHHHHHHHHHHhcCCceEEEecccccc
Confidence            47786 78899999999999999999999999999998775

PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>cd04110 Rab35 Rab35 subfamily

Probab=96.40  E-value=0.051  Score=48.33  Aligned_cols=89  Identities=12%  Similarity=0.066  Sum_probs=50.2

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC--CCCeEEEEEcCCcCCCCCceeccc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL--KVPCIAVVENMCHFDADGKRYYPF  356 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~~~~~~~~~~  356 (386)
                      .+.+.|+|+|+......+....+..+|.+++|.... ..++..+...+..+...  ..+ +-+|.|+++.......    
T Consensus        54 ~~~l~l~D~~G~~~~~~~~~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~p-iivVgNK~Dl~~~~~~----  128 (199)
T cd04110          54 RVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCDDVC-KVLVGNKNDDPERKVV----  128 (199)
T ss_pred             EEEEEEEeCCCchhHHHHHHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCC-EEEEEECccccccccc----
Confidence            356789999864322222222244578888887764 45666666666666543  234 4588899886432111    


Q ss_pred             CCChHHHHHHHhCCCeE
Q 016622          357 GRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       357 ~~~~~~~i~~~~g~pvl  373 (386)
                      .......+++.++.+++
T Consensus       129 ~~~~~~~~~~~~~~~~~  145 (199)
T cd04110         129 ETEDAYKFAGQMGISLF  145 (199)
T ss_pred             CHHHHHHHHHHcCCEEE
Confidence            11234556666676654

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=96.39  E-value=0.075  Score=45.35  Aligned_cols=90  Identities=16%  Similarity=0.188  Sum_probs=51.3

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+-|+|+|+..............+|.+++|..... .++..+...+..+.+.   +.+ +-+|.|+++.......   
T Consensus        50 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~~~~---  125 (166)
T cd01869          50 TIKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVN-KLLVGNKCDLTDKRVV---  125 (166)
T ss_pred             EEEEEEEECCCcHhHHHHHHHHhCcCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCc-EEEEEEChhcccccCC---
Confidence            4567899998643222222222445788898877643 4556666655555443   344 4478899885432111   


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       .......+++.++++++.
T Consensus       126 -~~~~~~~~~~~~~~~~~~  143 (166)
T cd01869         126 -DYSEAQEFADELGIPFLE  143 (166)
T ss_pred             -CHHHHHHHHHHcCCeEEE
Confidence             113456677777876643

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

>cd00880 Era_like Era (E

Probab=96.39  E-value=0.025  Score=46.99  Aligned_cols=68  Identities=15%  Similarity=0.044  Sum_probs=43.0

Q ss_pred             CCcEEEEcCCCCCChH-------HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          280 ELDYLVIDMPPGTGDI-------QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~-------~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      .++++++|+|+.....       .........+|.+++|+.+..............+...+.+++ +|+|+++...
T Consensus        44 ~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~il~v~~~~~~~~~~~~~~~~~~~~~~~~~i-vv~nK~D~~~  118 (163)
T cd00880          44 LGPVVLIDTPGIDEAGGLGREREELARRVLERADLILFVVDADLRADEEEEKLLELLRERGKPVL-LVLNKIDLLP  118 (163)
T ss_pred             CCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCeEE-EEEEccccCC
Confidence            6789999999633210       122223445788898888877654444444555555667755 8889988543

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

>PHA02542 41 41 helicase; Provisional

Probab=96.37  E-value=0.0053  Score=62.17  Aligned_cols=43  Identities=21%  Similarity=0.115  Sum_probs=37.7

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSL  217 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl  217 (386)
                      -+.+.++.+|+||||++.|+|..+++.|++|++++++.....+
T Consensus       191 ~LiiIaarPgmGKTtfalniA~~~a~~g~~Vl~fSLEM~~~ql  233 (473)
T PHA02542        191 TLNVLLAGVNVGKSLGLCSLAADYLQQGYNVLYISMEMAEEVI  233 (473)
T ss_pred             cEEEEEcCCCccHHHHHHHHHHHHHhcCCcEEEEeccCCHHHH
Confidence            5667779999999999999999999999999999999865443

>cd01866 Rab2 Rab2 subfamily

Probab=96.37  E-value=0.048  Score=46.85  Aligned_cols=89  Identities=11%  Similarity=0.189  Sum_probs=51.0

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ...+.|+|+|+.-............+|.+++|.... ..++..+...+..+++.   +.+ +-+|.|+.+......    
T Consensus        52 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-vivv~nK~Dl~~~~~----  126 (168)
T cd01866          52 QIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMT-IMLIGNKCDLESRRE----  126 (168)
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCc-EEEEEECcccccccC----
Confidence            346889999864322222222244578888888865 45666666666655443   344 458889988643211    


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                      ......+.+++..+.+++
T Consensus       127 ~~~~~~~~~~~~~~~~~~  144 (168)
T cd01866         127 VSYEEGEAFAKEHGLIFM  144 (168)
T ss_pred             CCHHHHHHHHHHcCCEEE
Confidence            111335566666676654

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

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.36  E-value=0.005  Score=52.37  Aligned_cols=38  Identities=32%  Similarity=0.335  Sum_probs=33.0

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      |.|+ |..|+||||++..|+..+...|.++.++|.|..+
T Consensus         2 i~i~-G~~GsGKSTla~~L~~~l~~~g~~~~~i~~d~~r   39 (149)
T cd02027           2 IWLT-GLSGSGKSTIARALEEKLFQRGRPVYVLDGDNVR   39 (149)
T ss_pred             EEEE-cCCCCCHHHHHHHHHHHHHHcCCCEEEEcCHHHH
Confidence            4444 9999999999999999999889999999988655

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=96.33  E-value=0.073  Score=51.74  Aligned_cols=40  Identities=20%  Similarity=0.293  Sum_probs=30.9

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSL  217 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl  217 (386)
                      |.+.+|-=|+||||+--.|...  ..|.|+.+|-.|...-++
T Consensus         6 v~iltGFLGaGKTTll~~ll~~--~~~~~iavi~Ne~G~~~I   45 (341)
T TIGR02475         6 VTIVTGFLGAGKTTLIRHLLQN--AAGRRIAVIVNEFGDLGI   45 (341)
T ss_pred             EEEEEECCCCCHHHHHHHHHhc--cCCCcEEEEECCCccccc
Confidence            4555588899999999988764  468999999888755433

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=96.32  E-value=0.065  Score=45.68  Aligned_cols=68  Identities=13%  Similarity=0.080  Sum_probs=39.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHc----CCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSK----LKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.++|+|+...........+..+|.+++|+..... ++......+..+.+    .+.+++ +|+||++..
T Consensus        48 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~D~~  120 (167)
T cd04160          48 GNARLKFWDLGGQESLRSLWDKYYAECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVPLL-ILANKQDLP  120 (167)
T ss_pred             CCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEE-EEEEccccc
Confidence            457889999985322122222224567888988876543 34444444433322    356644 888999853

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.

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=96.32  E-value=0.097  Score=45.36  Aligned_cols=90  Identities=13%  Similarity=0.170  Sum_probs=48.0

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceec
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      .|.+.|+|+|+..............++.++++...+ ..++..+....+.+.+    .+.+++ +|.||++.......  
T Consensus        48 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~~~~~~--  124 (180)
T cd04137          48 DYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIV-LVGNKSDLHTQRQV--  124 (180)
T ss_pred             EEEEEEEECCChHhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEE-EEEEchhhhhcCcc--
Confidence            567899999864221112112233457777665544 3455666555544432    245544 88899986432111  


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                        .......+.+.++.+++.
T Consensus       125 --~~~~~~~~~~~~~~~~~~  142 (180)
T cd04137         125 --STEEGKELAESWGAAFLE  142 (180)
T ss_pred             --CHHHHHHHHHHcCCeEEE
Confidence              112345566777766543

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

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

Probab=96.31  E-value=0.1  Score=44.15  Aligned_cols=89  Identities=15%  Similarity=0.123  Sum_probs=48.5

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceec
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      .+.+.|+|+|+......+....+..+|.+++|..... .++..+......+.+    .+.++ -+|.||++.......  
T Consensus        49 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~pi-iiv~NK~Dl~~~~~~--  125 (164)
T cd04145          49 WAILDILDTAGQEEFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPM-ILVGNKADLEHQRKV--  125 (164)
T ss_pred             EEEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCE-EEEeeCcccccccee--
Confidence            3567789998643322222222445788888876544 344555554444432    24554 477899986432111  


Q ss_pred             ccCCChHHHHHHHhCCCeE
Q 016622          355 PFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl  373 (386)
                        ......++.+.++.+++
T Consensus       126 --~~~~~~~~~~~~~~~~~  142 (164)
T cd04145         126 --SREEGQELARKLKIPYI  142 (164)
T ss_pred             --cHHHHHHHHHHcCCcEE
Confidence              11234566666777664

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

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=96.31  E-value=0.0059  Score=59.91  Aligned_cols=38  Identities=29%  Similarity=0.359  Sum_probs=32.8

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+.+.++.+|+||||++..+|..+++.|.+|++++...
T Consensus        83 slvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EE  120 (372)
T cd01121          83 SVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEE  120 (372)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCc
Confidence            34445599999999999999999999999999998864

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.31  E-value=0.0088  Score=53.76  Aligned_cols=40  Identities=25%  Similarity=0.350  Sum_probs=33.3

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      ...+|+|+ |..|+||||++..|+..+  .+.++.+++.|...
T Consensus         5 ~~~iI~I~-G~sGsGKTTl~~~l~~~l--~~~~~~~i~~D~~~   44 (209)
T PRK05480          5 KPIIIGIA-GGSGSGKTTVASTIYEEL--GDESIAVIPQDSYY   44 (209)
T ss_pred             CCEEEEEE-CCCCCCHHHHHHHHHHHh--CCCceEEEeCCccc
Confidence            34578877 899999999999999988  45689999998754

>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=96.30  E-value=0.035  Score=44.61  Aligned_cols=63  Identities=21%  Similarity=0.206  Sum_probs=39.0

Q ss_pred             CCCcEEEEcCCCCCCh---------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcC
Q 016622          279 GELDYLVIDMPPGTGD---------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENM  343 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~---------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~  343 (386)
                      ....++|+|||+-...         .......+..+|.+++|+..+...-.....+++.++ .+.+ +-+|+|+
T Consensus        45 ~~~~~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vv~~~~~~~~~~~~~~~~l~-~~~~-~i~v~NK  116 (116)
T PF01926_consen   45 NNKKFILVDTPGINDGESQDNDGKEIRKFLEQISKSDLIIYVVDASNPITEDDKNILRELK-NKKP-IILVLNK  116 (116)
T ss_dssp             TTEEEEEEESSSCSSSSHHHHHHHHHHHHHHHHCTESEEEEEEETTSHSHHHHHHHHHHHH-TTSE-EEEEEES
T ss_pred             ceeeEEEEeCCCCcccchhhHHHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHh-cCCC-EEEEEcC
Confidence            3456789999964321         011223344579999999977733345667777786 4444 5578786

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 ....

>cd01860 Rab5_related Rab5-related subfamily

Probab=96.28  E-value=0.066  Score=45.39  Aligned_cols=90  Identities=13%  Similarity=0.117  Sum_probs=51.0

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcCC--CCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKLK--VPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~~--~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..+. ..++..+...+..+.+..  ...+-++.|+.+.......   
T Consensus        48 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~---  124 (163)
T cd01860          48 TTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESKRQV---  124 (163)
T ss_pred             EEEEEEEEeCCchHHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccCcC---
Confidence            3556889999864322222222244578899888765 345677777666665543  1224578899885432111   


Q ss_pred             cCCChHHHHHHHhCCCe
Q 016622          356 FGRGSGSQVVQQFGIPH  372 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pv  372 (386)
                       .......+.+..+.++
T Consensus       125 -~~~~~~~~~~~~~~~~  140 (163)
T cd01860         125 -STEEAQEYADENGLLF  140 (163)
T ss_pred             -CHHHHHHHHHHcCCEE
Confidence             1124556666666543

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=96.27  E-value=0.011  Score=59.11  Aligned_cols=69  Identities=14%  Similarity=0.109  Sum_probs=43.3

Q ss_pred             CCCcEEEEcCCCCCCh-----H---HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGD-----I---QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~-----~---~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ....+.|+|||+-..+     .   ......+..+|.+++|+.+...-........+++++.+.+++ +|+|+++...
T Consensus        45 ~~~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad~vl~vvD~~~~~~~~d~~i~~~l~~~~~pii-lVvNK~D~~~  121 (429)
T TIGR03594        45 GGREFILIDTGGIEEDDDGLDKQIREQAEIAIEEADVILFVVDGREGLTPEDEEIAKWLRKSGKPVI-LVANKIDGKK  121 (429)
T ss_pred             CCeEEEEEECCCCCCcchhHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHHHHHHHHHHHhCCCEE-EEEECccCCc
Confidence            4456899999853211     0   111222445799999988765333334566777777777766 6789998643

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.

>PRK00652 lpxK tetraacyldisaccharide 4'-kinase; Reviewed

Probab=96.27  E-value=0.021  Score=54.98  Aligned_cols=40  Identities=28%  Similarity=0.468  Sum_probs=34.2

Q ss_pred             eEEEEEe-CcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          174 NIVAVSS-CKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s-~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      .+|+|-| +.||+|||+++..|+..|.++|++|.++-=...
T Consensus        50 pvIsVGNi~vGGtGKTP~v~~L~~~l~~~g~~~~ilsRGYg   90 (325)
T PRK00652         50 PVIVVGNITVGGTGKTPVVIALAEQLQARGLKPGVVSRGYG   90 (325)
T ss_pred             CEEEEcCeeCCCCChHHHHHHHHHHHHHCCCeEEEECCCCC
Confidence            4888844 469999999999999999999999999965543

>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=96.27  E-value=0.0058  Score=49.53  Aligned_cols=32  Identities=41%  Similarity=0.459  Sum_probs=24.4

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      +|+|+ |..|+||||+|..||..+   |..++-+|-
T Consensus         1 vI~I~-G~~gsGKST~a~~La~~~---~~~~i~~d~   32 (121)
T PF13207_consen    1 VIIIS-GPPGSGKSTLAKELAERL---GFPVISMDD   32 (121)
T ss_dssp             EEEEE-ESTTSSHHHHHHHHHHHH---TCEEEEEHH
T ss_pred             CEEEE-CCCCCCHHHHHHHHHHHH---CCeEEEecc
Confidence            35555 999999999999999877   666654443

...

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=96.27  E-value=0.0037  Score=56.92  Aligned_cols=40  Identities=25%  Similarity=0.298  Sum_probs=32.0

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHC-CCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~-G~rVllID~D~~~  214 (386)
                      .++.+. |..|+|||+++.+++...+++ |.+|++|.++...
T Consensus        20 s~~li~-G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~   60 (226)
T PF06745_consen   20 SVVLIS-GPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPP   60 (226)
T ss_dssp             SEEEEE-ESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-H
T ss_pred             cEEEEE-eCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCH
Confidence            355555 999999999999999999988 9999999987643

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>PLN03126 Elongation factor Tu; Provisional

Probab=96.26  E-value=0.027  Score=57.21  Aligned_cols=68  Identities=15%  Similarity=0.201  Sum_probs=48.7

Q ss_pred             CCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +.+.+.+||+|+ ..+. ......+..+|.+++|+.+...-....++.+..+...+++.+-+++||.+..
T Consensus       142 ~~~~i~liDtPG-h~~f~~~~~~g~~~aD~ailVVda~~G~~~qt~e~~~~~~~~gi~~iIvvvNK~Dl~  210 (478)
T PLN03126        142 ENRHYAHVDCPG-HADYVKNMITGAAQMDGAILVVSGADGPMPQTKEHILLAKQVGVPNMVVFLNKQDQV  210 (478)
T ss_pred             CCcEEEEEECCC-HHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEeccccc
Confidence            466789999995 3221 1222334457999999987765556677888888888998777889999864

>cd04106 Rab23_lke Rab23-like subfamily

Probab=96.26  E-value=0.075  Score=44.98  Aligned_cols=91  Identities=9%  Similarity=0.101  Sum_probs=52.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc--CCCCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK--LKVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~--~~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+++.|+|+|+.-....+....+..+|.+++|..... .++..+...+..+.+  .+.+++ +|.|+++.......   
T Consensus        49 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~~~~~p~i-iv~nK~Dl~~~~~v---  124 (162)
T cd04106          49 EDVRLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECGDIPMV-LVQTKIDLLDQAVI---  124 (162)
T ss_pred             CEEEEEEeeCCchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEE-EEEEChhcccccCC---
Confidence            45789999998643222222223446788888876543 355555555544443  256654 88899886432111   


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       .......+++.++.+++.
T Consensus       125 -~~~~~~~~~~~~~~~~~~  142 (162)
T cd04106         125 -TNEEAEALAKRLQLPLFR  142 (162)
T ss_pred             -CHHHHHHHHHHcCCeEEE
Confidence             113456677788877653

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

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

Probab=96.24  E-value=0.034  Score=49.73  Aligned_cols=67  Identities=10%  Similarity=0.118  Sum_probs=41.1

Q ss_pred             CcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          281 LDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       281 yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +-+.|+|||+...-.......+..+|.+++|+..... ........+..+...+.+.+-+|+||.+..
T Consensus        83 ~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~~~~~iiivvNK~Dl~  150 (203)
T cd01888          83 RHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIMGLKHIIIVQNKIDLV  150 (203)
T ss_pred             cEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHcCCCcEEEEEEchhcc
Confidence            6789999986322112222334456999999887752 122334455556656665455899998864

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

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=96.23  E-value=0.071  Score=57.32  Aligned_cols=88  Identities=17%  Similarity=0.162  Sum_probs=53.8

Q ss_pred             CCCcEEEEcCCCCCCh----------HHHh--hhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcC
Q 016622          279 GELDYLVIDMPPGTGD----------IQLT--LCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHF  346 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~----------~~~~--~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~  346 (386)
                      ..+++.++|+|+..+-          ....  ......+|.+++|++++..  +........+.+.+.+++ +++||+|.
T Consensus        48 ~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~aD~vI~VvDat~l--er~l~l~~ql~e~giPvI-vVlNK~Dl  124 (772)
T PRK09554         48 TDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNL--ERNLYLTLQLLELGIPCI-VALNMLDI  124 (772)
T ss_pred             CceEEEEEECCCccccccccccccHHHHHHHHHHhccCCCEEEEEecCCcc--hhhHHHHHHHHHcCCCEE-EEEEchhh
Confidence            5678999999963321          1111  1111257899999887653  333345556677788865 78899986


Q ss_pred             CCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          347 DADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       347 ~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ......     ....+++++.+|+|++.
T Consensus       125 ~~~~~i-----~id~~~L~~~LG~pVvp  147 (772)
T PRK09554        125 AEKQNI-----RIDIDALSARLGCPVIP  147 (772)
T ss_pred             hhccCc-----HHHHHHHHHHhCCCEEE
Confidence            432111     13467788889988764

>PRK15494 era GTPase Era; Provisional

Probab=96.22  E-value=0.06  Score=52.33  Aligned_cols=67  Identities=12%  Similarity=0.199  Sum_probs=39.7

Q ss_pred             CCCcEEEEcCCCCCCh---H--HH---hhhhhcCCCeEEEEeCCCcchHHHH-HHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGD---I--QL---TLCQVVPLTAAVIVTTPQKLAFIDV-AKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~---~--~~---~~~~~~~~d~vviV~~~~~~s~~~~-~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +++.++++|||+....   .  .+   ....+..+|.+++|++... ++... ...++.++..+.+.+ +|+|+++..
T Consensus        98 ~~~qi~~~DTpG~~~~~~~l~~~~~r~~~~~l~~aDvil~VvD~~~-s~~~~~~~il~~l~~~~~p~I-lViNKiDl~  173 (339)
T PRK15494         98 KDTQVILYDTPGIFEPKGSLEKAMVRCAWSSLHSADLVLLIIDSLK-SFDDITHNILDKLRSLNIVPI-FLLNKIDIE  173 (339)
T ss_pred             CCeEEEEEECCCcCCCcccHHHHHHHHHHHHhhhCCEEEEEEECCC-CCCHHHHHHHHHHHhcCCCEE-EEEEhhcCc
Confidence            4557899999864221   0  00   0112446789998887654 22222 345666666666665 688999853

>cd01882 BMS1 Bms1

Probab=96.19  E-value=0.06  Score=49.07  Aligned_cols=65  Identities=6%  Similarity=-0.025  Sum_probs=43.2

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ...+.++|||+..   .........+|.+++|+.....-......+++.+...+.+.+-+|+|+.+.-
T Consensus        82 ~~~i~~vDtPg~~---~~~l~~ak~aDvVllviDa~~~~~~~~~~i~~~l~~~g~p~vi~VvnK~D~~  146 (225)
T cd01882          82 KRRLTFIECPNDI---NAMIDIAKVADLVLLLIDASFGFEMETFEFLNILQVHGFPRVMGVLTHLDLF  146 (225)
T ss_pred             CceEEEEeCCchH---HHHHHHHHhcCEEEEEEecCcCCCHHHHHHHHHHHHcCCCeEEEEEeccccC
Confidence            4457899998543   1122224456889999887654434456777888777887655688998853

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.

>cd04175 Rap1 Rap1 subgroup

Probab=96.17  E-value=0.14  Score=43.62  Aligned_cols=91  Identities=16%  Similarity=0.203  Sum_probs=51.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+.+.|+|+|+......+.-.....+|.+++|...+ ..++..+......+.+    .+.++ -+|.||++....... 
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl~~~~~~-  124 (164)
T cd04175          47 QQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPM-ILVGNKCDLEDERVV-  124 (164)
T ss_pred             EEEEEEEEECCCcccchhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECCcchhccEE-
Confidence            3566779999864322222222244568888876654 3455666555554432    24554 488999886432111 


Q ss_pred             cccCCChHHHHHHHhCCCeEE
Q 016622          354 YPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl~  374 (386)
                         .....+.+++.++.+++.
T Consensus       125 ---~~~~~~~~~~~~~~~~~~  142 (164)
T cd04175         125 ---GKEQGQNLARQWGCAFLE  142 (164)
T ss_pred             ---cHHHHHHHHHHhCCEEEE
Confidence               112356777788877653

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

>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated

Probab=96.17  E-value=0.031  Score=48.75  Aligned_cols=35  Identities=26%  Similarity=0.194  Sum_probs=29.5

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      .|-|+ .-.|=||||-|..+|...+-+|+||+++=+
T Consensus        23 li~VY-tGdGKGKTTAAlGlalRAaG~G~rV~iiQF   57 (178)
T PRK07414         23 LVQVF-TSSQRNFFTSVMAQALRIAGQGTPVLIVQF   57 (178)
T ss_pred             EEEEE-eCCCCCchHHHHHHHHHHhcCCCEEEEEEE
Confidence            44444 456999999999999999999999999965

>KOG1534 consensus Putative transcription factor FET5 [Transcription]

Probab=96.16  E-value=0.01  Score=52.63  Aligned_cols=44  Identities=18%  Similarity=0.209  Sum_probs=36.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSL  217 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl  217 (386)
                      +.-.++-|-.|+||||...++-...-..|+++-+|.+||..-..
T Consensus         3 ~ya~lV~GpAgSGKSTyC~~~~~h~e~~gRs~~vVNLDPAae~f   46 (273)
T KOG1534|consen    3 RYAQLVMGPAGSGKSTYCSSMYEHCETVGRSVHVVNLDPAAEHF   46 (273)
T ss_pred             ceeEEEEccCCCCcchHHHHHHHHHHhhCceeEEeecCHHHHhh
Confidence            34344448889999999999999999999999999999966443

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=96.16  E-value=0.1  Score=44.76  Aligned_cols=89  Identities=15%  Similarity=0.234  Sum_probs=51.6

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+...........+..+|.+++|... +..++..+.+.+..+.+.   +.+ +-+|.|+.+.......   
T Consensus        51 ~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl~~~~~~---  126 (167)
T cd01867          51 KIKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDEKSFENIRNWMRNIEEHASEDVE-RMLVGNKCDMEEKRVV---  126 (167)
T ss_pred             EEEEEEEeCCchHHHHHHHHHHhCCCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCc-EEEEEECcccccccCC---
Confidence            46788999986433222222334567888888765 345666666666655543   344 4488899886432111   


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                       .......+++.++.+++
T Consensus       127 -~~~~~~~~~~~~~~~~~  143 (167)
T cd01867         127 -SKEEGEALADEYGIKFL  143 (167)
T ss_pred             -CHHHHHHHHHHcCCEEE
Confidence             11235566677776653

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

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=96.16  E-value=0.033  Score=53.37  Aligned_cols=91  Identities=19%  Similarity=0.207  Sum_probs=54.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCC-CCCccCCCcccccccCCCCCceeeeccCCceEEecC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGP-SLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFG  251 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~-sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~  251 (386)
                      ++++-|++ ..|+||||++..+...+.+.|..+++||+.-.-. .....+|.+.                 +.+-+..+.
T Consensus        53 G~ivEi~G-~~ssGKttLaL~~ia~~q~~g~~~a~ID~e~~ld~~~a~~lGvdl-----------------~rllv~~P~  114 (322)
T PF00154_consen   53 GRIVEIYG-PESSGKTTLALHAIAEAQKQGGICAFIDAEHALDPEYAESLGVDL-----------------DRLLVVQPD  114 (322)
T ss_dssp             TSEEEEEE-STTSSHHHHHHHHHHHHHHTT-EEEEEESSS---HHHHHHTT--G-----------------GGEEEEE-S
T ss_pred             CceEEEeC-CCCCchhhhHHHHHHhhhcccceeEEecCcccchhhHHHhcCccc-----------------cceEEecCC
Confidence            47888885 5789999999999999988999999999864211 0111123221                 123222211


Q ss_pred             CCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC
Q 016622          252 FSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG  293 (386)
Q Consensus       252 ~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~  293 (386)
                               .++...+.++++++.   +.+|+||||.-+.+.
T Consensus       115 ---------~~E~al~~~e~lirs---g~~~lVVvDSv~al~  144 (322)
T PF00154_consen  115 ---------TGEQALWIAEQLIRS---GAVDLVVVDSVAALV  144 (322)
T ss_dssp             ---------SHHHHHHHHHHHHHT---TSESEEEEE-CTT-B
T ss_pred             ---------cHHHHHHHHHHHhhc---ccccEEEEecCcccC
Confidence                     122344566777653   788999999987664

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.16  E-value=0.017  Score=51.64  Aligned_cols=104  Identities=15%  Similarity=0.148  Sum_probs=65.0

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeee-ccCCceEEecCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPT-EYLGVKLVSFGFS  253 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~-~~~~l~vl~~~~~  253 (386)
                      .+.+.=|-.|+|||-++..+++.+-+.|++|.++-....-   ..+      +..+......+.+. -...+.++|....
T Consensus        29 sL~lIEGd~~tGKSvLsqr~~YG~L~~g~~v~yvsTe~T~---ref------i~qm~sl~ydv~~~~l~G~l~~~~~~~~   99 (235)
T COG2874          29 SLILIEGDNGTGKSVLSQRFAYGFLMNGYRVTYVSTELTV---REF------IKQMESLSYDVSDFLLSGRLLFFPVNLE   99 (235)
T ss_pred             eEEEEECCCCccHHHHHHHHHHHHHhCCceEEEEEechhH---HHH------HHHHHhcCCCchHHHhcceeEEEEeccc
Confidence            3444448999999999999999999999999999765311   111      11111111111111 1235666664322


Q ss_pred             CCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCC
Q 016622          254 GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPP  290 (386)
Q Consensus       254 ~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp  290 (386)
                         ...|........++.+++..+..++|+||||+=.
T Consensus       100 ---~~~~~~~~~~~~L~~l~~~~k~~~~dViIIDSls  133 (235)
T COG2874         100 ---PVNWGRRSARKLLDLLLEFIKRWEKDVIIIDSLS  133 (235)
T ss_pred             ---ccccChHHHHHHHHHHHhhHHhhcCCEEEEeccc
Confidence               2334555556677777777766789999999843

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=96.15  E-value=0.11  Score=44.76  Aligned_cols=69  Identities=14%  Similarity=0.110  Sum_probs=42.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSKL----KVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~  348 (386)
                      +.+.+.|+|+|+......+.......+|.+++|...... ++..+...+..+.+.    +.+ +-+|.||.+...
T Consensus        41 ~~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~p-iliv~NK~Dl~~  114 (167)
T cd04161          41 DKYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKP-ILVLANKQDKKN  114 (167)
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEECCchhHHHHHHHHHHHHHcCccccCCc-EEEEEeCCCCcC
Confidence            467889999986432222222234567999999887653 566666655555332    445 448889988543

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.

>cd04125 RabA_like RabA-like subfamily

Probab=96.14  E-value=0.16  Score=44.52  Aligned_cols=92  Identities=9%  Similarity=0.026  Sum_probs=51.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcCC--CCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKLK--VPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~~--~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      +.+.+.|+|+++...........+..+|.+++|..... .++..+...+..+.+..  ...+-+|.|+.+......    
T Consensus        47 ~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~----  122 (188)
T cd04125          47 KIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVYDVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNKV----  122 (188)
T ss_pred             EEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCccccc----
Confidence            35678899998643222122222446789888877644 45566666555554431  223568889988543211    


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                      ........+++..+++++.
T Consensus       123 v~~~~~~~~~~~~~~~~~e  141 (188)
T cd04125         123 VDSNIAKSFCDSLNIPFFE  141 (188)
T ss_pred             CCHHHHHHHHHHcCCeEEE
Confidence            1112344566666766543

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.

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=96.13  E-value=0.047  Score=52.54  Aligned_cols=145  Identities=14%  Similarity=0.183  Sum_probs=74.5

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQ  255 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~~  255 (386)
                      |.+.+|-=|+||||+--+|...  ..|.|+.+|--|...-++.      ..+...  ...        ++.-+.     .
T Consensus         6 v~iltGFLGaGKTTll~~ll~~--~~~~riaVi~NEfG~v~iD------~~ll~~--~~~--------~v~eL~-----~   62 (318)
T PRK11537          6 VTLLTGFLGAGKTTLLRHILNE--QHGYKIAVIENEFGEVSVD------DQLIGD--RAT--------QIKTLT-----N   62 (318)
T ss_pred             EEEEEECCCCCHHHHHHHHHhc--ccCCcccccccCcCCcccc------HHHHhC--cCc--------eEEEEC-----C
Confidence            4455588899999999988754  4689999998887443332      111110  000        111111     1


Q ss_pred             cccc-cCCchHHHHHHHHHHhcCCC--CCcEEEEcCCCCCChHHHhh--------hhhcCCCeEEEEeCCCcchH--HHH
Q 016622          256 GRAI-MRGPMVSGVINQLLTTTEWG--ELDYLVIDMPPGTGDIQLTL--------CQVVPLTAAVIVTTPQKLAF--IDV  322 (386)
Q Consensus       256 ~~~~-~~~~~~~~~l~~ll~~~~~~--~yD~VIIDtpp~~~~~~~~~--------~~~~~~d~vviV~~~~~~s~--~~~  322 (386)
                      ++.+ .....+...+.++++....+  .+|+|||.+.+......+..        ......+.++.|+++.....  ...
T Consensus        63 GCiCCs~~~~l~~~l~~l~~~~~~~~~~~d~IvIEttG~a~p~~i~~~~~~~~~l~~~~~l~~vvtvvDa~~~~~~~~~~  142 (318)
T PRK11537         63 GCICCSRSNELEDALLDLLDNLDKGNIQFDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQF  142 (318)
T ss_pred             CEEEEccCchHHHHHHHHHHHHhccCCCCCEEEEECCCccCHHHHHHHHhcChhhcccEEeccEEEEEEhhhhhhhcccc
Confidence            1111 11234455666666433212  59999999975433221111        11112467888877754321  111


Q ss_pred             HHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          323 AKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       323 ~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ....+++....    -+|+||++..
T Consensus       143 ~~~~~Qi~~AD----~IvlnK~Dl~  163 (318)
T PRK11537        143 TIAQSQVGYAD----RILLTKTDVA  163 (318)
T ss_pred             HHHHHHHHhCC----EEEEeccccC
Confidence            11223343332    3888998754

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=96.13  E-value=0.012  Score=51.85  Aligned_cols=43  Identities=30%  Similarity=0.357  Sum_probs=36.0

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      +++.+|.++ |..|+||||++..|+..+...|..+.++|.|..+
T Consensus        16 ~~~~~i~i~-G~~GsGKstla~~l~~~l~~~~~~~~~l~~d~~r   58 (184)
T TIGR00455        16 HRGVVIWLT-GLSGSGKSTIANALEKKLESKGYRVYVLDGDNVR   58 (184)
T ss_pred             CCCeEEEEE-CCCCCCHHHHHHHHHHHHHHcCCcEEEECChHHH
Confidence            445677776 8889999999999999998888889999887644

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>cd01864 Rab19 Rab19 subfamily

Probab=96.12  E-value=0.065  Score=45.72  Aligned_cols=86  Identities=13%  Similarity=0.148  Sum_probs=49.5

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+..............+|.+++|..... .++..+...+..+...   +.++ -+|.|+++.......   
T Consensus        51 ~~~l~i~D~~G~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~-ivv~nK~Dl~~~~~~---  126 (165)
T cd01864          51 RVKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVL-LLIGNKCDLEEQREV---  126 (165)
T ss_pred             EEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcE-EEEEECccccccccc---
Confidence            3678999999643221222222345788888877655 3566666666655443   3444 488899886432111   


Q ss_pred             cCCChHHHHHHHhCC
Q 016622          356 FGRGSGSQVVQQFGI  370 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~  370 (386)
                       .......+++.++.
T Consensus       127 -~~~~~~~~~~~~~~  140 (165)
T cd01864         127 -LFEEACTLAEKNGM  140 (165)
T ss_pred             -CHHHHHHHHHHcCC
Confidence             11245566776664

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.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=96.12  E-value=0.0084  Score=52.92  Aligned_cols=40  Identities=28%  Similarity=0.255  Sum_probs=30.4

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHH----------CCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAG----------MGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~----------~G~rVllID~D~~~  214 (386)
                      -+.+..+.+|+||||++.++|..++.          .+.+|++|+++...
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~   82 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSE   82 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-H
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCH
Confidence            35555699999999999999999996          67899999998754

>PLN00043 elongation factor 1-alpha; Provisional

Probab=96.12  E-value=0.022  Score=57.43  Aligned_cols=70  Identities=16%  Similarity=0.061  Sum_probs=50.2

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchH-------HHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAF-------IDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~-------~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ++.+-+.|||+|+-..-.......+..+|.+++|+.+....+       ..+++.+..++..|++.+-+++|+++..
T Consensus        82 ~~~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G~~e~g~~~~~qT~eh~~~~~~~gi~~iIV~vNKmD~~  158 (447)
T PLN00043         82 TTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTGGFEAGISKDGQTREHALLAFTLGVKQMICCCNKMDAT  158 (447)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccCceecccCCCchHHHHHHHHHHcCCCcEEEEEEcccCC
Confidence            367889999999532222223334556799999998876433       3677788888888998777889999854

>PRK04328 hypothetical protein; Provisional

Probab=96.10  E-value=0.017  Score=53.56  Aligned_cols=39  Identities=23%  Similarity=0.220  Sum_probs=33.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      .++.|+ +.+|+|||+++.+++...+++|.++++|.++-.
T Consensus        24 s~ili~-G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee~   62 (249)
T PRK04328         24 NVVLLS-GGPGTGKSIFSQQFLWNGLQMGEPGVYVALEEH   62 (249)
T ss_pred             cEEEEE-cCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeCC
Confidence            456665 889999999999999998888999999999763

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.10  E-value=0.0098  Score=55.49  Aligned_cols=38  Identities=24%  Similarity=0.168  Sum_probs=33.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+.+.+|.+|+|||+++.++|...+++|.+|++++++.
T Consensus        37 s~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~Ee   74 (259)
T TIGR03878        37 SVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVES   74 (259)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecC
Confidence            44555599999999999999999999999999999984

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=96.10  E-value=0.12  Score=44.85  Aligned_cols=91  Identities=10%  Similarity=0.152  Sum_probs=51.7

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+.+.|+|+|+......+.......+|.+++|...+ ..++..+....+.+.+    .+.++ -+|.||++......  
T Consensus        48 ~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~pi-ilvgNK~Dl~~~~~--  124 (172)
T cd04141          48 EPALLDILDTAGQAEFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDIPL-VLVGNKVDLESQRQ--  124 (172)
T ss_pred             EEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCCCE-EEEEEChhhhhcCc--
Confidence            3467888999864332222222244568888876654 3566666654444443    24554 47889998643211  


Q ss_pred             cccCCChHHHHHHHhCCCeEE
Q 016622          354 YPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl~  374 (386)
                        ........+++..+++++.
T Consensus       125 --v~~~~~~~~a~~~~~~~~e  143 (172)
T cd04141         125 --VTTEEGRNLAREFNCPFFE  143 (172)
T ss_pred             --cCHHHHHHHHHHhCCEEEE
Confidence              1123456677777877653

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

>cd04118 Rab24 Rab24 subfamily

Probab=96.09  E-value=0.093  Score=46.12  Aligned_cols=93  Identities=9%  Similarity=0.025  Sum_probs=48.4

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC--CCCeEEEEEcCCcCCCCCceeccc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL--KVPCIAVVENMCHFDADGKRYYPF  356 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~~~~~~~~~~  356 (386)
                      .+.+-|+|+++......+.......+|.+++|..... .++..+...++.+...  +.+ +-+|.|+++...........
T Consensus        49 ~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~p-iilv~nK~Dl~~~~~~~~~v  127 (193)
T cd04118          49 VVTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLEEHCK-IYLCGTKSDLIEQDRSLRQV  127 (193)
T ss_pred             EEEEEEEECCCchhhhhhhHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHhcCCCCC-EEEEEEcccccccccccCcc
Confidence            3456688888543211121122335788888877643 4555555566666544  445 45888999853321110011


Q ss_pred             CCChHHHHHHHhCCCeE
Q 016622          357 GRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       357 ~~~~~~~i~~~~g~pvl  373 (386)
                      ......++++.++.+++
T Consensus       128 ~~~~~~~~~~~~~~~~~  144 (193)
T cd04118         128 DFHDVQDFADEIKAQHF  144 (193)
T ss_pred             CHHHHHHHHHHcCCeEE
Confidence            11234455666666544

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

>cd01868 Rab11_like Rab11-like

Probab=96.09  E-value=0.083  Score=44.98  Aligned_cols=89  Identities=12%  Similarity=0.112  Sum_probs=49.2

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+......+....+..++.+++|.... ..+..++.+.+..+.+.   +.+ +-+|.|+.+.......   
T Consensus        51 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-i~vv~nK~Dl~~~~~~---  126 (165)
T cd01868          51 TIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKKQTFENVERWLKELRDHADSNIV-IMLVGNKSDLRHLRAV---  126 (165)
T ss_pred             EEEEEEEeCCChHHHHHHHHHHHCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCe-EEEEEECccccccccC---
Confidence            456889999864322222222244568788876654 45666666666655443   234 4578899885432111   


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                       .......+++..+++++
T Consensus       127 -~~~~~~~~~~~~~~~~~  143 (165)
T cd01868         127 -PTEEAKAFAEKNGLSFI  143 (165)
T ss_pred             -CHHHHHHHHHHcCCEEE
Confidence             11234555555565543

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

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

Probab=96.07  E-value=0.035  Score=54.50  Aligned_cols=86  Identities=14%  Similarity=0.106  Sum_probs=61.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGR  358 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~  358 (386)
                      ..+-+=|+|||+--.-...+.-.+.++|..++|+.+...--..+.++.+.++-.+++++-+| |+.+.......      
T Consensus        79 ~~~~iNLLDTPGHeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT~KLfeVcrlR~iPI~TFi-NKlDR~~rdP~------  151 (528)
T COG4108          79 ADCLVNLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQTLKLFEVCRLRDIPIFTFI-NKLDREGRDPL------  151 (528)
T ss_pred             CCeEEeccCCCCccccchhHHHHHHhhheeeEEEecccCccHHHHHHHHHHhhcCCceEEEe-eccccccCChH------
Confidence            45556689999632212223334777899999999888766788999999999999988554 99886553211      


Q ss_pred             ChHHHHHHHhCCC
Q 016622          359 GSGSQVVQQFGIP  371 (386)
Q Consensus       359 ~~~~~i~~~~g~p  371 (386)
                      +.++++++.+++.
T Consensus       152 ELLdEiE~~L~i~  164 (528)
T COG4108         152 ELLDEIEEELGIQ  164 (528)
T ss_pred             HHHHHHHHHhCcc
Confidence            4688999998853

>cd01861 Rab6 Rab6 subfamily

Probab=96.07  E-value=0.15  Score=43.14  Aligned_cols=89  Identities=13%  Similarity=0.102  Sum_probs=49.8

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc-CC--CCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK-LK--VPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~-~~--~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+...........+..+|.+++|...+. .+...+...+..+.. .+  .+ +-++.|+++.......   
T Consensus        48 ~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-iilv~nK~D~~~~~~~---  123 (161)
T cd01861          48 TVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVI-IVLVGNKTDLSDKRQV---  123 (161)
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEEChhccccCcc---
Confidence            3568899998643322222222445788888877654 345666666665533 23  44 5588899887321111   


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                       .......+.+..+.+++
T Consensus       124 -~~~~~~~~~~~~~~~~~  140 (161)
T cd01861         124 -STEEGEKKAKELNAMFI  140 (161)
T ss_pred             -CHHHHHHHHHHhCCEEE
Confidence             11234555666665543

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

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.06  E-value=0.012  Score=51.23  Aligned_cols=39  Identities=26%  Similarity=0.239  Sum_probs=33.6

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +..|.|+ |-.|+||||++..|+..|...+..+.++|.|.
T Consensus         7 ~~~I~i~-G~~GsGKst~a~~l~~~l~~~~~~~~~~~~d~   45 (176)
T PRK05541          7 GYVIWIT-GLAGSGKTTIAKALYERLKLKYSNVIYLDGDE   45 (176)
T ss_pred             CCEEEEE-cCCCCCHHHHHHHHHHHHHHcCCcEEEEecHH
Confidence            3477776 99999999999999999998888899998664

>PRK05433 GTP-binding protein LepA; Provisional

Probab=96.06  E-value=0.052  Score=56.81  Aligned_cols=68  Identities=13%  Similarity=0.007  Sum_probs=42.0

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +.|.+.|+|||+-..........+..+|.+++|+.....--......+..+...+++++ +|+|+++..
T Consensus        72 ~~~~lnLiDTPGh~dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~~~lpiI-vViNKiDl~  139 (600)
T PRK05433         72 ETYILNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALENDLEII-PVLNKIDLP  139 (600)
T ss_pred             CcEEEEEEECCCcHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCEE-EEEECCCCC
Confidence            46789999998533211122223556799999988765322233344444555677755 788999864

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=96.05  E-value=0.059  Score=50.62  Aligned_cols=38  Identities=21%  Similarity=0.334  Sum_probs=33.9

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +++=|+ |-.|+||||+|.+++....+.|.+|.+||+.-
T Consensus        61 ~ItEiy-G~~gsGKT~lal~~~~~aq~~g~~a~fIDtE~   98 (279)
T COG0468          61 RITEIY-GPESSGKTTLALQLVANAQKPGGKAAFIDTEH   98 (279)
T ss_pred             eEEEEe-cCCCcchhhHHHHHHHHhhcCCCeEEEEeCCC
Confidence            566677 88999999999999999999999999999863

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=96.05  E-value=0.15  Score=43.20  Aligned_cols=89  Identities=16%  Similarity=0.216  Sum_probs=49.0

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceec
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      .+.+-|+|+|+...........+..+|.+++|..... .++..+......+.+    .+.+++ +|.|+++......   
T Consensus        47 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii-~v~nK~Dl~~~~~---  122 (164)
T smart00173       47 VCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIV-LVGNKCDLESERV---  122 (164)
T ss_pred             EEEEEEEECCCcccchHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEE-EEEECccccccce---
Confidence            4667889998643222222222445688888776554 455555554444432    245544 7889988643211   


Q ss_pred             ccCCChHHHHHHHhCCCeE
Q 016622          355 PFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl  373 (386)
                       ........+.+.++.+++
T Consensus       123 -~~~~~~~~~~~~~~~~~~  140 (164)
T smart00173      123 -VSTEEGKELARQWGCPFL  140 (164)
T ss_pred             -EcHHHHHHHHHHcCCEEE
Confidence             111245566777776554

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

>PF13245 AAA_19: Part of AAA domain

Probab=96.05  E-value=0.014  Score=43.70  Aligned_cols=36  Identities=25%  Similarity=0.248  Sum_probs=29.0

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHC----CCcEEEEEc
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGM----GARVGIFDA  210 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~----G~rVllID~  210 (386)
                      -+.+..+-+|+|||+++++++..+...    |.+|+++-.
T Consensus        11 ~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~   50 (76)
T PF13245_consen   11 PLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAP   50 (76)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECC
Confidence            345555999999999999999998865    889999843

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.05  E-value=0.011  Score=53.94  Aligned_cols=38  Identities=21%  Similarity=0.211  Sum_probs=31.0

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHC------CCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM------GARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~------G~rVllID~D~  212 (386)
                      .++.++ |..|+|||+++.+++......      +.+|++||++.
T Consensus        20 ~i~~i~-G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~   63 (235)
T cd01123          20 SITEIF-GEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEG   63 (235)
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCC
Confidence            466665 999999999999999876543      47999999976

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=96.04  E-value=0.0079  Score=55.71  Aligned_cols=36  Identities=33%  Similarity=0.369  Sum_probs=31.9

Q ss_pred             EEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          178 VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       178 v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      +..|.+|+||||+|..|+..+...|++|.+++.|.-
T Consensus         3 vl~G~pGSGKST~a~~La~~l~~~~~~v~~i~~D~l   38 (249)
T TIGR03574         3 ILTGLPGVGKSTFSKELAKKLSEKNIDVIILGTDLI   38 (249)
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHHcCCceEEEccHHH
Confidence            445999999999999999999988999999988753

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>cd04124 RabL2 RabL2 subfamily

Probab=96.03  E-value=0.086  Score=44.95  Aligned_cols=67  Identities=13%  Similarity=0.174  Sum_probs=42.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC--CCCeEEEEEcCCcC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL--KVPCIAVVENMCHF  346 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~  346 (386)
                      ..+.+-|+||++.-....+....+..+|.+++|...+. .+..++...++.+++.  +.++ -+|.|+.+.
T Consensus        47 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~p~-ivv~nK~Dl  116 (161)
T cd04124          47 KTILVDFWDTAGQERFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREYRPEIPC-IVVANKIDL  116 (161)
T ss_pred             EEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCcE-EEEEECccC
Confidence            45678899998643222222222456789999888754 4556666666666553  4554 488999885

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

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=96.01  E-value=0.05  Score=48.84  Aligned_cols=40  Identities=20%  Similarity=0.287  Sum_probs=33.1

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      ..++|+|+ |-.|+||||+..+++..+. .+.+|.++..|+.
T Consensus        21 ~~~~i~~~-G~~gsGKTTli~~l~~~~~-~~~~v~v~~~~~~   60 (207)
T TIGR00073        21 GLVVLNFM-SSPGSGKTTLIEKLIDNLK-DEVKIAVIEGDVI   60 (207)
T ss_pred             CcEEEEEE-CCCCCCHHHHHHHHHHHHh-cCCeEEEEECCCC
Confidence            35688887 8889999999999998875 4579999998864

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>cd04113 Rab4 Rab4 subfamily

Probab=96.00  E-value=0.11  Score=43.94  Aligned_cols=90  Identities=12%  Similarity=0.060  Sum_probs=50.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc---CCCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK---LKVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~---~~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .+...+...+..++.   .+.+ +-+|.|+.+......   
T Consensus        47 ~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-iivv~nK~D~~~~~~---  122 (161)
T cd04113          47 KRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITNRTSFEALPTWLSDARALASPNIV-VILVGNKSDLADQRE---  122 (161)
T ss_pred             EEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCe-EEEEEEchhcchhcc---
Confidence            45678899998642211122222446788888877654 345555555554433   2444 558889987543211   


Q ss_pred             ccCCChHHHHHHHhCCCeE
Q 016622          355 PFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl  373 (386)
                       ........+.+.++.+++
T Consensus       123 -~~~~~~~~~~~~~~~~~~  140 (161)
T cd04113         123 -VTFLEASRFAQENGLLFL  140 (161)
T ss_pred             -CCHHHHHHHHHHcCCEEE
Confidence             112345666777775544

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

>PRK03003 GTP-binding protein Der; Reviewed

Probab=95.99  E-value=0.04  Score=56.04  Aligned_cols=68  Identities=15%  Similarity=0.095  Sum_probs=42.0

Q ss_pred             CCCcEEEEcCCCCCChH--------HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDI--------QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~--------~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ....+.|+|||+-..+.        ......+..+|.+++|+......-..-....+.++..+.+++ +|.|+++..
T Consensus        84 ~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~aD~il~VvD~~~~~s~~~~~i~~~l~~~~~pii-lV~NK~Dl~  159 (472)
T PRK03003         84 NGRRFTVVDTGGWEPDAKGLQASVAEQAEVAMRTADAVLFVVDATVGATATDEAVARVLRRSGKPVI-LAANKVDDE  159 (472)
T ss_pred             CCcEEEEEeCCCcCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEE-EEEECccCC
Confidence            45568899998632110        011122445799999988765322223556677777777766 788999864

>PTZ00416 elongation factor 2; Provisional

Probab=95.99  E-value=0.031  Score=60.74  Aligned_cols=68  Identities=10%  Similarity=0.003  Sum_probs=49.0

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..|-+.++|||+-..-.......+..+|.+++|+.+...-......+++.+.+.+.+++ +++|+++..
T Consensus        90 ~~~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~~~~~~~~~~~~p~i-v~iNK~D~~  157 (836)
T PTZ00416         90 QPFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTETVLRQALQERIRPV-LFINKVDRA  157 (836)
T ss_pred             CceEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHHHHHHHHHHcCCCEE-EEEEChhhh
Confidence            35778999999643322222333556799999998877655667788888888888766 778999875

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=95.98  E-value=0.029  Score=52.92  Aligned_cols=39  Identities=15%  Similarity=0.247  Sum_probs=32.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      .+|.++ +..|+||||+...|...|... +++.+|+-|...
T Consensus       105 ~~v~l~-G~pGsGKTTLl~~l~~~l~~~-~~~~VI~gD~~t  143 (290)
T PRK10463        105 LVLNLV-SSPGSGKTTLLTETLMRLKDS-VPCAVIEGDQQT  143 (290)
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHhccC-CCEEEECCCcCc
Confidence            478887 889999999999999998655 589999888743

>PHA00729 NTP-binding motif containing protein

Probab=95.98  E-value=0.01  Score=53.84  Aligned_cols=24  Identities=29%  Similarity=0.336  Sum_probs=20.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHH
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLA  199 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La  199 (386)
                      .|.|+ |.+|+||||+|..||..+.
T Consensus        19 nIlIt-G~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         19 SAVIF-GKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHHH
Confidence            56666 7899999999999999875

>TIGR00682 lpxK tetraacyldisaccharide 4'-kinase

Probab=95.96  E-value=0.053  Score=51.88  Aligned_cols=39  Identities=38%  Similarity=0.552  Sum_probs=34.7

Q ss_pred             eEEEEEeCc-CCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCK-GGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~k-GGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+|+|-+-. ||+|||.++..||..|.++|++|.++-=..
T Consensus        29 PVIsVGNitvGGTGKTP~v~~La~~l~~~G~~~~IlSRGY   68 (311)
T TIGR00682        29 PVVIVGNLSVGGTGKTPVVVWLAELLKDRGLRVGVLSRGY   68 (311)
T ss_pred             CEEEEeccccCCcChHHHHHHHHHHHHHCCCEEEEECCCC
Confidence            488888876 999999999999999999999999996543

Also called lipid-A 4'-kinase. This essential gene encodes an enzyme in the pathway of lipid A biosynthesis in Gram-negative organisms. A single copy of this protein is found in Gram-negative bacteria. PSI-BLAST converges on this set of apparent orthologs without identifying any other homologs.

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=95.94  E-value=0.009  Score=57.74  Aligned_cols=39  Identities=33%  Similarity=0.284  Sum_probs=34.3

Q ss_pred             EEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCCCC
Q 016622          177 AVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVYGP  215 (386)
Q Consensus       177 ~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~~~~  215 (386)
                      ++..|-.|+||||++..|+..|. ..|.+|.++|.|-.-+
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~Dd~i~   41 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATLRRERGWAVAVITYDDIIP   41 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEccccccc
Confidence            56669999999999999999998 6899999999997553

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.

>cd01878 HflX HflX subfamily

Probab=95.94  E-value=0.14  Score=45.52  Aligned_cols=68  Identities=15%  Similarity=0.092  Sum_probs=37.9

Q ss_pred             CCcEEEEcCCCCCC---hH-----HHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHcC---CCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGTG---DI-----QLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSKL---KVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~~---~~-----~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~  347 (386)
                      .+.++|+|||+-..   ..     .........+|.+++|...... +........++++..   +.+ +-+|+|+++..
T Consensus        88 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~-viiV~NK~Dl~  166 (204)
T cd01878          88 GREVLLTDTVGFIRDLPHQLVEAFRSTLEEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIP-MILVLNKIDLL  166 (204)
T ss_pred             CceEEEeCCCccccCCCHHHHHHHHHHHHHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCC-EEEEEEccccC
Confidence            34789999986321   10     0011113357888888876543 333444444555443   344 45888998864


Q ss_pred             C
Q 016622          348 A  348 (386)
Q Consensus       348 ~  348 (386)
                      .
T Consensus       167 ~  167 (204)
T cd01878         167 D  167 (204)
T ss_pred             C
Confidence            3

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.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=95.92  E-value=0.017  Score=59.32  Aligned_cols=40  Identities=15%  Similarity=0.029  Sum_probs=34.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHC-CCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~-G~rVllID~D~~~  214 (386)
                      .++.++ |.+|+|||+++.+++...+++ |.+|++|.++-..
T Consensus        32 s~~li~-G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee~~   72 (509)
T PRK09302         32 RPTLVS-GTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEESP   72 (509)
T ss_pred             cEEEEE-eCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccCCH
Confidence            466665 899999999999999988877 9999999998644

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=95.91  E-value=0.18  Score=42.82  Aligned_cols=90  Identities=9%  Similarity=0.089  Sum_probs=49.7

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC--CCCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL--KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+.++|+|+......+....+..+|.+++|...+. .++..+...++.+.+.  +.+ .-+|.|+++.......   
T Consensus        50 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~p-~ilv~nK~Dl~~~~~~---  125 (164)
T cd04101          50 NTVELFIFDSAGQELYSDMVSNYWESPSVFILVYDVSNKASFENCSRWVNKVRTASKHMP-GVLVGNKMDLADKAEV---  125 (164)
T ss_pred             CEEEEEEEECCCHHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCC-EEEEEECcccccccCC---
Confidence            45788999998532211222233445789999887654 3455555555555443  344 4578899886432111   


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                       .....+.+.+.++.+++
T Consensus       126 -~~~~~~~~~~~~~~~~~  142 (164)
T cd04101         126 -TDAQAQAFAQANQLKFF  142 (164)
T ss_pred             -CHHHHHHHHHHcCCeEE
Confidence             11123455566665543

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.

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=95.90  E-value=0.012  Score=54.99  Aligned_cols=39  Identities=28%  Similarity=0.369  Sum_probs=33.7

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHC-CCcEEEEEcCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFDADVY  213 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~-G~rVllID~D~~  213 (386)
                      .+.+.++..|+||||++.++|..++.. |.+|+++.++..
T Consensus        31 ~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~~   70 (271)
T cd01122          31 ELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEEP   70 (271)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEcccC
Confidence            355556999999999999999999877 999999999763

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

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

Probab=95.90  E-value=0.12  Score=45.34  Aligned_cols=83  Identities=12%  Similarity=0.179  Sum_probs=47.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      +.+.+.++|+|+...........+..+|.+++|+..... ++..+...+..+.+    .+.+ +-+|.|+.+....    
T Consensus        59 ~~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~p-iliv~NK~Dl~~~----  133 (184)
T smart00178       59 GNIKFTTFDLGGHQQARRLWKDYFPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVP-FLILGNKIDAPYA----  133 (184)
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCC-EEEEEeCccccCC----
Confidence            456789999985432222222224467899998876543 34444444433322    2455 4588899885321    


Q ss_pred             cccCCChHHHHHHHhCCC
Q 016622          354 YPFGRGSGSQVVQQFGIP  371 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~p  371 (386)
                           ...+++.+.+++.
T Consensus       134 -----~~~~~i~~~l~l~  146 (184)
T smart00178      134 -----ASEDELRYALGLT  146 (184)
T ss_pred             -----CCHHHHHHHcCCC
Confidence                 2456777777643

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

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=95.89  E-value=0.016  Score=50.86  Aligned_cols=37  Identities=24%  Similarity=0.246  Sum_probs=30.2

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +-+.++ |..|+|||.+|..+|..+.++|++|.+++.+
T Consensus        48 ~~l~l~-G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~   84 (178)
T PF01695_consen   48 ENLILY-GPPGTGKTHLAVAIANEAIRKGYSVLFITAS   84 (178)
T ss_dssp             -EEEEE-ESTTSSHHHHHHHHHHHHHHTT--EEEEEHH
T ss_pred             eEEEEE-hhHhHHHHHHHHHHHHHhccCCcceeEeecC
Confidence            457776 6789999999999999999999999999864

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=95.89  E-value=0.16  Score=48.85  Aligned_cols=143  Identities=17%  Similarity=0.127  Sum_probs=76.8

Q ss_pred             EEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCCCc
Q 016622          177 AVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQG  256 (386)
Q Consensus       177 ~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~~~  256 (386)
                      .|.+|-=|+||||+-.+|.....  |+|+.+|=-++.--++..     ..         .+ ......+.-++     ++
T Consensus         4 tvitGFLGsGKTTlL~~lL~~~~--g~kiAVIVNEfGEvgID~-----~~---------~l-~~~~e~~~El~-----nG   61 (323)
T COG0523           4 TVITGFLGSGKTTLLNHLLANRD--GKKIAVIVNEFGEVGIDG-----GA---------LL-SDTGEEVVELT-----NG   61 (323)
T ss_pred             EEEeecCCCCHHHHHHHHHhccC--CCcEEEEEecCccccccC-----CC---------cc-ccCCccEEEeC-----Cc
Confidence            34447779999999888877665  899999876664433321     00         01 00111121121     11


Q ss_pred             ccccC-CchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH-HH--h------hhhhcCCCeEEEEeCCCcchHH---HHH
Q 016622          257 RAIMR-GPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI-QL--T------LCQVVPLTAAVIVTTPQKLAFI---DVA  323 (386)
Q Consensus       257 ~~~~~-~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~-~~--~------~~~~~~~d~vviV~~~~~~s~~---~~~  323 (386)
                      +.+-. .......+.++.+ .+ +.+|+|||.+.+ +.+. ..  +      +......|.++-|+.+....-.   ...
T Consensus        62 CICCT~r~dl~~~~~~L~~-~~-~~~D~ivIEtTG-lA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~  138 (323)
T COG0523          62 CICCTVRDDLLPALERLLR-RR-DRPDRLVIETTG-LADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAE  138 (323)
T ss_pred             eEEEeccchhHHHHHHHHh-cc-CCCCEEEEeCCC-CCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHH
Confidence            11111 1234456666666 33 679999999985 4332 11  1      1112235678888777654321   123


Q ss_pred             HHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          324 KGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       324 ~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      .+.+++...++    +|+||++...
T Consensus       139 ~~~~Qia~AD~----ivlNK~Dlv~  159 (323)
T COG0523         139 LAEDQLAFADV----IVLNKTDLVD  159 (323)
T ss_pred             HHHHHHHhCcE----EEEecccCCC
Confidence            33444544433    8999988654

>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]

Probab=95.88  E-value=0.0083  Score=56.58  Aligned_cols=43  Identities=28%  Similarity=0.475  Sum_probs=34.8

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHH----CC------CcEEEEEcCCCCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAG----MG------ARVGIFDADVYGPSL  217 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~----~G------~rVllID~D~~~~sl  217 (386)
                      +..|.-+-||+||||++..|..+|+.    .|      .+|++|.+....+++
T Consensus        90 ~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~~  142 (402)
T COG3598          90 YVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYREDI  142 (402)
T ss_pred             eeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHHH
Confidence            55556699999999999999999883    24      489999998877765

>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=95.88  E-value=0.017  Score=42.22  Aligned_cols=32  Identities=44%  Similarity=0.546  Sum_probs=27.3

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      |+++ |..|+||||++..|+..|  .|.++.++|.
T Consensus         2 i~i~-G~~gsGKst~~~~l~~~l--~~~~~~~i~~   33 (69)
T cd02019           2 IAIT-GGSGSGKSTVAKKLAEQL--GGRSVVVLDE   33 (69)
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHh--cCCCEEEEeE
Confidence            5555 889999999999999999  6788888876

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.

>cd04136 Rap_like Rap-like subfamily

Probab=95.87  E-value=0.18  Score=42.59  Aligned_cols=89  Identities=17%  Similarity=0.259  Sum_probs=48.8

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCceec
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      .+.+-|+|+|+.-....+.-.....+|.+++|...+ ..++..+....+.+.+.    +.+++ +|.|+++.......  
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii-lv~nK~Dl~~~~~~--  124 (163)
T cd04136          48 QCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVYSITSQSSFNDLQDLREQILRVKDTENVPMV-LVGNKCDLEDERVV--  124 (163)
T ss_pred             EEEEEEEECCCccccchHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEE-EEEECcccccccee--
Confidence            455678999864322122112234568888876554 44666666665555432    45544 88899885432111  


Q ss_pred             ccCCChHHHHHHHhCCCeE
Q 016622          355 PFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl  373 (386)
                        .......+.+.++.+++
T Consensus       125 --~~~~~~~~~~~~~~~~~  141 (163)
T cd04136         125 --SREEGQALARQWGCPFY  141 (163)
T ss_pred             --cHHHHHHHHHHcCCeEE
Confidence              11234556677776554

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.

>cd04112 Rab26 Rab26 subfamily

Probab=95.87  E-value=0.11  Score=45.67  Aligned_cols=89  Identities=12%  Similarity=0.220  Sum_probs=51.3

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+.+.   +.+ +-+|.|+.+......    
T Consensus        49 ~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~p-iiiv~NK~Dl~~~~~----  123 (191)
T cd04112          49 KVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDITNKASFDNIRAWLTEIKEYAQEDVV-IMLLGNKADMSGERV----  123 (191)
T ss_pred             EEEEEEEeCCCcHHHHHhhHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCc-EEEEEEcccchhccc----
Confidence            4578899998643221122222345788888877654 4566666666666543   344 458889988643211    


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                      ......+.+.+.++.+++
T Consensus       124 ~~~~~~~~l~~~~~~~~~  141 (191)
T cd04112         124 VKREDGERLAKEYGVPFM  141 (191)
T ss_pred             cCHHHHHHHHHHcCCeEE
Confidence            111345667777776654

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.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=95.84  E-value=0.013  Score=52.02  Aligned_cols=38  Identities=32%  Similarity=0.409  Sum_probs=31.5

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCc----EEEEEcCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGAR----VGIFDADVY  213 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~r----VllID~D~~  213 (386)
                      +|+|+ |-+|+||||+|..|+..|.+.|..    +.++..|-+
T Consensus         1 IIgI~-G~sgSGKTTla~~L~~~L~~~~~~~~~~~~~~~~d~~   42 (194)
T PF00485_consen    1 IIGIA-GPSGSGKTTLAKRLAQILNKRGIPAMEMDIILSLDDF   42 (194)
T ss_dssp             EEEEE-ESTTSSHHHHHHHHHHHHTTCTTTCCCSEEEEEGGGG
T ss_pred             CEEEE-CCCCCCHHHHHHHHHHHhCccCcCccceeEEEeeccc
Confidence            56776 889999999999999999988877    667766643

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

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

Probab=95.82  E-value=0.17  Score=42.58  Aligned_cols=68  Identities=10%  Similarity=0.086  Sum_probs=41.1

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSK----LKVPCIAVVENMCHFDA  348 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~  348 (386)
                      .+++.|+|+|+...........+..+|.+++|..+... ++..+...+..+.+    .+.+ +-+|.||++...
T Consensus        42 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p-iiiv~nK~D~~~  114 (158)
T cd00878          42 NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVP-LLIFANKQDLPG  114 (158)
T ss_pred             CEEEEEEECCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCc-EEEEeeccCCcc
Confidence            56899999986433222222224567889999888765 45555544443322    2444 447789988643

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=95.81  E-value=0.19  Score=43.11  Aligned_cols=91  Identities=12%  Similarity=0.129  Sum_probs=52.0

Q ss_pred             CCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCce
Q 016622          279 GELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKR  352 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~  352 (386)
                      ..+++-|+|+++..... .+.......+|.+++|...+. .++..+....+.+...    +.++ -+|.|+.+...... 
T Consensus        49 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~-iiv~nK~Dl~~~~~-  126 (170)
T cd04115          49 ERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPR-ILVGNKCDLREQIQ-  126 (170)
T ss_pred             eEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCCCCCCE-EEEEECccchhhcC-
Confidence            45788999997532211 111122335688888877754 4566666666555443    3554 58889988643211 


Q ss_pred             ecccCCChHHHHHHHhCCCeEE
Q 016622          353 YYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       353 ~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                         ......+++++..+++++.
T Consensus       127 ---~~~~~~~~~~~~~~~~~~e  145 (170)
T cd04115         127 ---VPTDLAQRFADAHSMPLFE  145 (170)
T ss_pred             ---CCHHHHHHHHHHcCCcEEE
Confidence               1113455677777766653

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

>cd04122 Rab14 Rab14 subfamily

Probab=95.81  E-value=0.22  Score=42.46  Aligned_cols=91  Identities=12%  Similarity=0.101  Sum_probs=52.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcCC--CCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKLK--VPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~~--~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+.|+|+|+..............+|.+++|..... .++..+...++.+....  ...+-+|.|+++......    
T Consensus        49 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~----  124 (166)
T cd04122          49 QKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRD----  124 (166)
T ss_pred             EEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccC----
Confidence            35678999998543221222222446788888877654 45666666665554432  224568899988643221    


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                      .......++++..+.+++
T Consensus       125 ~~~~~~~~~~~~~~~~~~  142 (166)
T cd04122         125 VTYEEAKQFADENGLLFL  142 (166)
T ss_pred             cCHHHHHHHHHHcCCEEE
Confidence            112345666777776654

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

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=95.80  E-value=0.1  Score=54.47  Aligned_cols=65  Identities=14%  Similarity=0.076  Sum_probs=43.8

Q ss_pred             cEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          282 DYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       282 D~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      .+.|+|||+-.....+.......+|.+++|+..+......+...+..++..+++++ +++|+++..
T Consensus       136 ~i~~iDTPGhe~F~~~r~rga~~aDiaILVVda~dgv~~qT~e~i~~~~~~~vPiI-VviNKiDl~  200 (587)
T TIGR00487       136 MITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDGVMPQTIEAISHAKAANVPII-VAINKIDKP  200 (587)
T ss_pred             EEEEEECCCCcchhhHHHhhhccCCEEEEEEECCCCCCHhHHHHHHHHHHcCCCEE-EEEECcccc
Confidence            78999998633222222222445789999988776555566667777777788855 888999863

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.

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=95.80  E-value=0.015  Score=53.37  Aligned_cols=40  Identities=23%  Similarity=0.350  Sum_probs=34.3

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHC-CCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~-G~rVllID~D~~~  214 (386)
                      -+.+.++..|+|||+++.+++..++.. |.+|+++.++...
T Consensus        14 ~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~~   54 (242)
T cd00984          14 DLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSK   54 (242)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCCH
Confidence            345555999999999999999999987 9999999988743

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>cd04109 Rab28 Rab28 subfamily

Probab=95.78  E-value=0.24  Score=44.58  Aligned_cols=90  Identities=13%  Similarity=0.128  Sum_probs=51.0

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcCC-----CCeEEEEEcCCcCCCCCcee
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKLK-----VPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~~-----~~i~gvVlN~~~~~~~~~~~  353 (386)
                      .+.+.|+|+++......+.......+|.+++|..... .++..+......+.+..     ...+-+|.|+.+......  
T Consensus        49 ~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~--  126 (215)
T cd04109          49 NVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRT--  126 (215)
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccc--
Confidence            4678899998532211222222446799999877654 36666666666665431     124568999998642111  


Q ss_pred             cccCCChHHHHHHHhCCCeE
Q 016622          354 YPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl  373 (386)
                        ........+++.++.+++
T Consensus       127 --v~~~~~~~~~~~~~~~~~  144 (215)
T cd04109         127 --VKDDKHARFAQANGMESC  144 (215)
T ss_pred             --cCHHHHHHHHHHcCCEEE
Confidence              111245566666675543

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

>cd01895 EngA2 EngA2 subfamily

Probab=95.78  E-value=0.15  Score=43.32  Aligned_cols=68  Identities=12%  Similarity=0.010  Sum_probs=40.1

Q ss_pred             CCCcEEEEcCCCCCCh-------H----HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGD-------I----QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~-------~----~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +..++.++|||+....       .    .........+|.+++|+......-.......+.+...+.+++ +|+||++..
T Consensus        48 ~~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~~~i-iv~nK~Dl~  126 (174)
T cd01895          48 DGKKYTLIDTAGIRRKGKVEEGIEKYSVLRTLKAIERADVVLLVIDATEGITEQDLRIAGLILEEGKALV-IVVNKWDLV  126 (174)
T ss_pred             CCeeEEEEECCCCccccchhccHHHHHHHHHHHHHhhcCeEEEEEeCCCCcchhHHHHHHHHHhcCCCEE-EEEeccccC
Confidence            3456899999863211       0    011112335688898887655433334455666665666655 788998753

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.

>cd04140 ARHI_like ARHI subfamily

Probab=95.77  E-value=0.3  Score=41.65  Aligned_cols=90  Identities=11%  Similarity=0.166  Sum_probs=49.7

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC------CCCeEEEEEcCCcCCCCCc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL------KVPCIAVVENMCHFDADGK  351 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~------~~~i~gvVlN~~~~~~~~~  351 (386)
                      ..+.+.++|+++.-....+.......+|.+++|...+ ..+...+...++.+++.      +.++ -+|.|+.+......
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~pi-ilv~nK~Dl~~~~~  125 (165)
T cd04140          47 NICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPI-MLVGNKCDESHKRE  125 (165)
T ss_pred             EEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCE-EEEEECccccccCe
Confidence            3467889999865432222222244568878776654 34566666666655442      3454 48899988643111


Q ss_pred             eecccCCChHHHHHHHhCCCeE
Q 016622          352 RYYPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       352 ~~~~~~~~~~~~i~~~~g~pvl  373 (386)
                      .    ........+...+.+++
T Consensus       126 v----~~~~~~~~~~~~~~~~~  143 (165)
T cd04140         126 V----SSNEGAACATEWNCAFM  143 (165)
T ss_pred             e----cHHHHHHHHHHhCCcEE
Confidence            1    11223445555665543

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

>cd04148 RGK RGK subfamily

Probab=95.77  E-value=0.29  Score=44.40  Aligned_cols=88  Identities=17%  Similarity=0.134  Sum_probs=50.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhc-CCCeEEEEeCCCc-chHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCce
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVV-PLTAAVIVTTPQK-LAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKR  352 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~-~~d~vviV~~~~~-~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~  352 (386)
                      ..+.+.|+|+++.. ....... .. .+|.+++|...+. .++..+...+..+.+.    +.+ +-+|.|+++.......
T Consensus        48 ~~~~l~i~Dt~G~~-~~~~~~~-~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~p-iilV~NK~Dl~~~~~v  124 (221)
T cd04148          48 EESTLVVIDHWEQE-MWTEDSC-MQYQGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRP-IILVGNKSDLARSREV  124 (221)
T ss_pred             EEEEEEEEeCCCcc-hHHHhHH-hhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEEChhcccccee
Confidence            35678899998643 2111111 22 5789888877654 4666676666666543    345 4588899885432111


Q ss_pred             ecccCCChHHHHHHHhCCCeE
Q 016622          353 YYPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       353 ~~~~~~~~~~~i~~~~g~pvl  373 (386)
                          .......+++.++.+++
T Consensus       125 ----~~~~~~~~a~~~~~~~~  141 (221)
T cd04148         125 ----SVQEGRACAVVFDCKFI  141 (221)
T ss_pred             ----cHHHHHHHHHHcCCeEE
Confidence                11223456666676554

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

>PRK05439 pantothenate kinase; Provisional

Probab=95.77  E-value=0.02  Score=54.62  Aligned_cols=42  Identities=26%  Similarity=0.279  Sum_probs=35.3

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHH--CCCcEEEEEcCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAG--MGARVGIFDADVYG  214 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~--~G~rVllID~D~~~  214 (386)
                      .+.+|+|+ |..|+||||+|..|+..|.+  .|.+|.+|..|-+.
T Consensus        85 ~~~iIgIa-G~~gsGKSTla~~L~~~l~~~~~~~~v~vi~~DdFy  128 (311)
T PRK05439         85 VPFIIGIA-GSVAVGKSTTARLLQALLSRWPEHPKVELVTTDGFL  128 (311)
T ss_pred             CCEEEEEE-CCCCCCHHHHHHHHHHHHHhhCCCCceEEEeccccc
Confidence            34588887 88999999999999999876  47899999998654

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=95.74  E-value=0.029  Score=58.55  Aligned_cols=68  Identities=16%  Similarity=0.155  Sum_probs=46.0

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      .+.+.|+|+|+--.-..........+|.+++|+..+......+...+..++..+++.+-+|+||++..
T Consensus        49 ~~~v~~iDtPGhe~f~~~~~~g~~~aD~aILVVDa~~G~~~qT~ehl~il~~lgi~~iIVVlNK~Dlv  116 (581)
T TIGR00475        49 DYRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADEGVMTQTGEHLAVLDLLGIPHTIVVITKADRV  116 (581)
T ss_pred             CEEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEECCCCC
Confidence            46789999985221112223334567999999888764445556666777778888566899999864

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.

>cd04154 Arl2 Arl2 subfamily

Probab=95.72  E-value=0.15  Score=44.01  Aligned_cols=68  Identities=7%  Similarity=-0.016  Sum_probs=38.9

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHH-Hc---CCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMF-SK---LKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l-~~---~~~~i~gvVlN~~~~~  347 (386)
                      +.+.+.++|+|+...........+..+|.+++|...... ++......+..+ ..   .+.++ -+|.|+++..
T Consensus        56 ~~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~-iiv~nK~Dl~  128 (173)
T cd04154          56 EGYKLNIWDVGGQKTLRPYWRNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGATL-LILANKQDLP  128 (173)
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCE-EEEEECcccc
Confidence            356789999985432111212224467888888876654 444444444333 21   34554 4888998864

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.

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=95.67  E-value=0.018  Score=53.61  Aligned_cols=37  Identities=24%  Similarity=0.323  Sum_probs=32.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      .+-+.++ |+.|+|||.+|+++|..+.+.|.+|+++..
T Consensus       105 ~~nl~l~-G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~  141 (254)
T COG1484         105 GENLVLL-GPPGVGKTHLAIAIGNELLKAGISVLFITA  141 (254)
T ss_pred             CCcEEEE-CCCCCcHHHHHHHHHHHHHHcCCeEEEEEH
Confidence            3467777 999999999999999999988999999965

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=95.67  E-value=0.071  Score=53.46  Aligned_cols=69  Identities=14%  Similarity=0.131  Sum_probs=44.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc--chHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK--LAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~--~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +.+.+.|+|||+--.-.......+..+|.+++|+....  .-.......+.++...+.+.+-+++||++..
T Consensus        82 ~~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~~~~~iivviNK~Dl~  152 (425)
T PRK12317         82 DKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTLGINQLIVAINKMDAV  152 (425)
T ss_pred             CCeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHcCCCeEEEEEEccccc
Confidence            67889999999632111112222446799999988765  2223445556666667766566899999864

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=95.66  E-value=0.05  Score=57.09  Aligned_cols=66  Identities=14%  Similarity=0.092  Sum_probs=46.7

Q ss_pred             CcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          281 LDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       281 yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      .-+-|||||+ ..+. ......+..+|.+++|+..+..-.......+..+...+++.+-+|+||++..
T Consensus        51 ~~i~~IDtPG-he~fi~~m~~g~~~~D~~lLVVda~eg~~~qT~ehl~il~~lgi~~iIVVlNKiDlv  117 (614)
T PRK10512         51 RVLGFIDVPG-HEKFLSNMLAGVGGIDHALLVVACDDGVMAQTREHLAILQLTGNPMLTVALTKADRV  117 (614)
T ss_pred             cEEEEEECCC-HHHHHHHHHHHhhcCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEECCccC
Confidence            3468999995 3221 2223334567999999988775556677778888888888767999999864

>TIGR01393 lepA GTP-binding protein LepA

Probab=95.61  E-value=0.11  Score=54.48  Aligned_cols=86  Identities=10%  Similarity=0.039  Sum_probs=48.1

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGR  358 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~  358 (386)
                      ..|.+.|+|||+-..........+..+|.+++|+......-......+..+.+.+++++ +|+|+++......      .
T Consensus        68 ~~~~l~liDTPG~~dF~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~~~ipiI-iViNKiDl~~~~~------~  140 (595)
T TIGR01393        68 ETYVLNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALENDLEII-PVINKIDLPSADP------E  140 (595)
T ss_pred             CEEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHHcCCCEE-EEEECcCCCccCH------H
Confidence            35788999998543222222233556799999988765322223333333444577754 7889998642110      0


Q ss_pred             ChHHHHHHHhCCC
Q 016622          359 GSGSQVVQQFGIP  371 (386)
Q Consensus       359 ~~~~~i~~~~g~p  371 (386)
                      ...+++.+.++.+
T Consensus       141 ~~~~el~~~lg~~  153 (595)
T TIGR01393       141 RVKKEIEEVIGLD  153 (595)
T ss_pred             HHHHHHHHHhCCC
Confidence            1235566666653

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.

>PLN03110 Rab GTPase; Provisional

Probab=95.59  E-value=0.19  Score=45.29  Aligned_cols=90  Identities=13%  Similarity=0.133  Sum_probs=51.9

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+-|+|+++......+....+..++.+++|.... ..++..+...+..+.+.   +.+ +-+|.|+++.......   
T Consensus        60 ~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iiiv~nK~Dl~~~~~~---  135 (216)
T PLN03110         60 TVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIV-IMMAGNKSDLNHLRSV---  135 (216)
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhCCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCe-EEEEEEChhcccccCC---
Confidence            457788999864332222223345678888887764 44566666666655543   344 4478899885432111   


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       .......+++.++++++.
T Consensus       136 -~~~~~~~l~~~~~~~~~e  153 (216)
T PLN03110        136 -AEEDGQALAEKEGLSFLE  153 (216)
T ss_pred             -CHHHHHHHHHHcCCEEEE
Confidence             113455666666766554

>cd01898 Obg Obg subfamily

Probab=95.57  E-value=0.25  Score=42.10  Aligned_cols=67  Identities=15%  Similarity=0.028  Sum_probs=40.4

Q ss_pred             CcEEEEcCCCCCC---h----HHHhhhhhcCCCeEEEEeCCCcc--hHHHHHHHHHHHHcC-----CCCeEEEEEcCCcC
Q 016622          281 LDYLVIDMPPGTG---D----IQLTLCQVVPLTAAVIVTTPQKL--AFIDVAKGVRMFSKL-----KVPCIAVVENMCHF  346 (386)
Q Consensus       281 yD~VIIDtpp~~~---~----~~~~~~~~~~~d~vviV~~~~~~--s~~~~~~~~~~l~~~-----~~~i~gvVlN~~~~  346 (386)
                      ..+.++|||+-..   .    .......+..+|.+++|......  +........+.+.+.     +.++ -+|+|+++.
T Consensus        48 ~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~-ivv~NK~Dl  126 (170)
T cd01898          48 RSFVVADIPGLIEGASEGKGLGHRFLRHIERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPR-IVVLNKIDL  126 (170)
T ss_pred             CeEEEEecCcccCcccccCCchHHHHHHHHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCcccccccc-EEEEEchhc
Confidence            3789999996321   0    01111223347899999887654  566666666665543     3444 488899986


Q ss_pred             CC
Q 016622          347 DA  348 (386)
Q Consensus       347 ~~  348 (386)
                      ..
T Consensus       127 ~~  128 (170)
T cd01898         127 LD  128 (170)
T ss_pred             CC
Confidence            43

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.

>cd00876 Ras Ras family

Probab=95.56  E-value=0.3  Score=40.87  Aligned_cols=89  Identities=12%  Similarity=0.263  Sum_probs=50.7

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCceec
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      .+.+.++|+|+...........+..+|.+++|..... .+..++......+.+.    +.+ +-+|.|+++.......  
T Consensus        46 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~~--  122 (160)
T cd00876          46 TYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYSITDRESFEEIKGYREQILRVKDDEDIP-IVLVGNKCDLENERQV--  122 (160)
T ss_pred             EEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc-EEEEEECCccccccee--
Confidence            4678899998744322222233445788888876643 4555666555555432    344 4588999886542111  


Q ss_pred             ccCCChHHHHHHHhCCCeE
Q 016622          355 PFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl  373 (386)
                        .......+.+..+.+++
T Consensus       123 --~~~~~~~~~~~~~~~~~  139 (160)
T cd00876         123 --SKEEGKALAKEWGCPFI  139 (160)
T ss_pred             --cHHHHHHHHHHcCCcEE
Confidence              11345556666665554

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

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

Probab=95.55  E-value=0.48  Score=39.71  Aligned_cols=87  Identities=16%  Similarity=0.221  Sum_probs=46.3

Q ss_pred             CcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceecc
Q 016622          281 LDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       281 yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      +.+-|+|+++......+....+..+|.+++|...+ ..++.++......+.+    .+.+++ +|.|+++.....     
T Consensus        49 ~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~pii-vv~nK~Dl~~~~-----  122 (162)
T cd04138          49 CLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMV-LVGNKCDLAART-----  122 (162)
T ss_pred             EEEEEEECCCCcchHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEE-EEEECcccccce-----
Confidence            44667999854322222222244567777775543 3455555554444433    245544 788998864311     


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                      .......++.+.++.+++
T Consensus       123 ~~~~~~~~~~~~~~~~~~  140 (162)
T cd04138         123 VSSRQGQDLAKSYGIPYI  140 (162)
T ss_pred             ecHHHHHHHHHHhCCeEE
Confidence            111235566677777654

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.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=95.51  E-value=0.026  Score=52.58  Aligned_cols=43  Identities=23%  Similarity=0.301  Sum_probs=37.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSL  217 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl  217 (386)
                      ++++|+ |.+|+|||+++.+++...++.|.+|++|..+-....+
T Consensus        24 ~~~lI~-G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e~~~~l   66 (260)
T COG0467          24 SVVLIT-GPPGTGKTIFALQFLYEGAREGEPVLYVSTEESPEEL   66 (260)
T ss_pred             cEEEEE-cCCCCcHHHHHHHHHHHHHhcCCcEEEEEecCCHHHH
Confidence            566666 9999999999999999999999999999998755443

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=95.50  E-value=0.18  Score=43.57  Aligned_cols=92  Identities=7%  Similarity=-0.052  Sum_probs=51.3

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcCC---CCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKLK---VPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~~---~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+-|+|+|+......+....+..+|.+++|..... .++......++.+.+..   ...+-+|.|+.+.......  .
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~--~  125 (170)
T cd04108          48 PFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQY--A  125 (170)
T ss_pred             EEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccc--c
Confidence            4568899998543222222333556799999987744 45666666665543321   2345689999886332110  0


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                      ........+++.++.+++
T Consensus       126 ~~~~~~~~~~~~~~~~~~  143 (170)
T cd04108         126 LMEQDAIKLAAEMQAEYW  143 (170)
T ss_pred             ccHHHHHHHHHHcCCeEE
Confidence            011223456666776654

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

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=95.49  E-value=0.025  Score=52.66  Aligned_cols=40  Identities=28%  Similarity=0.342  Sum_probs=34.1

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHC-CCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~-G~rVllID~D~~~  214 (386)
                      -+.+.++.+|+|||+++.++|..++.. |++|+++.++...
T Consensus        20 ~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~~   60 (259)
T PF03796_consen   20 ELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMSE   60 (259)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS-H
T ss_pred             cEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCCH
Confidence            456666999999999999999999987 6999999998744

Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....

>cd04155 Arl3 Arl3 subfamily

Probab=95.47  E-value=0.26  Score=42.19  Aligned_cols=82  Identities=9%  Similarity=0.069  Sum_probs=43.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHH----HcCCCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMF----SKLKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l----~~~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+++.++|+|+...........+..+|.+++|.+... .++......+..+    ...+.+++ ++.|+++....    
T Consensus        56 ~~~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~i-vv~nK~D~~~~----  130 (173)
T cd04155          56 DGFKLNVWDIGGQRAIRPYWRNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVL-VFANKQDLATA----  130 (173)
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEE-EEEECCCCccC----
Confidence            35678899997532211111111345678888876654 2344444333332    22345644 66799875321    


Q ss_pred             cccCCChHHHHHHHhCC
Q 016622          354 YPFGRGSGSQVVQQFGI  370 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~  370 (386)
                           ...+++.+.+++
T Consensus       131 -----~~~~~i~~~l~~  142 (173)
T cd04155         131 -----APAEEIAEALNL  142 (173)
T ss_pred             -----CCHHHHHHHcCC
Confidence                 235566676664

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.

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

Probab=95.47  E-value=0.68  Score=40.07  Aligned_cols=83  Identities=10%  Similarity=0.087  Sum_probs=48.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHH-cC--CCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFS-KL--KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~-~~--~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+.|+|+|+......+...-...+|.+++|..... .++.++...+..+. +.  ....+.+|.|+++....     
T Consensus        55 ~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~-----  129 (175)
T smart00177       55 KNISFTVWDVGGQDKIRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDA-----  129 (175)
T ss_pred             CCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccC-----
Confidence            45678999998643322222222456799999988654 34666665554442 21  12345689999985321     


Q ss_pred             ccCCChHHHHHHHhCC
Q 016622          355 PFGRGSGSQVVQQFGI  370 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~  370 (386)
                          ...+++.+.++.
T Consensus       130 ----~~~~~i~~~~~~  141 (175)
T smart00177      130 ----MKAAEITEKLGL  141 (175)
T ss_pred             ----CCHHHHHHHhCc
Confidence                124566666654

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).

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=95.46  E-value=0.022  Score=51.74  Aligned_cols=39  Identities=28%  Similarity=0.283  Sum_probs=32.4

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHH--CCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAG--MGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~--~G~rVllID~D~~~  214 (386)
                      +|+|. |..|+||||++..|+..+..  .+.+|.+|-.|-..
T Consensus         1 IigI~-G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~D~f~   41 (220)
T cd02025           1 IIGIA-GSVAVGKSTTARVLQALLSRWPDHPNVELITTDGFL   41 (220)
T ss_pred             CEEee-CCCCCCHHHHHHHHHHHHhhcCCCCcEEEEecCccc
Confidence            36666 88999999999999999975  56789999888653

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PRK06526 transposase; Provisional

Probab=95.45  E-value=0.013  Score=54.52  Aligned_cols=36  Identities=28%  Similarity=0.302  Sum_probs=30.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      +.+.++ |.+|+|||+++.+|+..+.++|++|+++.+
T Consensus        99 ~nlll~-Gp~GtGKThLa~al~~~a~~~g~~v~f~t~  134 (254)
T PRK06526         99 ENVVFL-GPPGTGKTHLAIGLGIRACQAGHRVLFATA  134 (254)
T ss_pred             ceEEEE-eCCCCchHHHHHHHHHHHHHCCCchhhhhH
Confidence            355565 889999999999999999999999987544

>cd01865 Rab3 Rab3 subfamily

Probab=95.43  E-value=0.42  Score=40.75  Aligned_cols=90  Identities=12%  Similarity=0.154  Sum_probs=50.1

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcCC--CCeEEEEEcCCcCCCCCceeccc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKLK--VPCIAVVENMCHFDADGKRYYPF  356 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~~--~~i~gvVlN~~~~~~~~~~~~~~  356 (386)
                      .+.+.|+|+++...........+..+|.+++|.... ..++..+...++.+.+..  ...+-+|.|+++.......    
T Consensus        49 ~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~~----  124 (165)
T cd01865          49 RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVV----  124 (165)
T ss_pred             EEEEEEEECCChHHHHHHHHHHccCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCccccc----
Confidence            456889999753221222222244578888886653 345566666555554432  2235688899886432111    


Q ss_pred             CCChHHHHHHHhCCCeE
Q 016622          357 GRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       357 ~~~~~~~i~~~~g~pvl  373 (386)
                      ......++++.++.+++
T Consensus       125 ~~~~~~~~~~~~~~~~~  141 (165)
T cd01865         125 SSERGRQLADQLGFEFF  141 (165)
T ss_pred             CHHHHHHHHHHcCCEEE
Confidence            11345567777777654

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

>PLN03118 Rab family protein; Provisional

Probab=95.43  E-value=0.15  Score=45.71  Aligned_cols=90  Identities=13%  Similarity=0.113  Sum_probs=46.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHH-HHHHc----CCCCeEEEEEcCCcCCCCCce
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGV-RMFSK----LKVPCIAVVENMCHFDADGKR  352 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~-~~l~~----~~~~i~gvVlN~~~~~~~~~~  352 (386)
                      ..+.+.|+|+|+......+....+..+|.+++|..... .++..+.... ..+..    .+.+ +-+|.|+.+.......
T Consensus        60 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~-~ilv~NK~Dl~~~~~i  138 (211)
T PLN03118         60 KRLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCV-KMLVGNKVDRESERDV  138 (211)
T ss_pred             EEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccccccCcc
Confidence            34678999998643322222233446788888877654 3444444432 22221    1334 4477899886432111


Q ss_pred             ecccCCChHHHHHHHhCCCeE
Q 016622          353 YYPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       353 ~~~~~~~~~~~i~~~~g~pvl  373 (386)
                          .......+.+..+.+++
T Consensus       139 ----~~~~~~~~~~~~~~~~~  155 (211)
T PLN03118        139 ----SREEGMALAKEHGCLFL  155 (211)
T ss_pred             ----CHHHHHHHHHHcCCEEE
Confidence                11234455555565543

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=95.41  E-value=0.13  Score=55.25  Aligned_cols=68  Identities=13%  Similarity=0.058  Sum_probs=45.9

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|||+-.....+.......+|.+++|+..+......+...+..+...+++++ +++|+++..
T Consensus       335 ~~~~ItfiDTPGhe~F~~m~~rga~~aDiaILVVdAddGv~~qT~e~i~~a~~~~vPiI-VviNKiDl~  402 (787)
T PRK05306        335 NGGKITFLDTPGHEAFTAMRARGAQVTDIVVLVVAADDGVMPQTIEAINHAKAAGVPII-VAINKIDKP  402 (787)
T ss_pred             CCEEEEEEECCCCccchhHHHhhhhhCCEEEEEEECCCCCCHhHHHHHHHHHhcCCcEE-EEEECcccc
Confidence            34678999999632222222222445689999988776555566677777888888855 888999863

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=95.40  E-value=0.033  Score=50.67  Aligned_cols=39  Identities=26%  Similarity=0.284  Sum_probs=33.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      ..+.+. +..|+||||++.+++...++.|.+|++++++..
T Consensus        21 ~~~~i~-G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e~~   59 (229)
T TIGR03881        21 FFVAVT-GEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEES   59 (229)
T ss_pred             eEEEEE-CCCCCChHHHHHHHHHHHHhcCCeEEEEEccCC
Confidence            456665 899999999999999888888999999998653

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.37  E-value=0.017  Score=51.25  Aligned_cols=39  Identities=28%  Similarity=0.246  Sum_probs=33.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      .|.++ |-+|+||||+|-+||..|.+.+.+|.-+..|...
T Consensus         3 LiIlT-GyPgsGKTtfakeLak~L~~~i~~vi~l~kdy~~   41 (261)
T COG4088           3 LIILT-GYPGSGKTTFAKELAKELRQEIWRVIHLEKDYLR   41 (261)
T ss_pred             eEEEe-cCCCCCchHHHHHHHHHHHHhhhhccccchhhhh
Confidence            44444 9999999999999999999999999988887644

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.31  E-value=0.032  Score=53.60  Aligned_cols=38  Identities=24%  Similarity=0.372  Sum_probs=33.0

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +++-|+ |..|+||||++.+++...++.|.+|++||+.-
T Consensus        56 ~iteI~-Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~   93 (325)
T cd00983          56 RIIEIY-GPESSGKTTLALHAIAEAQKLGGTVAFIDAEH   93 (325)
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHHHcCCCEEEECccc
Confidence            355555 78999999999999999999999999999853

RecA couples ATP hydrolysis to DNA strand exchange.

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=95.30  E-value=0.56  Score=41.00  Aligned_cols=83  Identities=13%  Similarity=0.104  Sum_probs=47.3

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHH-Hc---CCCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMF-SK---LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l-~~---~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      +.+.+.|+|+|+..............+|.+++|..... .++..+...+..+ ..   .+.+ +-+|.|+.+....    
T Consensus        59 ~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~p-iilv~NK~Dl~~~----  133 (182)
T PTZ00133         59 KNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAV-LLVFANKQDLPNA----  133 (182)
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCC-EEEEEeCCCCCCC----
Confidence            45779999998543222222222456799999988753 4455555544433 22   1344 5588999885321    


Q ss_pred             cccCCChHHHHHHHhCCC
Q 016622          354 YPFGRGSGSQVVQQFGIP  371 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~p  371 (386)
                           ...+++.+.++..
T Consensus       134 -----~~~~~i~~~l~~~  146 (182)
T PTZ00133        134 -----MSTTEVTEKLGLH  146 (182)
T ss_pred             -----CCHHHHHHHhCCC
Confidence                 1234566666643

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

Probab=95.30  E-value=0.067  Score=49.98  Aligned_cols=70  Identities=14%  Similarity=0.226  Sum_probs=51.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ..-.|--+|||+-..-.--.+.....+|+.|+|+.+.....-.++..+-+.++.|++.+-+++|+++...
T Consensus        73 ~~rhyahVDcPGHaDYvKNMItgAaqmDgAILVVsA~dGpmPqTrEHiLlarqvGvp~ivvflnK~Dmvd  142 (394)
T COG0050          73 ANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQVGVPYIVVFLNKVDMVD  142 (394)
T ss_pred             CCceEEeccCCChHHHHHHHhhhHHhcCccEEEEEcCCCCCCcchhhhhhhhhcCCcEEEEEEecccccC
Confidence            3446788999853322222223334569999999988888888888888889999999999999998654

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=95.30  E-value=0.48  Score=39.98  Aligned_cols=91  Identities=9%  Similarity=0.071  Sum_probs=49.9

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC-------CCCeEEEEEcCCcCCCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL-------KVPCIAVVENMCHFDADG  350 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~-------~~~i~gvVlN~~~~~~~~  350 (386)
                      ..+.+.|+|||+.-....+.......+|.+++|..... .++..+...+..+.+.       ....+-+|.|+++.....
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  126 (168)
T cd04119          47 KEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHR  126 (168)
T ss_pred             eEEEEEEEECCccHHHHHHHHHHhccCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhccccc
Confidence            45788899998642222222222345788999887654 3455555555554332       123356888999864211


Q ss_pred             ceecccCCChHHHHHHHhCCCeE
Q 016622          351 KRYYPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       351 ~~~~~~~~~~~~~i~~~~g~pvl  373 (386)
                      .    ........+++..+.+++
T Consensus       127 ~----~~~~~~~~~~~~~~~~~~  145 (168)
T cd04119         127 A----VSEDEGRLWAESKGFKYF  145 (168)
T ss_pred             c----cCHHHHHHHHHHcCCeEE
Confidence            1    111234456666676654

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.

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=95.26  E-value=0.31  Score=43.23  Aligned_cols=86  Identities=16%  Similarity=0.123  Sum_probs=49.7

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHc-------CCCCeEEEEEcCCcCCCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSK-------LKVPCIAVVENMCHFDADG  350 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~-------~~~~i~gvVlN~~~~~~~~  350 (386)
                      ..+.+.|+|+|+......+.-..+..+|.+++|.... ..++..+......+..       .+.++ -+|.|+.+.....
T Consensus        48 ~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~pi-ilv~NK~Dl~~~~  126 (201)
T cd04107          48 TVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPC-LLLANKCDLKKRL  126 (201)
T ss_pred             CEEEEEEEECCCchhhhhhHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcE-EEEEECCCccccc
Confidence            4577899999864322222222245678888887765 4456666555544432       23454 5888999864211


Q ss_pred             ceecccCCChHHHHHHHhC
Q 016622          351 KRYYPFGRGSGSQVVQQFG  369 (386)
Q Consensus       351 ~~~~~~~~~~~~~i~~~~g  369 (386)
                          .......+++++..+
T Consensus       127 ----~~~~~~~~~~~~~~~  141 (201)
T cd04107         127 ----AKDGEQMDQFCKENG  141 (201)
T ss_pred             ----ccCHHHHHHHHHHcC
Confidence                111234566677666

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.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.26  E-value=0.027  Score=50.10  Aligned_cols=37  Identities=32%  Similarity=0.446  Sum_probs=30.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      +|+++ |-.|+||||++..|+..+  .+.++.++.+|...
T Consensus         1 iigi~-G~~GsGKSTl~~~l~~~l--~~~~~~v~~~D~~~   37 (198)
T cd02023           1 IIGIA-GGSGSGKTTVAEEIIEQL--GNPKVVIISQDSYY   37 (198)
T ss_pred             CEEEE-CCCCCCHHHHHHHHHHHh--CCCCeEEEEecccc
Confidence            35666 789999999999999988  56689999998654

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=95.25  E-value=0.25  Score=42.32  Aligned_cols=69  Identities=7%  Similarity=0.025  Sum_probs=41.3

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHH-c-CCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFS-K-LKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~-~-~~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.++|+++......+....+..+|.+++|...... ++..++..+..+. . .+.+++ +|.|+++...
T Consensus        42 ~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~~~~~pii-lv~NK~Dl~~  113 (164)
T cd04162          42 QDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDSADSERLPLARQELHQLLQHPPDLPLV-VLANKQDLPA  113 (164)
T ss_pred             CCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHhCCCCCcEE-EEEeCcCCcC
Confidence            456789999986432222222235567999998876543 4555554444443 2 345554 8889998643

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.

>PRK09183 transposase/IS protein; Provisional

Probab=95.23  E-value=0.032  Score=52.10  Aligned_cols=36  Identities=28%  Similarity=0.448  Sum_probs=31.1

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      ..+.++ |..|+|||+++..+|..+..+|++|+++++
T Consensus       103 ~~v~l~-Gp~GtGKThLa~al~~~a~~~G~~v~~~~~  138 (259)
T PRK09183        103 ENIVLL-GPSGVGKTHLAIALGYEAVRAGIKVRFTTA  138 (259)
T ss_pred             CeEEEE-eCCCCCHHHHHHHHHHHHHHcCCeEEEEeH
Confidence            356666 889999999999999998899999998864

>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2

Probab=95.22  E-value=0.054  Score=47.15  Aligned_cols=97  Identities=23%  Similarity=0.220  Sum_probs=47.2

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSG  254 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~  254 (386)
                      .|-|+ .-.|=||||-|..+|...+-+|.||+++=+==.....    |            +.......+++.+...+..-
T Consensus         5 ~i~vy-tG~GKGKTTAAlGlalRA~G~G~rV~ivQFlKg~~~~----G------------E~~~l~~l~~~~~~~~g~~f   67 (172)
T PF02572_consen    5 LIQVY-TGDGKGKTTAALGLALRAAGHGMRVLIVQFLKGGRYS----G------------ELKALKKLPNVEIERFGKGF   67 (172)
T ss_dssp             -EEEE-ESSSS-HHHHHHHHHHHHHCTT--EEEEESS--SS------H------------HHHHHGGGT--EEEE--TT-
T ss_pred             EEEEE-eCCCCCchHHHHHHHHHHHhCCCEEEEEEEecCCCCc----C------------HHHHHHhCCeEEEEEcCCcc
Confidence            34444 4458899999999999999999999999542110000    0            00000111234444444310


Q ss_pred             C---cccccCCchHHHHHHHHHHhcCCCCCcEEEEcC
Q 016622          255 Q---GRAIMRGPMVSGVINQLLTTTEWGELDYLVIDM  288 (386)
Q Consensus       255 ~---~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDt  288 (386)
                      .   .............++...+.+..+.||+||+|=
T Consensus        68 ~~~~~~~~~~~~~~~~~~~~a~~~i~~~~~dlvILDE  104 (172)
T PF02572_consen   68 VWRMNEEEEDRAAAREGLEEAKEAISSGEYDLVILDE  104 (172)
T ss_dssp             ---GGGHHHHHHHHHHHHHHHHHHTT-TT-SEEEEET
T ss_pred             cccCCCcHHHHHHHHHHHHHHHHHHhCCCCCEEEEcc
Confidence            0   000000123445666667677668999999995

5.1.17 from EC), catalyse the conversion of cobalamin (vitamin B12) into its coenzyme form, adenosylcobalamin (coenzyme B12) []. Adenosylcobalamin (AdoCbl) is required for the ativity of certain enzymes. AdoCbl contains an adenosyl moiety liganded to the cobalt ion of cobalamin via a covalent Co-C bond, and its synthesis is unique to certain prokaryotes. ATP:cob(I)alamin adenosyltransferases are classed into three groups: CobA-type [], EutT-type [] and PduO-type []. Each of the three enzyme types appears to be specialised for particular AdoCbl-dependent enzymes or for the de novo synthesis AdoCbl. PduO and EutT are distantly related, sharing short conserved motifs, while CobA is evolutionarily unrelated and is an example of convergent evolution. This entry represents the ATP:cob(I)alamin adenosyltransferases CobA (Salmonella typhimurium), CobO (Pseudomonas denitrificans), and ButR (Escherichia coli). There is a high degree of sequence identity between these proteins []. CobA is responsible for attaching the adenosyl moiety from ATP to the cobalt ion of the corrin ring, necessary for the convertion of cobalamin to adenosylcobalamin [, ]. ; GO: 0005524 ATP binding, 0008817 cob(I)yrinic acid a,c-diamide adenosyltransferase activity, 0009236 cobalamin biosynthetic process; PDB: 1G64_A 1G5T_A 1G5R_A.

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=95.21  E-value=0.043  Score=49.82  Aligned_cols=38  Identities=18%  Similarity=0.303  Sum_probs=33.6

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .++.+. +..|+|||+++.+++...+++|.+|++++++.
T Consensus        17 ~~~li~-G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~   54 (224)
T TIGR03880        17 HVIVVI-GEYGTGKTTFSLQFLYQGLKNGEKAMYISLEE   54 (224)
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence            466665 77999999999999999888899999999976

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown

Probab=95.20  E-value=0.033  Score=50.74  Aligned_cols=39  Identities=33%  Similarity=0.344  Sum_probs=35.0

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~  212 (386)
                      .+-++|. |..|+|||+++..|...+. +.|.+++++|..-
T Consensus        23 ~~H~~I~-G~TGsGKS~~~~~ll~~l~~~~~~~~ii~D~~G   62 (229)
T PF01935_consen   23 NRHIAIF-GTTGSGKSNTVKVLLEELLKKKGAKVIIFDPHG   62 (229)
T ss_pred             cceEEEE-CCCCCCHHHHHHHHHHHHHhcCCCCEEEEcCCC
Confidence            4588888 8999999999999999999 8999999998754

It contains several conserved aspartates and histidines that could be metal ligands.

>cd01863 Rab18 Rab18 subfamily

Probab=95.20  E-value=0.55  Score=39.56  Aligned_cols=89  Identities=10%  Similarity=0.090  Sum_probs=49.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+++.++|+|+...........+..+|.+++|..... .++..+...+..+.+    .+.+ +-+|.|+.+....    
T Consensus        47 ~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~-~~iv~nK~D~~~~----  121 (161)
T cd01863          47 KKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTRRDTFTNLETWLNELETYSTNNDIV-KMLVGNKIDKENR----  121 (161)
T ss_pred             EEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCc-EEEEEECCccccc----
Confidence            35678999998743222222222345788888877654 345555554444433    2344 4478899886421    


Q ss_pred             cccCCChHHHHHHHhCCCeE
Q 016622          354 YPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl  373 (386)
                       ........++.+..+.+++
T Consensus       122 -~~~~~~~~~~~~~~~~~~~  140 (161)
T cd01863         122 -EVTREEGLKFARKHNMLFI  140 (161)
T ss_pred             -ccCHHHHHHHHHHcCCEEE
Confidence             1112345566666676654

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

>KOG2749 consensus mRNA cleavage and polyadenylation factor IA/II complex, subunit CLP1 [RNA processing and modification]

Probab=95.20  E-value=0.038  Score=52.84  Aligned_cols=45  Identities=29%  Similarity=0.180  Sum_probs=39.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLP  218 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~  218 (386)
                      ++.+++. |-..+||||++.-|.-+..+.|++.+.+|+|+.++++.
T Consensus       103 GPrv~vV-Gp~d~GKsTl~r~L~nyavk~gr~Plfv~LDvgQ~sit  147 (415)
T KOG2749|consen  103 GPRVMVV-GPTDVGKSTLCRILLNYAVKQGRRPLFVELDVGQGSIT  147 (415)
T ss_pred             CCEEEEE-CCCccchHHHHHHHHHHHHHcCCcceEEEcCCCCCcee
Confidence            4567777 56689999999999999999999999999999998753

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=95.18  E-value=0.039  Score=48.79  Aligned_cols=36  Identities=25%  Similarity=0.188  Sum_probs=31.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      +.|+|. |-.|+||||++..|+..|...|++|..+-.
T Consensus         4 ~~Ivie-G~~GsGKsT~~~~L~~~l~~~g~~v~~~~~   39 (195)
T TIGR00041         4 MFIVIE-GIDGAGKTTQANLLKKLLQENGYDVLFTRE   39 (195)
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            567777 889999999999999999999999977643

Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily

Probab=95.14  E-value=0.035  Score=55.62  Aligned_cols=40  Identities=28%  Similarity=0.377  Sum_probs=34.4

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~~~  214 (386)
                      -+.+.++.+|.|||+++.++|..++ +.|++|+++.++...
T Consensus       195 ~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlEm~~  235 (421)
T TIGR03600       195 DLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLEMSA  235 (421)
T ss_pred             ceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCCCH
Confidence            4556669999999999999999998 789999999988643

Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=95.12  E-value=0.043  Score=55.96  Aligned_cols=38  Identities=16%  Similarity=0.119  Sum_probs=32.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHC-CCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~-G~rVllID~D~  212 (386)
                      +++.|. |-+|+||||++.+++..-+++ |.++++|.++-
T Consensus        22 ~~~Li~-G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~eE   60 (484)
T TIGR02655        22 RSTLVS-GTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFEE   60 (484)
T ss_pred             eEEEEE-cCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEec
Confidence            456665 999999999999999887665 99999999974

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>CHL00189 infB translation initiation factor 2; Provisional

Probab=95.11  E-value=0.088  Score=56.08  Aligned_cols=68  Identities=12%  Similarity=0.092  Sum_probs=44.7

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|||+-.....+....+..+|.+++|+..+......+...+..+...+++++ +++|+++..
T Consensus       293 ~~~kItfiDTPGhe~F~~mr~rg~~~aDiaILVVDA~dGv~~QT~E~I~~~k~~~iPiI-VViNKiDl~  360 (742)
T CHL00189        293 ENQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAADDGVKPQTIEAINYIQAANVPII-VAINKIDKA  360 (742)
T ss_pred             CceEEEEEECCcHHHHHHHHHHHHHHCCEEEEEEECcCCCChhhHHHHHHHHhcCceEE-EEEECCCcc
Confidence            35789999998532111122223445799999987765444455666777777788855 888999864

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=95.10  E-value=0.12  Score=49.71  Aligned_cols=38  Identities=16%  Similarity=0.099  Sum_probs=29.7

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHH------CCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAG------MGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~------~G~rVllID~D~  212 (386)
                      .|.-..|..|+|||+++..+|...+.      .|.+|++||+.-
T Consensus        97 ~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~  140 (313)
T TIGR02238        97 SITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEG  140 (313)
T ss_pred             eEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCC
Confidence            44444499999999999999976542      367999999874

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=95.07  E-value=0.72  Score=39.80  Aligned_cols=68  Identities=10%  Similarity=0.047  Sum_probs=38.7

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHH-HcC---CCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMF-SKL---KVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l-~~~---~~~i~gvVlN~~~~~  347 (386)
                      +...+.++|+|+...........+..+|.+++|...... +.......+..+ +..   +.+ +-++.|+++..
T Consensus        57 ~~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p-~viv~NK~Dl~  129 (174)
T cd04153          57 KNIRFLMWDIGGQESLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAV-LLVLANKQDLK  129 (174)
T ss_pred             CCeEEEEEECCCCHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCC-EEEEEECCCCC
Confidence            356789999986432111112224467999999887643 344444433333 222   344 55888998853

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.

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

Probab=95.07  E-value=0.23  Score=43.17  Aligned_cols=42  Identities=10%  Similarity=0.022  Sum_probs=27.1

Q ss_pred             CCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          305 LTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       305 ~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ++.+++|+.....-.......++.+...+.+++ +++|+++..
T Consensus       101 ~~~ii~vvd~~~~~~~~~~~~~~~~~~~~~pvi-iv~nK~D~~  142 (179)
T TIGR03598       101 LKGVVLLMDIRHPLKELDLEMLEWLRERGIPVL-IVLTKADKL  142 (179)
T ss_pred             hcEEEEEecCCCCCCHHHHHHHHHHHHcCCCEE-EEEECcccC
Confidence            467888877655322333355667777777755 778998853

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.

>PRK12377 putative replication protein; Provisional

Probab=95.06  E-value=0.038  Score=51.16  Aligned_cols=36  Identities=25%  Similarity=0.290  Sum_probs=31.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      .+.++ |..|+|||+++..+|..+.+.|++|+++...
T Consensus       103 ~l~l~-G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~  138 (248)
T PRK12377        103 NFVFS-GKPGTGKNHLAAAIGNRLLAKGRSVIVVTVP  138 (248)
T ss_pred             eEEEE-CCCCCCHHHHHHHHHHHHHHcCCCeEEEEHH
Confidence            55565 8899999999999999999999999988764

>PRK00093 GTP-binding protein Der; Reviewed

Probab=95.01  E-value=0.16  Score=50.97  Aligned_cols=68  Identities=12%  Similarity=0.040  Sum_probs=43.1

Q ss_pred             CCCcEEEEcCCCCCC-----h------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTG-----D------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~-----~------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ...++.++|||+...     +      .......+..+|.+++|+.........-.+....+.+.+.+++ +|+|+++..
T Consensus       219 ~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilViD~~~~~~~~~~~i~~~~~~~~~~~i-vv~NK~Dl~  297 (435)
T PRK00093        219 DGQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLKAIERADVVLLVIDATEGITEQDLRIAGLALEAGRALV-IVVNKWDLV  297 (435)
T ss_pred             CCeeEEEEECCCCCCCcchhhHHHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCcEE-EEEECccCC
Confidence            456789999986321     0      0111223445799999988876443444566667766677755 888998854

>cd04158 ARD1 ARD1 subfamily

Probab=95.01  E-value=0.31  Score=41.90  Aligned_cols=69  Identities=10%  Similarity=0.017  Sum_probs=41.3

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC-C--CCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL-K--VPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~-~--~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|+|+..............+|.+++|..... .++.++...+..+.+. +  ...+-+|.||.+..
T Consensus        41 ~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~  113 (169)
T cd04158          41 KNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVA  113 (169)
T ss_pred             CCEEEEEEECCCChhcchHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcc
Confidence            45678999998643222222222456799999988655 3466665555544321 1  12456888998854

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

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=95.01  E-value=0.05  Score=49.98  Aligned_cols=40  Identities=23%  Similarity=0.191  Sum_probs=34.2

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      .++.|+ |-+|+|||+++.++++..+++|.+|++|.++...
T Consensus        22 s~~lI~-G~pGsGKT~la~~~l~~~~~~ge~~lyvs~ee~~   61 (237)
T TIGR03877        22 NVVLLS-GGPGTGKSIFSQQFLWNGLQMGEPGIYVALEEHP   61 (237)
T ss_pred             eEEEEE-cCCCCCHHHHHHHHHHHHHHcCCcEEEEEeeCCH
Confidence            355555 9999999999999999988999999999988633

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=94.99  E-value=0.042  Score=48.36  Aligned_cols=35  Identities=26%  Similarity=0.274  Sum_probs=30.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      .|+|. |--|+||||++..|+..|...|++|..+..
T Consensus         2 ~I~ie-G~~GsGKtT~~~~L~~~l~~~g~~v~~~~~   36 (200)
T cd01672           2 FIVFE-GIDGAGKTTLIELLAERLEARGYEVVLTRE   36 (200)
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            56776 889999999999999999999999977654

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>cd04114 Rab30 Rab30 subfamily

Probab=94.99  E-value=0.46  Score=40.42  Aligned_cols=66  Identities=14%  Similarity=0.049  Sum_probs=37.0

Q ss_pred             CcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHc---CCCCeEEEEEcCCcCC
Q 016622          281 LDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSK---LKVPCIAVVENMCHFD  347 (386)
Q Consensus       281 yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~---~~~~i~gvVlN~~~~~  347 (386)
                      +.+.++|+|+...........+..+|.+++|.+.... +...+...+..++.   .+.++ -+|.|+.+..
T Consensus        56 ~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~-i~v~NK~D~~  125 (169)
T cd04114          56 IKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVIT-ILVGNKIDLA  125 (169)
T ss_pred             EEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeE-EEEEECcccc
Confidence            5678899985322222222234457888888776542 34444444443433   34554 4888999864

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.

>PRK06835 DNA replication protein DnaC; Validated

Probab=94.99  E-value=0.032  Score=53.84  Aligned_cols=38  Identities=24%  Similarity=0.198  Sum_probs=33.8

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      .+-+.++ |..|+|||+++..+|..+.++|++|+++.++
T Consensus       183 ~~~Lll~-G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~  220 (329)
T PRK06835        183 NENLLFY-GNTGTGKTFLSNCIAKELLDRGKSVIYRTAD  220 (329)
T ss_pred             CCcEEEE-CCCCCcHHHHHHHHHHHHHHCCCeEEEEEHH
Confidence            3567777 7889999999999999999999999999874

>cd04117 Rab15 Rab15 subfamily

Probab=94.98  E-value=0.41  Score=40.72  Aligned_cols=90  Identities=10%  Similarity=0.113  Sum_probs=51.0

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHcCC--CCeEEEEEcCCcCCCCCceeccc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSKLK--VPCIAVVENMCHFDADGKRYYPF  356 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~~~--~~i~gvVlN~~~~~~~~~~~~~~  356 (386)
                      .+.+-|.|+++......+.......+|.+++|... +..++..+...++.+....  ...+-+|.|+.+.......    
T Consensus        48 ~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v----  123 (161)
T cd04117          48 KVRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQV----  123 (161)
T ss_pred             EEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCC----
Confidence            35677899975332222222224456888888764 4456777766666554432  2245588899885432111    


Q ss_pred             CCChHHHHHHHhCCCeE
Q 016622          357 GRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       357 ~~~~~~~i~~~~g~pvl  373 (386)
                      .......+++..+.+++
T Consensus       124 ~~~~~~~~~~~~~~~~~  140 (161)
T cd04117         124 GDEQGNKLAKEYGMDFF  140 (161)
T ss_pred             CHHHHHHHHHHcCCEEE
Confidence            11346667777776654

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

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=94.96  E-value=0.043  Score=49.62  Aligned_cols=39  Identities=13%  Similarity=0.070  Sum_probs=33.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      +.+.++ |..|+|||+++..++..+.+.|.+++.++++..
T Consensus        39 ~~lll~-G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~   77 (226)
T TIGR03420        39 RFLYLW-GESGSGKSHLLQAACAAAEERGKSAIYLPLAEL   77 (226)
T ss_pred             CeEEEE-CCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHH
Confidence            366676 889999999999999998888999999998653

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>PRK06217 hypothetical protein; Validated

Probab=94.95  E-value=0.037  Score=48.61  Aligned_cols=33  Identities=24%  Similarity=0.320  Sum_probs=25.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +.|.|+ |-.|+||||++..|+..+   |..  .+|+|-
T Consensus         2 ~~I~i~-G~~GsGKSTla~~L~~~l---~~~--~~~~D~   34 (183)
T PRK06217          2 MRIHIT-GASGSGTTTLGAALAERL---DIP--HLDTDD   34 (183)
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHc---CCc--EEEcCc
Confidence            357776 899999999999999876   544  677774

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=94.92  E-value=0.07  Score=48.05  Aligned_cols=40  Identities=30%  Similarity=0.368  Sum_probs=32.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPS  216 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~s  216 (386)
                      .+|+|+ |-.|+||||+|..|...|...  ++.+|-.|-+.-.
T Consensus         9 iiIgIa-G~SgSGKTTva~~l~~~~~~~--~~~~I~~D~YYk~   48 (218)
T COG0572           9 IIIGIA-GGSGSGKTTVAKELSEQLGVE--KVVVISLDDYYKD   48 (218)
T ss_pred             EEEEEe-CCCCCCHHHHHHHHHHHhCcC--cceEeeccccccc
Confidence            477887 888999999999999998644  8899988876544

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=94.88  E-value=0.036  Score=51.96  Aligned_cols=37  Identities=27%  Similarity=0.260  Sum_probs=27.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .|.++ |-+|+||||+|..|+..|...+.+|.+|+-|.
T Consensus         3 Liil~-G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~~   39 (270)
T PF08433_consen    3 LIILC-GLPCSGKTTRAKELKKYLEEKGKEVVIISDDS   39 (270)
T ss_dssp             EEEEE---TTSSHHHHHHHHHHHHHHTT--EEEE-THH
T ss_pred             EEEEE-cCCCCcHHHHHHHHHHHHHhcCCEEEEEcccc
Confidence            44444 99999999999999999999999999999654

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>cd04176 Rap2 Rap2 subgroup

Probab=94.88  E-value=0.67  Score=39.15  Aligned_cols=88  Identities=15%  Similarity=0.223  Sum_probs=48.3

Q ss_pred             CcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceecc
Q 016622          281 LDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       281 yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      +.+-|+|+|+.-....+.......+|.+++|..... .++.++......+.+    .+.+++ +|.|+++......    
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piv-iv~nK~Dl~~~~~----  123 (163)
T cd04176          49 SVLEILDTAGTEQFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPII-LVGNKVDLESERE----  123 (163)
T ss_pred             EEEEEEECCCcccccchHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEE-EEEECccchhcCc----
Confidence            456789998642211121122345688887765544 356666666555543    245544 7889988543211    


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                      ........+++.++.+++
T Consensus       124 ~~~~~~~~~~~~~~~~~~  141 (163)
T cd04176         124 VSSAEGRALAEEWGCPFM  141 (163)
T ss_pred             cCHHHHHHHHHHhCCEEE
Confidence            111234666677776654

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

>PRK07560 elongation factor EF-2; Reviewed

Probab=94.87  E-value=0.11  Score=55.74  Aligned_cols=68  Identities=13%  Similarity=0.001  Sum_probs=46.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +.|-+.+||||+-..-.......+..+|.+++|+.+...--..++..++.+.+.+.+.+ +++||++..
T Consensus        85 ~~~~i~liDtPG~~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~~~~~~~~~~i-v~iNK~D~~  152 (731)
T PRK07560         85 KEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQALRERVKPV-LFINKVDRL  152 (731)
T ss_pred             CcEEEEEEcCCCccChHHHHHHHHHhcCEEEEEEECCCCCCccHHHHHHHHHHcCCCeE-EEEECchhh
Confidence            46778999999533222222233455799999988766544567777777667778764 788999854

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=94.86  E-value=0.11  Score=56.61  Aligned_cols=67  Identities=12%  Similarity=-0.016  Sum_probs=47.9

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      .|-+=|||||+-..-.......+..+|.+++|+.+...-...+++.++.+...+.+++ +++|+.+..
T Consensus        97 ~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~~~~~~~p~i-~~iNK~D~~  163 (843)
T PLN00116         97 EYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQALGERIRPV-LTVNKMDRC  163 (843)
T ss_pred             ceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHHHHHCCCCEE-EEEECCccc
Confidence            4556799999533222223344556799999999877655667888888888888876 788999875

>cd04142 RRP22 RRP22 subfamily

Probab=94.86  E-value=0.76  Score=40.86  Aligned_cols=68  Identities=19%  Similarity=0.125  Sum_probs=40.4

Q ss_pred             CCcEEEEcCCCCC------ChH--HHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc------CCCCeEEEEEcCC
Q 016622          280 ELDYLVIDMPPGT------GDI--QLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK------LKVPCIAVVENMC  344 (386)
Q Consensus       280 ~yD~VIIDtpp~~------~~~--~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~------~~~~i~gvVlN~~  344 (386)
                      .+.+.|+|||+..      +..  ......+..+|.+++|..... .++..+....+.+.+      .+.+ +-+|.||+
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~p-iiivgNK~  126 (198)
T cd04142          48 VYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPP-IVVVGNKR  126 (198)
T ss_pred             EEEEEEEeCCCcccCCccchhHHHHHHHhhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCC-EEEEEECc
Confidence            4778899997521      111  001122456799999888754 456666665555433      2344 45888999


Q ss_pred             cCCC
Q 016622          345 HFDA  348 (386)
Q Consensus       345 ~~~~  348 (386)
                      +...
T Consensus       127 Dl~~  130 (198)
T cd04142         127 DQQR  130 (198)
T ss_pred             cccc
Confidence            8743

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.

>COG4240 Predicted kinase [General function prediction only]

Probab=94.85  E-value=0.043  Score=49.47  Aligned_cols=38  Identities=29%  Similarity=0.345  Sum_probs=33.1

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCC-CcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMG-ARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G-~rVllID~D~  212 (386)
                      .|...||-.|+||||+++.+-..|+.+| ++++-+.+|-
T Consensus        51 li~gisGpQGSGKStls~~i~~~L~~kg~ert~~lSLDD   89 (300)
T COG4240          51 LIVGISGPQGSGKSTLSALIVRLLAAKGLERTATLSLDD   89 (300)
T ss_pred             eEEEeecCCCCchhhHHHHHHHHHHHhcccceEEeehhh
Confidence            4555569999999999999999999988 7999998874

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

Probab=94.84  E-value=0.28  Score=52.03  Aligned_cols=94  Identities=20%  Similarity=0.141  Sum_probs=65.2

Q ss_pred             CC-CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceeccc
Q 016622          278 WG-ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPF  356 (386)
Q Consensus       278 ~~-~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~  356 (386)
                      |+ +|.+=|||||+-.+-..-....+..+|++++|+.+...--..+...++++.+.+++.+ +++|+++......     
T Consensus        72 ~~~~~~iNlIDTPGHVDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~~~~vp~i-~fiNKmDR~~a~~-----  145 (697)
T COG0480          72 WKGDYRINLIDTPGHVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQADKYGVPRI-LFVNKMDRLGADF-----  145 (697)
T ss_pred             EcCceEEEEeCCCCccccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHhhcCCCeE-EEEECccccccCh-----
Confidence            45 4889999999744322222233445699999999888777788999999999999987 5669988654321     


Q ss_pred             CCChHHHHHHHhCCCeE-EecCC
Q 016622          357 GRGSGSQVVQQFGIPHL-FDLPI  378 (386)
Q Consensus       357 ~~~~~~~i~~~~g~pvl-~~IP~  378 (386)
                       ....+++.+.++.+.. ..+|.
T Consensus       146 -~~~~~~l~~~l~~~~~~v~~pI  167 (697)
T COG0480         146 -YLVVEQLKERLGANPVPVQLPI  167 (697)
T ss_pred             -hhhHHHHHHHhCCCceeeeccc
Confidence             1357788888875432 34453

>cd04111 Rab39 Rab39 subfamily

Probab=94.83  E-value=0.78  Score=41.18  Aligned_cols=91  Identities=11%  Similarity=0.151  Sum_probs=52.1

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+++......+....+..+|.+++|..... .++.++...++.+.+.   ....+-+|.|+.+......    
T Consensus        51 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~----  126 (211)
T cd04111          51 RIKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQ----  126 (211)
T ss_pred             EEEEEEEeCCcchhHHHHHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccc----
Confidence            4678899998643222222222445788888877654 4566666655555432   2234567889988543211    


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                      .......++++.++++++.
T Consensus       127 v~~~~~~~~~~~~~~~~~e  145 (211)
T cd04111         127 VTREEAEKLAKDLGMKYIE  145 (211)
T ss_pred             cCHHHHHHHHHHhCCEEEE
Confidence            1123456777777766553

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.

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

Probab=94.83  E-value=0.21  Score=42.83  Aligned_cols=69  Identities=12%  Similarity=0.054  Sum_probs=40.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHH-HHHHHHHcC--CCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVA-KGVRMFSKL--KVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~-~~~~~l~~~--~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.|+|||+...-..+.......+|.+++|...+. .++..+. ..+..+.+.  +.++ -+|.|+++...
T Consensus        44 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~pi-ilv~nK~Dl~~  116 (174)
T smart00174       44 KPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFCPNTPI-ILVGTKLDLRE  116 (174)
T ss_pred             EEEEEEEEECCCCcccchhchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCE-EEEecChhhhh
Confidence            45678999998643211222222445788888876643 4555553 234444432  4554 58889988643

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

>PRK05595 replicative DNA helicase; Provisional

Probab=94.83  E-value=0.047  Score=55.10  Aligned_cols=39  Identities=28%  Similarity=0.386  Sum_probs=33.9

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVY  213 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~~  213 (386)
                      -+.+.++.+|.|||+++.++|..+| ++|++|+++.+...
T Consensus       202 ~liviaarpg~GKT~~al~ia~~~a~~~g~~vl~fSlEms  241 (444)
T PRK05595        202 DMILIAARPSMGKTTFALNIAEYAALREGKSVAIFSLEMS  241 (444)
T ss_pred             cEEEEEecCCCChHHHHHHHHHHHHHHcCCcEEEEecCCC
Confidence            4666679999999999999999877 67999999998764

>PLN00223 ADP-ribosylation factor; Provisional

Probab=94.83  E-value=1.1  Score=39.06  Aligned_cols=84  Identities=8%  Similarity=0.109  Sum_probs=48.1

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHH-HcC--CCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMF-SKL--KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l-~~~--~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      +.+.+.|+|+|+......+.......+|.+++|..... .++..+...+..+ .+.  ....+-+|.|+.+....     
T Consensus        59 ~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~-----  133 (181)
T PLN00223         59 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA-----  133 (181)
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCC-----
Confidence            45678999998532211121222456789999988754 3455555444333 221  12235689999885321     


Q ss_pred             ccCCChHHHHHHHhCCC
Q 016622          355 PFGRGSGSQVVQQFGIP  371 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~p  371 (386)
                          ...+++.+.+|+.
T Consensus       134 ----~~~~~~~~~l~l~  146 (181)
T PLN00223        134 ----MNAAEITDKLGLH  146 (181)
T ss_pred             ----CCHHHHHHHhCcc
Confidence                2357778888764

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=94.82  E-value=0.37  Score=40.95  Aligned_cols=89  Identities=11%  Similarity=0.210  Sum_probs=50.8

Q ss_pred             CCcEEEEcCCCCCC-hHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC-----CCCeEEEEEcCCcCCCCCce
Q 016622          280 ELDYLVIDMPPGTG-DIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL-----KVPCIAVVENMCHFDADGKR  352 (386)
Q Consensus       280 ~yD~VIIDtpp~~~-~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~-----~~~i~gvVlN~~~~~~~~~~  352 (386)
                      .+.+-|+|+|+... ........+..+|.+++|..... .++..+......+...     +.+ +-+|.|+.+...... 
T Consensus        46 ~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~-  123 (165)
T cd04146          46 QVSLEILDTAGQQQADTEQLERSIRWADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIP-VILVGNKADLLHYRQ-  123 (165)
T ss_pred             EEEEEEEECCCCcccccchHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECCchHHhCc-
Confidence            45677999986431 11111222445788888877654 4566666655555542     455 457789988533211 


Q ss_pred             ecccCCChHHHHHHHhCCCeE
Q 016622          353 YYPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       353 ~~~~~~~~~~~i~~~~g~pvl  373 (386)
                         ........+++.++.+++
T Consensus       124 ---v~~~~~~~~~~~~~~~~~  141 (165)
T cd04146         124 ---VSTEEGEKLASELGCLFF  141 (165)
T ss_pred             ---cCHHHHHHHHHHcCCEEE
Confidence               111345667777786654

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

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

Probab=94.80  E-value=0.6  Score=39.66  Aligned_cols=68  Identities=19%  Similarity=0.165  Sum_probs=37.4

Q ss_pred             CCCcEEEEcCCCCCC-----hH---HHhhhhh-cCCCeEEEEeCCCcc---hHHHHHHHHHHHHcC--CCCeEEEEEcCC
Q 016622          279 GELDYLVIDMPPGTG-----DI---QLTLCQV-VPLTAAVIVTTPQKL---AFIDVAKGVRMFSKL--KVPCIAVVENMC  344 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~-----~~---~~~~~~~-~~~d~vviV~~~~~~---s~~~~~~~~~~l~~~--~~~i~gvVlN~~  344 (386)
                      ..+.+.|+|||+...     ..   ....... ...|.+++|......   +.......++.+++.  +.+++ +|+|++
T Consensus        45 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~~~~pvi-lv~NK~  123 (168)
T cd01897          45 KYLRWQVIDTPGLLDRPLEERNTIEMQAITALAHLRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLFKNKPVI-VVLNKI  123 (168)
T ss_pred             CceEEEEEECCCcCCccccCCchHHHHHHHHHHhccCcEEEEEeCCcccccchHHHHHHHHHHHhhcCcCCeE-EEEEcc
Confidence            356789999986321     00   0011011 124777888766542   334444555555544  55655 888998


Q ss_pred             cCC
Q 016622          345 HFD  347 (386)
Q Consensus       345 ~~~  347 (386)
                      +..
T Consensus       124 Dl~  126 (168)
T cd01897         124 DLL  126 (168)
T ss_pred             ccC
Confidence            864

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.

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=94.78  E-value=0.056  Score=44.32  Aligned_cols=40  Identities=25%  Similarity=0.181  Sum_probs=33.2

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      +.+.++ |..|+||||++..++..+...+.++..++++...
T Consensus        20 ~~v~i~-G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~   59 (151)
T cd00009          20 KNLLLY-GPPGTGKTTLARAIANELFRPGAPFLYLNASDLL   59 (151)
T ss_pred             CeEEEE-CCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhh
Confidence            356665 9999999999999999998888899999876533

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=94.77  E-value=0.22  Score=53.43  Aligned_cols=68  Identities=21%  Similarity=0.146  Sum_probs=41.5

Q ss_pred             CCCcEEEEcCCCCCCh---H-----HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGD---I-----QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~---~-----~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.++|||+...+   .     ......+..+|.+++|+.....-...-....+.+++.+.+++ +|+|+++..
T Consensus       321 ~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~aD~iL~VvDa~~~~~~~d~~i~~~Lr~~~~pvI-lV~NK~D~~  396 (712)
T PRK09518        321 AGTDFKLVDTGGWEADVEGIDSAIASQAQIAVSLADAVVFVVDGQVGLTSTDERIVRMLRRAGKPVV-LAVNKIDDQ  396 (712)
T ss_pred             CCEEEEEEeCCCcCCCCccHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEE-EEEECcccc
Confidence            4567889999863211   0     011112345799999988764222222356677777777766 677999853

>cd01862 Rab7 Rab7 subfamily

Probab=94.77  E-value=0.39  Score=40.89  Aligned_cols=66  Identities=14%  Similarity=0.126  Sum_probs=35.7

Q ss_pred             CcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHH-HcC------CCCeEEEEEcCCcCC
Q 016622          281 LDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMF-SKL------KVPCIAVVENMCHFD  347 (386)
Q Consensus       281 yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l-~~~------~~~i~gvVlN~~~~~  347 (386)
                      +-+.++|+|+......+....+..+|.++++..... .++.......+.+ ...      +.+++ +|.|+++..
T Consensus        49 ~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~i-lv~nK~Dl~  122 (172)
T cd01862          49 VTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFV-VLGNKIDLE  122 (172)
T ss_pred             EEEEEEeCCChHHHHhHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEE-EEEECcccc
Confidence            346689997533222222222445788888876643 3444444433322 221      44544 888998864

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-

>PF01268 FTHFS: Formate--tetrahydrofolate ligase; InterPro: IPR000559 Formate--tetrahydrofolate ligase (6

Probab=94.74  E-value=0.034  Score=56.33  Aligned_cols=51  Identities=24%  Similarity=0.350  Sum_probs=34.6

Q ss_pred             CCceEEEEEeC---cCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCc
Q 016622          171 KISNIVAVSSC---KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPE  224 (386)
Q Consensus       171 ~~~kvI~v~s~---kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~  224 (386)
                      ..+|.|.|++-   .-|+||||++..|+.+|.+.|+++.+.   ++.||+.-.||..
T Consensus        52 ~~gklilVTaitPTp~GEGKtTttiGL~~al~~lg~~~~~~---lRePSlGP~fG~K  105 (557)
T PF01268_consen   52 PDGKLILVTAITPTPAGEGKTTTTIGLAQALNRLGKKAIAA---LREPSLGPVFGIK  105 (557)
T ss_dssp             ---EEEEEEESS--TTS-SHHHHHHHHHHHHHHTT--EEEE---E----CHHHHCST
T ss_pred             CCCcEEEEEecCCCCCCCCceeHHHHHHHHHHhcCCceEEE---EecCCCCCccCcc
Confidence            35678888765   459999999999999999999999876   7888887777765

3.4.3 from EC) (formyltetrahydrofolate synthetase) (FTHFS) is one of the enzymes participating in the transfer of one-carbon units, an essential element of various biosynthetic pathways. In many of these processes the transfers of one-carbon units are mediated by the coenzyme tetrahydrofolate (THF). In eukaryotes the FTHFS activity is expressed by a multifunctional enzyme, C-1-tetrahydrofolate synthase (C1-THF synthase), which also catalyses the dehydrogenase and cyclohydrolase activities. Two forms of C1-THF synthases are known [], one is located in the mitochondrial matrix, while the second one is cytoplasmic. In both forms the FTHFS domain consists of about 600 amino acid residues and is located in the C-terminal section of C1-THF synthase. In prokaryotes FTHFS activity is expressed by a monofunctional homotetrameric enzyme of about 560 amino acid residues []. The crystal structure of N(10)-formyltetrahydrofolate synthetase from Moorella thermoacetica shows that the subunit is composed of three domains organised around three mixed beta-sheets. There are two cavities between adjacent domains. One of them was identified as the nucleotide binding site by homology modelling. The large domain contains a seven-stranded beta-sheet surrounded by helices on both sides. The second domain contains a five-stranded beta-sheet with two alpha-helices packed on one side while the other two are a wall of the active site cavity. The third domain contains a four-stranded beta-sheet forming a half-barrel. The concave side is covered by two helices while the convex side is another wall of the large cavity. Arg 97 is likely involved in formyl phosphate binding. The tetrameric molecule is relatively flat with the shape of the letter X, and the active sites are located at the end of the subunits far from the subunit interface [].; GO: 0004329 formate-tetrahydrofolate ligase activity, 0005524 ATP binding, 0009396 folic acid-containing compound biosynthetic process; PDB: 2EO2_A 3DO6_B 1FPM_A 3RBO_A 3PZX_B 3QB6_A 1FP7_A 3SIN_B 1EG7_A 3QUS_A ....

>cd04120 Rab12 Rab12 subfamily

Probab=94.74  E-value=0.66  Score=41.50  Aligned_cols=68  Identities=16%  Similarity=0.156  Sum_probs=43.1

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC---CCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL---KVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~  347 (386)
                      ..+.+-|.|+++.-....+...-+..+|.+++|...+ ..++..+...++.+++.   +.+ +-+|.||++..
T Consensus        47 ~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~~p-iilVgNK~DL~  118 (202)
T cd04120          47 KKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAE-LLLVGNKLDCE  118 (202)
T ss_pred             EEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCc-EEEEEECcccc
Confidence            3577889999864322222222244678988887654 45777777666666543   344 45888999864

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

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=94.71  E-value=0.69  Score=44.74  Aligned_cols=87  Identities=14%  Similarity=0.103  Sum_probs=47.5

Q ss_pred             CcEEEEcCCCCCCh-------HHHhhhhhcCCCeEEEEeCCCcc----hHHHHHHHHHHHHcC-----CCCeEEEEEcCC
Q 016622          281 LDYLVIDMPPGTGD-------IQLTLCQVVPLTAAVIVTTPQKL----AFIDVAKGVRMFSKL-----KVPCIAVVENMC  344 (386)
Q Consensus       281 yD~VIIDtpp~~~~-------~~~~~~~~~~~d~vviV~~~~~~----s~~~~~~~~~~l~~~-----~~~i~gvVlN~~  344 (386)
                      +.++|+|+|+....       ....+..+..++.+++|+.....    .+.+.....+.+...     +.++ -+|+|++
T Consensus       205 ~~~~i~D~PGli~~a~~~~gLg~~flrhierad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~-IIV~NK~  283 (329)
T TIGR02729       205 RSFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPR-IVVLNKI  283 (329)
T ss_pred             eEEEEEeCCCcccCCcccccHHHHHHHHHHhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCE-EEEEeCc
Confidence            57899999864311       11112223357889999887643    455555555555433     3444 4889999


Q ss_pred             cCCCCCceecccCCChHHHHHHHhCCCeE
Q 016622          345 HFDADGKRYYPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       345 ~~~~~~~~~~~~~~~~~~~i~~~~g~pvl  373 (386)
                      +...... .    ....+++.+.++.+++
T Consensus       284 DL~~~~~-~----~~~~~~l~~~~~~~vi  307 (329)
T TIGR02729       284 DLLDEEE-L----AELLKELKKALGKPVF  307 (329)
T ss_pred             cCCChHH-H----HHHHHHHHHHcCCcEE
Confidence            8643210 0    1233445555565554

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.

>cd04151 Arl1 Arl1 subfamily

Probab=94.71  E-value=0.42  Score=40.35  Aligned_cols=68  Identities=15%  Similarity=0.112  Sum_probs=39.0

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHH-HHHHc---CCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGV-RMFSK---LKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~-~~l~~---~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|+|+...........+..+|.+++|...... ++....+.+ ..++.   .+.+ +-+|.||++..
T Consensus        41 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p-iiiv~nK~Dl~  113 (158)
T cd04151          41 KNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAV-LLVFANKQDMP  113 (158)
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCc-EEEEEeCCCCC
Confidence            356789999996433222222234567999999887653 333333333 23332   2445 45888998853

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.

>PRK13507 formate--tetrahydrofolate ligase; Provisional

Probab=94.69  E-value=0.051  Score=55.02  Aligned_cols=50  Identities=24%  Similarity=0.234  Sum_probs=41.3

Q ss_pred             CceEEEEEeC---cCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCc
Q 016622          172 ISNIVAVSSC---KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPE  224 (386)
Q Consensus       172 ~~kvI~v~s~---kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~  224 (386)
                      .+|.|.|++-   .-|+||||++..|+.+|.+.|+++.+.   ++.||+.-.||.+
T Consensus        62 ~gklIlVTaitPTP~GEGKtTttIGL~~aL~~lgk~~~~~---lRePSlGP~FGiK  114 (587)
T PRK13507         62 DGKYIDVTAITPTPLGEGKSTTTMGLVQGLGKRGKKVSGA---IRQPSGGPTMNIK  114 (587)
T ss_pred             CCeEEEEeccCCCCCCCCccchhhhHHHHHHhhcCceEEE---EecCCcCCcCCcc
Confidence            4577777764   459999999999999999999999876   6788887777654

>PRK09354 recA recombinase A; Provisional

Probab=94.68  E-value=0.059  Score=52.25  Aligned_cols=38  Identities=24%  Similarity=0.315  Sum_probs=33.2

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +++-|+ |..|+||||++.+++...++.|.+|++||+.-
T Consensus        61 ~IteI~-G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~   98 (349)
T PRK09354         61 RIVEIY-GPESSGKTTLALHAIAEAQKAGGTAAFIDAEH   98 (349)
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHHHcCCcEEEECCcc
Confidence            355555 78999999999999999999999999999864

>cd04132 Rho4_like Rho4-like subfamily

Probab=94.67  E-value=0.83  Score=39.72  Aligned_cols=94  Identities=11%  Similarity=0.046  Sum_probs=49.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHH-HHHHHHc--CCCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAK-GVRMFSK--LKVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~-~~~~l~~--~~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+.|+|||+......+.......+|.+++|...+. .++..+.. .+..+..  .+.+++ +|.|+.+.........
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pii-lv~nK~Dl~~~~~~~~  125 (187)
T cd04132          47 KIIELALWDTAGQEEYDRLRPLSYPDVDVLLICYAVDNPTSLDNVEDKWFPEVNHFCPGTPIM-LVGLKTDLRKDKNLDR  125 (187)
T ss_pred             cEEEEEEEECCCchhHHHHHHHhCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEE-EEEeChhhhhCccccC
Confidence            34678899998632211222222445788888877543 44555532 2333332  245554 7889988643211111


Q ss_pred             ccCCChHHHHHHHhCC-CeE
Q 016622          355 PFGRGSGSQVVQQFGI-PHL  373 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~-pvl  373 (386)
                      .......+++++.++. +++
T Consensus       126 ~v~~~~~~~~~~~~~~~~~~  145 (187)
T cd04132         126 KVTPAQAESVAKKQGAFAYL  145 (187)
T ss_pred             CcCHHHHHHHHHHcCCcEEE
Confidence            1122356667777776 443

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.

>PRK08506 replicative DNA helicase; Provisional

Probab=94.65  E-value=0.056  Score=54.94  Aligned_cols=40  Identities=18%  Similarity=0.325  Sum_probs=35.3

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      -+.|.++.+|.|||+++.++|..+++.|++|+++.+....
T Consensus       193 ~LivIaarpg~GKT~fal~ia~~~~~~g~~V~~fSlEMs~  232 (472)
T PRK08506        193 DLIIIAARPSMGKTTLCLNMALKALNQDKGVAFFSLEMPA  232 (472)
T ss_pred             ceEEEEcCCCCChHHHHHHHHHHHHhcCCcEEEEeCcCCH
Confidence            4666679999999999999999999999999999988744

>cd01892 Miro2 Miro2 subfamily

Probab=94.64  E-value=1.1  Score=38.44  Aligned_cols=86  Identities=15%  Similarity=0.225  Sum_probs=46.2

Q ss_pred             CcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC-CCCeEEEEEcCCcCCCCCceecccCC
Q 016622          281 LDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL-KVPCIAVVENMCHFDADGKRYYPFGR  358 (386)
Q Consensus       281 yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~-~~~i~gvVlN~~~~~~~~~~~~~~~~  358 (386)
                      +.+++.|+++......+.......+|.+++|...+. .++..+...++.+... +.+ +-+|.|+++.......    ..
T Consensus        54 ~~l~~~d~~g~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~~~~~~~~p-~iiv~NK~Dl~~~~~~----~~  128 (169)
T cd01892          54 KYLILREVGEDEVAILLNDAELAACDVACLVYDSSDPKSFSYCAEVYKKYFMLGEIP-CLFVAAKADLDEQQQR----YE  128 (169)
T ss_pred             EEEEEEecCCcccccccchhhhhcCCEEEEEEeCCCHHHHHHHHHHHHHhccCCCCe-EEEEEEcccccccccc----cc
Confidence            456677776432211111112346789999887644 4555555555544332 445 4588899986432111    01


Q ss_pred             ChHHHHHHHhCCC
Q 016622          359 GSGSQVVQQFGIP  371 (386)
Q Consensus       359 ~~~~~i~~~~g~p  371 (386)
                      ...+++++.++.+
T Consensus       129 ~~~~~~~~~~~~~  141 (169)
T cd01892         129 VQPDEFCRKLGLP  141 (169)
T ss_pred             cCHHHHHHHcCCC
Confidence            2356777777753

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.

>PRK01906 tetraacyldisaccharide 4'-kinase; Provisional

Probab=94.63  E-value=0.12  Score=49.95  Aligned_cols=41  Identities=24%  Similarity=0.394  Sum_probs=34.3

Q ss_pred             eEEEEEe-CcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          174 NIVAVSS-CKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s-~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      .||+|-+ .-||+|||-++..||..|.++|++|.++-=...+
T Consensus        57 PVIsVGNitvGGTGKTP~v~~La~~l~~~G~~~~IlSRGYg~   98 (338)
T PRK01906         57 PVVVVGNVTVGGTGKTPTVIALVDALRAAGFTPGVVSRGYGA   98 (338)
T ss_pred             CEEEECCccCCCCChHHHHHHHHHHHHHcCCceEEEecCCCC
Confidence            4777755 5699999999999999999999999999755433

>PRK08118 topology modulation protein; Reviewed

Probab=94.62  E-value=0.044  Score=47.50  Aligned_cols=24  Identities=38%  Similarity=0.482  Sum_probs=20.2

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      +.|.|+ |-+|+||||+|..|+..+
T Consensus         2 ~rI~I~-G~~GsGKSTlak~L~~~l   25 (167)
T PRK08118          2 KKIILI-GSGGSGKSTLARQLGEKL   25 (167)
T ss_pred             cEEEEE-CCCCCCHHHHHHHHHHHh
Confidence            467777 899999999999988766

>cd04123 Rab21 Rab21 subfamily

Probab=94.59  E-value=0.81  Score=38.29  Aligned_cols=89  Identities=13%  Similarity=0.214  Sum_probs=48.1

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.++|+|+........-..+..+|.+++|..... .++......++.+.+.   +.+ +-+|+|+.+......    
T Consensus        48 ~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iiiv~nK~D~~~~~~----  122 (162)
T cd04123          48 RIDLAIWDTAGQERYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNIS-LVIVGNKIDLERQRV----  122 (162)
T ss_pred             EEEEEEEECCchHHHHHhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCe-EEEEEECcccccccC----
Confidence            4567889998632221121122345788888876544 3455555554444433   334 557889988643211    


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                      ......+++.+.++.+++
T Consensus       123 ~~~~~~~~~~~~~~~~~~  140 (162)
T cd04123         123 VSKSEAEEYAKSVGAKHF  140 (162)
T ss_pred             CCHHHHHHHHHHcCCEEE
Confidence            111234556666776654

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

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=94.57  E-value=0.07  Score=48.71  Aligned_cols=39  Identities=33%  Similarity=0.310  Sum_probs=31.8

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEE-EEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGI-FDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVll-ID~D~  212 (386)
                      +.+|+|. |..|+||||++..|+..+...+..+.+ +.+|.
T Consensus        33 ~~iigi~-G~~GsGKTTl~~~L~~~l~~~~g~~~v~i~~D~   72 (229)
T PRK09270         33 RTIVGIA-GPPGAGKSTLAEFLEALLQQDGELPAIQVPMDG   72 (229)
T ss_pred             CEEEEEE-CCCCCCHHHHHHHHHHHhhhccCCceEEEeccc
Confidence            3477777 999999999999999999987767666 76665

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.57  E-value=0.048  Score=51.66  Aligned_cols=51  Identities=14%  Similarity=0.171  Sum_probs=37.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHH----CCCcEEEEEcCCCCCCCCccCCCcc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAG----MGARVGIFDADVYGPSLPTMVSPEN  225 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~----~G~rVllID~D~~~~sl~~~lg~~~  225 (386)
                      .|.|.+. |-+|.|||+++-+||+.|.-    +-++..+|+.+-.. -.+..|+...
T Consensus       177 NRliLlh-GPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinshs-LFSKWFsESg  231 (423)
T KOG0744|consen  177 NRLILLH-GPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSHS-LFSKWFSESG  231 (423)
T ss_pred             eeEEEEe-CCCCCChhHHHHHHHHhheeeecCccccceEEEEehhH-HHHHHHhhhh
Confidence            4677777 88999999999999999982    34678888887533 4555565443

>TIGR00416 sms DNA repair protein RadA

Probab=94.56  E-value=0.057  Score=54.53  Aligned_cols=38  Identities=24%  Similarity=0.281  Sum_probs=33.1

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+.+.+|.+|+||||++..+|..+++.|.+|++++.+.
T Consensus        95 svilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EE  132 (454)
T TIGR00416        95 SLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEE  132 (454)
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcC
Confidence            34455599999999999999999999999999999864

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>PRK11823 DNA repair protein RadA; Provisional

Probab=94.54  E-value=0.066  Score=53.99  Aligned_cols=38  Identities=29%  Similarity=0.390  Sum_probs=32.9

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+.+.+|.+|+||||++..+|..++++|.+|++++..-
T Consensus        81 s~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ee  118 (446)
T PRK11823         81 SVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEE  118 (446)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccc
Confidence            34444599999999999999999998899999999864

>cd04144 Ras2 Ras2 subfamily

Probab=94.53  E-value=0.64  Score=40.81  Aligned_cols=89  Identities=15%  Similarity=0.175  Sum_probs=48.4

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC------CCCeEEEEEcCCcCCCCCce
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL------KVPCIAVVENMCHFDADGKR  352 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~------~~~i~gvVlN~~~~~~~~~~  352 (386)
                      .+.+-|+|+|+......+....+..+|.+++|...+ ..++..+...++.+...      +.++ -+|.|+++...... 
T Consensus        46 ~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~pi-ilvgNK~Dl~~~~~-  123 (190)
T cd04144          46 PCMLEVLDTAGQEEYTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPI-MIVGNKCDKVYERE-  123 (190)
T ss_pred             EEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCE-EEEEEChhccccCc-
Confidence            355788999864322122222244568888876643 34556666665555432      3454 47889988643211 


Q ss_pred             ecccCCChHHHHHHHhCCCeE
Q 016622          353 YYPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       353 ~~~~~~~~~~~i~~~~g~pvl  373 (386)
                         .......++++.++.+++
T Consensus       124 ---v~~~~~~~~~~~~~~~~~  141 (190)
T cd04144         124 ---VSTEEGAALARRLGCEFI  141 (190)
T ss_pred             ---cCHHHHHHHHHHhCCEEE
Confidence               111234566677776543

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.

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=94.51  E-value=0.08  Score=50.14  Aligned_cols=41  Identities=27%  Similarity=0.289  Sum_probs=33.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHC--CCcEEEEEcCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGM--GARVGIFDADVYG  214 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~--G~rVllID~D~~~  214 (386)
                      +.+|+|. |..|+||||++..|...+.+.  +.+|.++..|...
T Consensus        62 p~IIGIa-G~~GSGKSTlar~L~~ll~~~~~~g~V~vi~~D~f~  104 (290)
T TIGR00554        62 PYIISIA-GSVAVGKSTTARILQALLSRWPEHRKVELITTDGFL  104 (290)
T ss_pred             CEEEEEE-CCCCCCHHHHHHHHHHHHhhcCCCCceEEEeccccc
Confidence            3488887 889999999999998888743  4579999888654

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>PLN02759 Formate--tetrahydrofolate ligase

Probab=94.51  E-value=0.075  Score=54.26  Aligned_cols=50  Identities=24%  Similarity=0.250  Sum_probs=40.3

Q ss_pred             CceEEEEEe---CcCCCCHHHHHHHHHHHHHH-CCCcEEEEEcCCCCCCCCccCCCc
Q 016622          172 ISNIVAVSS---CKGGVGKSTVAVNLAYTLAG-MGARVGIFDADVYGPSLPTMVSPE  224 (386)
Q Consensus       172 ~~kvI~v~s---~kGGvGKTTla~~LA~~La~-~G~rVllID~D~~~~sl~~~lg~~  224 (386)
                      .+|.|.|++   ..-|+||||++..|+.+|.+ .|+++++.   ++.||+.-.||..
T Consensus        68 ~gklIlVTaitPTP~GEGKTTttIGL~~aL~~~lgk~~~~~---lRePSlGP~FGiK  121 (637)
T PLN02759         68 DGYYVVVAGITPTPLGEGKSTTTIGLCQALGAYLDKKVVTC---LRQPSQGPTFGIK  121 (637)
T ss_pred             CCcEEEEEecCCCCCCCCchhHHHHHHHHHHHHhCCeeEEE---eecCCcCCcCCcc
Confidence            356666665   45699999999999999997 89999876   7788888777654

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=94.50  E-value=0.18  Score=50.45  Aligned_cols=67  Identities=13%  Similarity=0.040  Sum_probs=41.2

Q ss_pred             CCcEEEEcCCCCCCh-------H----HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGTGD-------I----QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~-------~----~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ...+.|+|||+....       .    ......+..+|.+++|.......-..-.+.+..+.+.+.+++ +|+|+++..
T Consensus       219 ~~~~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilV~D~~~~~~~~~~~~~~~~~~~~~~ii-iv~NK~Dl~  296 (429)
T TIGR03594       219 GKKYLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERADVVLLVLDATEGITEQDLRIAGLILEAGKALV-IVVNKWDLV  296 (429)
T ss_pred             CcEEEEEECCCccccccchhhHHHHHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHcCCcEE-EEEECcccC
Confidence            346899999862110       0    011223446799999988765433334456666666677755 788998864

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.

>PRK06749 replicative DNA helicase; Provisional

Probab=94.48  E-value=0.059  Score=54.04  Aligned_cols=40  Identities=28%  Similarity=0.440  Sum_probs=35.3

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      -+.|.++.+|.|||+++.++|..++++|++|+++.+....
T Consensus       187 ~LiiIaarPgmGKTafal~ia~~~a~~g~~v~~fSlEMs~  226 (428)
T PRK06749        187 DFVVLGARPSMGKTAFALNVGLHAAKSGAAVGLFSLEMSS  226 (428)
T ss_pred             cEEEEEeCCCCCchHHHHHHHHHHHhcCCCEEEEEeeCCH
Confidence            4566669999999999999999999999999999888744

>PLN02924 thymidylate kinase

Probab=94.48  E-value=0.079  Score=48.16  Aligned_cols=39  Identities=21%  Similarity=0.347  Sum_probs=33.7

Q ss_pred             cCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          170 QKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       170 ~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      .++++.|+|- |--|+||||.+..|+..|..+|++|.++.
T Consensus        13 ~~~g~~IviE-GiDGsGKsTq~~~L~~~l~~~g~~v~~~~   51 (220)
T PLN02924         13 ESRGALIVLE-GLDRSGKSTQCAKLVSFLKGLGVAAELWR   51 (220)
T ss_pred             CCCCeEEEEE-CCCCCCHHHHHHHHHHHHHhcCCCceeee
Confidence            3456788888 88999999999999999999999987664

>PRK00131 aroK shikimate kinase; Reviewed

Probab=94.46  E-value=0.047  Score=47.05  Aligned_cols=33  Identities=33%  Similarity=0.336  Sum_probs=25.6

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +.|.++ |..|+||||++..||..+   |.  .++|.|.
T Consensus         5 ~~i~l~-G~~GsGKstla~~La~~l---~~--~~~d~d~   37 (175)
T PRK00131          5 PNIVLI-GFMGAGKSTIGRLLAKRL---GY--DFIDTDH   37 (175)
T ss_pred             CeEEEE-cCCCCCHHHHHHHHHHHh---CC--CEEEChH
Confidence            466666 999999999999999987   43  4456663

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=94.43  E-value=0.072  Score=48.42  Aligned_cols=37  Identities=19%  Similarity=0.178  Sum_probs=32.5

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+.++ |..|+|||+++..++..+.+.|.++..+++..
T Consensus        44 ~~~l~-G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~   80 (227)
T PRK08903         44 FFYLW-GEAGSGRSHLLQALVADASYGGRNARYLDAAS   80 (227)
T ss_pred             eEEEE-CCCCCCHHHHHHHHHHHHHhCCCcEEEEehHH
Confidence            45555 99999999999999999988999999999865

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=94.39  E-value=0.51  Score=39.60  Aligned_cols=20  Identities=30%  Similarity=0.448  Sum_probs=16.1

Q ss_pred             EEEEeCcCCCCHHHHHHHHHH
Q 016622          176 VAVSSCKGGVGKSTVAVNLAY  196 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~  196 (386)
                      |+++ |..|+||||+.-.|+.
T Consensus         2 i~l~-G~~g~GKTtL~~~l~~   21 (170)
T cd01876           2 IAFA-GRSNVGKSSLINALTN   21 (170)
T ss_pred             EEEE-cCCCCCHHHHHHHHhc
Confidence            4555 8889999999987764

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.

>PRK04004 translation initiation factor IF-2; Validated

Probab=94.39  E-value=0.27  Score=51.34  Aligned_cols=65  Identities=17%  Similarity=0.128  Sum_probs=41.1

Q ss_pred             cEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          282 DYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       282 D~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      .+.|+|||+-.....+.......+|.+++|+.....-.......+..+...+.+++ +++|+++..
T Consensus        72 ~i~~iDTPG~e~f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~~~~~~vpiI-vviNK~D~~  136 (586)
T PRK04004         72 GLLFIDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTIEAINILKRRKTPFV-VAANKIDRI  136 (586)
T ss_pred             CEEEEECCChHHHHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHHHHHcCCCEE-EEEECcCCc
Confidence            47999999532222222222345799999988765323445555666777788854 888999863

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=94.38  E-value=0.73  Score=40.86  Aligned_cols=63  Identities=13%  Similarity=0.083  Sum_probs=35.2

Q ss_pred             CcEEEEcCCCCCCh------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          281 LDYLVIDMPPGTGD------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       281 yD~VIIDtpp~~~~------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      .++.++|+|+ .++      .-+....+..+|.+++|......  ..-...++.+++.+.++ -+|+||++..
T Consensus        52 ~~l~l~DtpG-~~~~~~~~~~~l~~~~~~~~d~~l~v~~~~~~--~~d~~~~~~l~~~~~~~-ilV~nK~D~~  120 (197)
T cd04104          52 PNVTLWDLPG-IGSTAFPPDDYLEEMKFSEYDFFIIISSTRFS--SNDVKLAKAIQCMGKKF-YFVRTKVDRD  120 (197)
T ss_pred             CCceEEeCCC-CCcccCCHHHHHHHhCccCcCEEEEEeCCCCC--HHHHHHHHHHHHhCCCE-EEEEecccch
Confidence            3678888874 321      11111123345777777543322  22245566677767665 4889999864

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

>cd04116 Rab9 Rab9 subfamily

Probab=94.35  E-value=0.64  Score=39.65  Aligned_cols=86  Identities=9%  Similarity=0.017  Sum_probs=45.9

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHc-------CCCCeEEEEEcCCcCCCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSK-------LKVPCIAVVENMCHFDADG  350 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~-------~~~~i~gvVlN~~~~~~~~  350 (386)
                      ..+.+.|+|+|+......+.......+|.+++|...+ ..++..+......+..       .+.+ +-+|.|+++.... 
T Consensus        52 ~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~-  129 (170)
T cd04116          52 HFVTLQIWDTAGQERFRSLRTPFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFP-FVVLGNKNDIPER-  129 (170)
T ss_pred             eEEEEEEEeCCChHHHHHhHHHHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCc-EEEEEECcccccc-
Confidence            3567889999853321122222234568888776544 3455555554443322       1344 4488999885421 


Q ss_pred             ceecccCCChHHHHHHHhCC
Q 016622          351 KRYYPFGRGSGSQVVQQFGI  370 (386)
Q Consensus       351 ~~~~~~~~~~~~~i~~~~g~  370 (386)
                          .......+++++.++.
T Consensus       130 ----~~~~~~~~~~~~~~~~  145 (170)
T cd04116         130 ----QVSTEEAQAWCRENGD  145 (170)
T ss_pred             ----ccCHHHHHHHHHHCCC
Confidence                1111345667777763

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

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=94.35  E-value=0.52  Score=49.06  Aligned_cols=90  Identities=13%  Similarity=0.103  Sum_probs=55.8

Q ss_pred             CCCcEEEEcCCCCCC------hHHHh--hhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCC
Q 016622          279 GELDYLVIDMPPGTG------DIQLT--LCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADG  350 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~------~~~~~--~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~  350 (386)
                      ..+++-|+|.|+..+      |...+  ...-.+.|.++-|+++.  .++.-..+.-++.+.|.+ +-+.+||+|..+..
T Consensus        48 ~~~~i~ivDLPG~YSL~~~S~DE~Var~~ll~~~~D~ivnVvDAt--nLeRnLyltlQLlE~g~p-~ilaLNm~D~A~~~  124 (653)
T COG0370          48 KGHEIEIVDLPGTYSLTAYSEDEKVARDFLLEGKPDLIVNVVDAT--NLERNLYLTLQLLELGIP-MILALNMIDEAKKR  124 (653)
T ss_pred             cCceEEEEeCCCcCCCCCCCchHHHHHHHHhcCCCCEEEEEcccc--hHHHHHHHHHHHHHcCCC-eEEEeccHhhHHhc
Confidence            567889999987332      22221  11112357777776554  444444444455678898 45888999865421


Q ss_pred             ceecccCCChHHHHHHHhCCCeEEec
Q 016622          351 KRYYPFGRGSGSQVVQQFGIPHLFDL  376 (386)
Q Consensus       351 ~~~~~~~~~~~~~i~~~~g~pvl~~I  376 (386)
                      ..     +-..+++++.+|+|++..+
T Consensus       125 Gi-----~ID~~~L~~~LGvPVv~tv  145 (653)
T COG0370         125 GI-----RIDIEKLSKLLGVPVVPTV  145 (653)
T ss_pred             CC-----cccHHHHHHHhCCCEEEEE
Confidence            11     2368899999999998654

>PRK08727 hypothetical protein; Validated

Probab=94.33  E-value=0.065  Score=49.13  Aligned_cols=37  Identities=19%  Similarity=0.260  Sum_probs=32.2

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .|.++ |..|+|||+++..++..+.++|++|.++.++-
T Consensus        43 ~l~l~-G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~   79 (233)
T PRK08727         43 WLYLS-GPAGTGKTHLALALCAAAEQAGRSSAYLPLQA   79 (233)
T ss_pred             eEEEE-CCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHH
Confidence            45555 88999999999999999999999999998753

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=94.33  E-value=0.14  Score=54.68  Aligned_cols=38  Identities=24%  Similarity=0.215  Sum_probs=32.7

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .|....|..|+||||++..++...++.|.+|++||+.-
T Consensus        61 siteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~   98 (790)
T PRK09519         61 RVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEH   98 (790)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCcc
Confidence            44444589999999999999999889999999999864

>cd00879 Sar1 Sar1 subfamily

Probab=94.29  E-value=0.72  Score=40.22  Aligned_cols=67  Identities=10%  Similarity=0.142  Sum_probs=36.1

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHc----CCCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSK----LKVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~  347 (386)
                      .+.+.++|+|+...........+..+|.+++|...... ++......+..+.+    .+.++ -++.||++..
T Consensus        62 ~~~~~l~D~~G~~~~~~~~~~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pv-ivv~NK~Dl~  133 (190)
T cd00879          62 NIKFKTFDLGGHEQARRLWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLSDEELANVPF-LILGNKIDLP  133 (190)
T ss_pred             CEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCCE-EEEEeCCCCC
Confidence            45678899875322211112223456888888776543 34434433333322    23554 4788999853

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.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=94.29  E-value=0.071  Score=50.99  Aligned_cols=38  Identities=24%  Similarity=0.202  Sum_probs=33.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      .+-+.++ |..|+|||.++..+|..++++|++|.++.+.
T Consensus       156 ~~gl~L~-G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~  193 (306)
T PRK08939        156 VKGLYLY-GDFGVGKSYLLAAIANELAKKGVSSTLLHFP  193 (306)
T ss_pred             CCeEEEE-CCCCCCHHHHHHHHHHHHHHcCCCEEEEEHH
Confidence            3456666 8899999999999999999999999999763

>PRK08181 transposase; Validated

Probab=94.29  E-value=0.068  Score=50.10  Aligned_cols=36  Identities=25%  Similarity=0.198  Sum_probs=31.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      +-+.++ |..|+|||.++..+|..+.++|++|+++.+
T Consensus       107 ~nlll~-Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~  142 (269)
T PRK08181        107 ANLLLF-GPPGGGKSHLAAAIGLALIENGWRVLFTRT  142 (269)
T ss_pred             ceEEEE-ecCCCcHHHHHHHHHHHHHHcCCceeeeeH
Confidence            456666 899999999999999999999999999976

>PRK08760 replicative DNA helicase; Provisional

Probab=94.27  E-value=0.067  Score=54.39  Aligned_cols=40  Identities=23%  Similarity=0.321  Sum_probs=34.0

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~~~  214 (386)
                      -+.|.++.+|+|||+++.++|...+ +.|++|+++.++...
T Consensus       230 ~LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlEMs~  270 (476)
T PRK08760        230 DLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMSA  270 (476)
T ss_pred             ceEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEeccCCH
Confidence            4556669999999999999999988 469999999988744

>PRK05642 DNA replication initiation factor; Validated

Probab=94.27  E-value=0.067  Score=49.09  Aligned_cols=37  Identities=16%  Similarity=0.196  Sum_probs=32.1

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+.++ |..|+|||.++..++..+.++|++|++++++-
T Consensus        47 ~l~l~-G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~   83 (234)
T PRK05642         47 LIYLW-GKDGVGRSHLLQAACLRFEQRGEPAVYLPLAE   83 (234)
T ss_pred             eEEEE-CCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHH
Confidence            44455 99999999999999999988899999999864

>cd04147 Ras_dva Ras-dva subfamily

Probab=94.26  E-value=0.18  Score=44.77  Aligned_cols=66  Identities=17%  Similarity=0.070  Sum_probs=39.2

Q ss_pred             CcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCC
Q 016622          281 LDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFD  347 (386)
Q Consensus       281 yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~  347 (386)
                      +.+.|+|+|+......+.......+|.+++|..... .++..+......+.+    .+.++ -+|.|+.+..
T Consensus        47 ~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~NK~Dl~  117 (198)
T cd04147          47 LTLDILDTSGSYSFPAMRKLSIQNSDAFALVYAVDDPESFEEVERLREEILEVKEDKFVPI-VVVGNKADSL  117 (198)
T ss_pred             EEEEEEECCCchhhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcE-EEEEEccccc
Confidence            567899998543322222222446789999887654 355556555444332    34554 4788998864

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.

>cd04177 RSR1 RSR1 subgroup

Probab=94.26  E-value=0.89  Score=38.79  Aligned_cols=89  Identities=16%  Similarity=0.244  Sum_probs=45.2

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceec
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      .+.+-|+|+|+......+....+..++.+++|... +..++.........+.+    .+.+++ ++.|+.+.......  
T Consensus        48 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~pii-iv~nK~D~~~~~~~--  124 (168)
T cd04177          48 QCDLEILDTAGTEQFTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMV-LVGNKADLEDDRQV--  124 (168)
T ss_pred             EEEEEEEeCCCcccchhhhHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCCEE-EEEEChhccccCcc--
Confidence            35678889985322111212223345777666544 34456666554444432    356655 67899875432111  


Q ss_pred             ccCCChHHHHHHHhC-CCeE
Q 016622          355 PFGRGSGSQVVQQFG-IPHL  373 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g-~pvl  373 (386)
                        .......+.+.++ ++++
T Consensus       125 --~~~~~~~~~~~~~~~~~~  142 (168)
T cd04177         125 --SREDGVSLSQQWGNVPFY  142 (168)
T ss_pred             --CHHHHHHHHHHcCCceEE
Confidence              1123345556666 4544

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=94.21  E-value=0.88  Score=38.23  Aligned_cols=67  Identities=15%  Similarity=0.156  Sum_probs=38.3

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHH-Hc---CCCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMF-SK---LKVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l-~~---~~~~i~gvVlN~~~~~  347 (386)
                      .+.+.++|+|+...........+..+|.+++|...... ++......+..+ +.   .+.+ +-+|+|+++..
T Consensus        43 ~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~  114 (160)
T cd04156          43 HLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVP-VVLLANKQDLP  114 (160)
T ss_pred             ceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCC-EEEEEECcccc
Confidence            46789999985332212222224457888888876543 345554444333 22   2445 45889998853

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

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=94.12  E-value=0.32  Score=42.95  Aligned_cols=96  Identities=18%  Similarity=0.240  Sum_probs=58.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF  252 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~  252 (386)
                      +..|.|. +-.|+|||++...+-..|..+ +++.+|..|.+...-..++                ...  .+..++....
T Consensus        13 ~~~i~v~-Gp~GSGKTaLie~~~~~L~~~-~~~aVI~~Di~t~~Da~~l----------------~~~--~g~~i~~v~T   72 (202)
T COG0378          13 MLRIGVG-GPPGSGKTALIEKTLRALKDE-YKIAVITGDIYTKEDADRL----------------RKL--PGEPIIGVET   72 (202)
T ss_pred             eEEEEec-CCCCcCHHHHHHHHHHHHHhh-CCeEEEeceeechhhHHHH----------------HhC--CCCeeEEecc
Confidence            3577776 889999999999999999887 9999999998762211111                000  1222222111


Q ss_pred             CCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCC
Q 016622          253 SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGT  292 (386)
Q Consensus       253 ~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~  292 (386)
                       +... -....+....++++....  ...|++||...+.+
T Consensus        73 -G~~C-H~da~m~~~ai~~l~~~~--~~~Dll~iEs~GNL  108 (202)
T COG0378          73 -GKGC-HLDASMNLEAIEELVLDF--PDLDLLFIESVGNL  108 (202)
T ss_pred             -CCcc-CCcHHHHHHHHHHHhhcC--CcCCEEEEecCcce
Confidence             1111 123344556677776543  23799999987633

>smart00053 DYNc Dynamin, GTPase

Probab=94.09  E-value=1  Score=41.44  Aligned_cols=69  Identities=20%  Similarity=0.091  Sum_probs=40.5

Q ss_pred             CCcEEEEcCCCCCC----h--H--HH-----hhhhhc-CCCeEEEEeCCCc-chHHHHHHHHHHHHcCCCCeEEEEEcCC
Q 016622          280 ELDYLVIDMPPGTG----D--I--QL-----TLCQVV-PLTAAVIVTTPQK-LAFIDVAKGVRMFSKLKVPCIAVVENMC  344 (386)
Q Consensus       280 ~yD~VIIDtpp~~~----~--~--~~-----~~~~~~-~~d~vviV~~~~~-~s~~~~~~~~~~l~~~~~~i~gvVlN~~  344 (386)
                      ..|+.|||+|+-..    +  .  ..     ....+. ..+.+++|+.... ..-.+..++.+.++..+.+.++| +||+
T Consensus       124 ~~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~~~~rti~V-iTK~  202 (240)
T smart00053      124 VLNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDPQGERTIGV-ITKL  202 (240)
T ss_pred             CCceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHHcCCcEEEE-EECC
Confidence            48999999997431    1  0  00     111122 2345566664432 23345678888888888887755 4998


Q ss_pred             cCCCC
Q 016622          345 HFDAD  349 (386)
Q Consensus       345 ~~~~~  349 (386)
                      +....
T Consensus       203 D~~~~  207 (240)
T smart00053      203 DLMDE  207 (240)
T ss_pred             CCCCc
Confidence            86543

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=94.08  E-value=0.095  Score=51.87  Aligned_cols=41  Identities=22%  Similarity=0.386  Sum_probs=34.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      +-+|+|. |..|+||||++..|...+...|.++..|..|-..
T Consensus       212 PlIIGIs-G~qGSGKSTLa~~L~~lL~~~g~~vgvISiDDfY  252 (460)
T PLN03046        212 PLVIGFS-APQGCGKTTLVFALDYLFRVTGRKSATLSIDDFY  252 (460)
T ss_pred             CEEEEEE-CCCCCCHHHHHHHHHHHhcccCCceEEEEECCcc
Confidence            4567776 8899999999999998888778899999887543

>PLN03108 Rab family protein; Provisional

Probab=94.05  E-value=0.36  Score=43.33  Aligned_cols=88  Identities=13%  Similarity=0.167  Sum_probs=46.6

Q ss_pred             CcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceeccc
Q 016622          281 LDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYPF  356 (386)
Q Consensus       281 yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~~  356 (386)
                      +.+-|+|+++......+.......+|.+++|...... ++..+...+..+.+.   +.++ -+|.|+.+......    .
T Consensus        55 i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~pi-iiv~nK~Dl~~~~~----~  129 (210)
T PLN03108         55 IKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTI-MLIGNKCDLAHRRA----V  129 (210)
T ss_pred             EEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCCCCcE-EEEEECccCccccC----C
Confidence            4567888875332222222224456888888776543 445444444433322   3444 47889988643211    1


Q ss_pred             CCChHHHHHHHhCCCeE
Q 016622          357 GRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       357 ~~~~~~~i~~~~g~pvl  373 (386)
                      .....+++++.++++++
T Consensus       130 ~~~~~~~~~~~~~~~~~  146 (210)
T PLN03108        130 STEEGEQFAKEHGLIFM  146 (210)
T ss_pred             CHHHHHHHHHHcCCEEE
Confidence            11345667777776654

>TIGR00235 udk uridine kinase

Probab=94.03  E-value=0.082  Score=47.42  Aligned_cols=38  Identities=29%  Similarity=0.404  Sum_probs=29.4

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      +.+|+|+ |..|+||||++..|+..+..  ..+.++..|..
T Consensus         6 g~vi~I~-G~sGsGKSTl~~~l~~~l~~--~~~~~i~~D~~   43 (207)
T TIGR00235         6 GIIIGIG-GGSGSGKTTVARKIYEQLGK--LEIVIISQDNY   43 (207)
T ss_pred             eEEEEEE-CCCCCCHHHHHHHHHHHhcc--cCCeEeccccc
Confidence            3577777 89999999999999987754  45667766654

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>cd04159 Arl10_like Arl10-like subfamily

Probab=93.99  E-value=2.7  Score=34.65  Aligned_cols=67  Identities=15%  Similarity=0.066  Sum_probs=35.6

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHH-Hc---CCCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMF-SK---LKVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l-~~---~~~~i~gvVlN~~~~~  347 (386)
                      .+.+.++|+|+...........+..+|.+++|..... .+.......+..+ ..   .+.++ -+|.|+.+..
T Consensus        43 ~~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~-iiv~nK~D~~  114 (159)
T cd04159          43 NVTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAADRTALEAAKNELHDLLEKPSLEGIPL-LVLGNKNDLP  114 (159)
T ss_pred             CEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhcCCCE-EEEEeCcccc
Confidence            4567888988532211111122345688888877654 3333333333332 21   24554 4788998853

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.

>TIGR00665 DnaB replicative DNA helicase

Probab=93.99  E-value=0.094  Score=52.71  Aligned_cols=40  Identities=23%  Similarity=0.335  Sum_probs=34.3

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHH-CCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAG-MGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~-~G~rVllID~D~~~  214 (386)
                      -+.+.++.+|+|||+++.++|..++. .|++|+++.++...
T Consensus       196 ~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm~~  236 (434)
T TIGR00665       196 DLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEMSA  236 (434)
T ss_pred             eEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcCCH
Confidence            45566699999999999999999885 69999999998744

This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.

>PRK04040 adenylate kinase; Provisional

Probab=93.98  E-value=0.081  Score=46.85  Aligned_cols=31  Identities=29%  Similarity=0.329  Sum_probs=24.8

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARV  205 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rV  205 (386)
                      +++|+|+ |..|+||||++..|+..+. .|.++
T Consensus         2 ~~~i~v~-G~pG~GKtt~~~~l~~~l~-~~~~~   32 (188)
T PRK04040          2 MKVVVVT-GVPGVGKTTVLNKALEKLK-EDYKI   32 (188)
T ss_pred             CeEEEEE-eCCCCCHHHHHHHHHHHhc-cCCeE
Confidence            4677777 8999999999999999885 24444

>PRK03003 GTP-binding protein Der; Reviewed

Probab=93.98  E-value=0.24  Score=50.36  Aligned_cols=44  Identities=11%  Similarity=0.075  Sum_probs=28.9

Q ss_pred             hcCCCeEEEEeCCCcc-hHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          302 VVPLTAAVIVTTPQKL-AFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       302 ~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +..+|.+++|...... +..+. +.+..+...+.+++ +|+||++..
T Consensus       291 i~~ad~vilV~Da~~~~s~~~~-~~~~~~~~~~~piI-iV~NK~Dl~  335 (472)
T PRK03003        291 IEAAEVAVVLIDASEPISEQDQ-RVLSMVIEAGRALV-LAFNKWDLV  335 (472)
T ss_pred             HhcCCEEEEEEeCCCCCCHHHH-HHHHHHHHcCCCEE-EEEECcccC
Confidence            3467899999887653 33333 45556666666654 788998864

>PRK08006 replicative DNA helicase; Provisional

Probab=93.97  E-value=0.091  Score=53.32  Aligned_cols=40  Identities=28%  Similarity=0.332  Sum_probs=34.1

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~~~  214 (386)
                      -+.|.++.+|.|||+++.|+|..+| +.|++|+++.+....
T Consensus       225 ~LiiIaarPgmGKTafalnia~~~a~~~g~~V~~fSlEM~~  265 (471)
T PRK08006        225 DLIIVAARPSMGKTTFAMNLCENAAMLQDKPVLIFSLEMPG  265 (471)
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHHhcCCeEEEEeccCCH
Confidence            4556669999999999999999998 469999999888644

>PRK07933 thymidylate kinase; Validated

Probab=93.96  E-value=0.1  Score=47.09  Aligned_cols=36  Identities=25%  Similarity=0.366  Sum_probs=31.7

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      .|+|- |--|+||||++..|+..|..+|++|.++.-.
T Consensus         2 ~IviE-G~dGsGKST~~~~L~~~L~~~g~~v~~~~~P   37 (213)
T PRK07933          2 LIAIE-GVDGAGKRTLTEALRAALEARGRSVATLAFP   37 (213)
T ss_pred             EEEEE-cCCCCCHHHHHHHHHHHHHHCCCeEEEEecC
Confidence            56666 7789999999999999999999999998764

>cd04134 Rho3 Rho3 subfamily

Probab=93.95  E-value=0.44  Score=41.81  Aligned_cols=69  Identities=9%  Similarity=0.040  Sum_probs=37.9

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCC-CcchHHHHHH-HHHHHHcC--CCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAK-GVRMFSKL--KVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~-~~~~l~~~--~~~i~gvVlN~~~~~~  348 (386)
                      ..+++.|+|+++......+.......+|.+++|... +..++..+.. .+..+.+.  +.+ +-+|.|+++...
T Consensus        46 ~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~~~~~p-iilvgNK~Dl~~  118 (189)
T cd04134          46 LHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFSVDSPDSLENVESKWLGEIREHCPGVK-LVLVALKCDLRE  118 (189)
T ss_pred             EEEEEEEEECCCChhccccccccccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEEChhhcc
Confidence            346788999986432111111123356788777554 3345655542 34444432  444 558899988643

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.

>COG2759 MIS1 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]

Probab=93.93  E-value=0.057  Score=53.07  Aligned_cols=50  Identities=24%  Similarity=0.374  Sum_probs=41.1

Q ss_pred             CceEEEEEeCc---CCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCc
Q 016622          172 ISNIVAVSSCK---GGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPE  224 (386)
Q Consensus       172 ~~kvI~v~s~k---GGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~  224 (386)
                      .+|.|.|++-.   -|+||||++..|+.+|.+.|+++.+-   .+.||+.-.||..
T Consensus        51 ~gKlILVTaitPTPaGEGKsTttiGL~~al~~lgK~~i~a---lRePSlGP~fGiK  103 (554)
T COG2759          51 DGKLILVTAITPTPAGEGKTTTTIGLVDALNKLGKKAIIA---LREPSLGPVFGIK  103 (554)
T ss_pred             CceEEEEEecCCCCCCCCcceeeehHHHHHHhcCchheEE---eccCCcCCccccc
Confidence            46788877654   49999999999999999999998865   6778887777654

>COG1084 Predicted GTPase [General function prediction only]

Probab=93.92  E-value=0.55  Score=44.71  Aligned_cols=68  Identities=19%  Similarity=0.231  Sum_probs=41.9

Q ss_pred             CCCcEEEEcCCCCCCh-------HHH-hhhhhc-CCCeEEEEeCCCcchHHHHHHHHHHHHcC----CCCeEEEEEcCCc
Q 016622          279 GELDYLVIDMPPGTGD-------IQL-TLCQVV-PLTAAVIVTTPQKLAFIDVAKGVRMFSKL----KVPCIAVVENMCH  345 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~-------~~~-~~~~~~-~~d~vviV~~~~~~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~  345 (386)
                      +.+.+=+||||+-++-       ... ++.++. -.+.++++.+|+..+...+..-..++++.    + ..+-+|+|+.+
T Consensus       213 ~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~-~p~v~V~nK~D  291 (346)
T COG1084         213 GYLRIQVIDTPGLLDRPLEERNEIERQAILALRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFK-APIVVVINKID  291 (346)
T ss_pred             CCceEEEecCCcccCCChHHhcHHHHHHHHHHHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcC-CCeEEEEeccc
Confidence            4557889999976541       100 111111 13778889999988766666555555442    3 44668999988


Q ss_pred             CC
Q 016622          346 FD  347 (386)
Q Consensus       346 ~~  347 (386)
                      ..
T Consensus       292 ~~  293 (346)
T COG1084         292 IA  293 (346)
T ss_pred             cc
Confidence            54

>PF13173 AAA_14: AAA domain

Probab=93.92  E-value=0.089  Score=43.26  Aligned_cols=39  Identities=26%  Similarity=0.260  Sum_probs=31.6

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      ++++++ |.-|+||||++.+++..+. ...+++.+|+|-..
T Consensus         3 ~~~~l~-G~R~vGKTtll~~~~~~~~-~~~~~~yi~~~~~~   41 (128)
T PF13173_consen    3 KIIILT-GPRGVGKTTLLKQLAKDLL-PPENILYINFDDPR   41 (128)
T ss_pred             CeEEEE-CCCCCCHHHHHHHHHHHhc-ccccceeeccCCHH
Confidence            466666 7779999999999998887 56789999988543

>PRK06893 DNA replication initiation factor; Validated

Probab=93.88  E-value=0.089  Score=48.07  Aligned_cols=36  Identities=8%  Similarity=-0.087  Sum_probs=32.0

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      .+.++ |..|+|||+++..+|..+.++|.+|.+++++
T Consensus        41 ~l~l~-G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~   76 (229)
T PRK06893         41 FFYIW-GGKSSGKSHLLKAVSNHYLLNQRTAIYIPLS   76 (229)
T ss_pred             eEEEE-CCCCCCHHHHHHHHHHHHHHcCCCeEEeeHH
Confidence            44555 9999999999999999999999999999985

>PRK06921 hypothetical protein; Provisional

Probab=93.88  E-value=0.11  Score=48.74  Aligned_cols=37  Identities=27%  Similarity=0.279  Sum_probs=32.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHC-CCcEEEEEc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFDA  210 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~-G~rVllID~  210 (386)
                      ...+.++ |..|+|||+++..+|..+.++ |++|+++.+
T Consensus       117 ~~~l~l~-G~~G~GKThLa~aia~~l~~~~g~~v~y~~~  154 (266)
T PRK06921        117 KNSIALL-GQPGSGKTHLLTAAANELMRKKGVPVLYFPF  154 (266)
T ss_pred             CCeEEEE-CCCCCcHHHHHHHHHHHHhhhcCceEEEEEH
Confidence            3467776 889999999999999999987 999999875

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=93.87  E-value=0.16  Score=48.49  Aligned_cols=66  Identities=15%  Similarity=0.179  Sum_probs=49.4

Q ss_pred             EEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          283 YLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       283 ~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      |-=+|||+-.+-.--.+......|+.|+|+.+.......++..+-+.++.|++.+-+.+|+++...
T Consensus       119 YaH~DCPGHADYIKNMItGaaqMDGaILVVaatDG~MPQTrEHlLLArQVGV~~ivvfiNKvD~V~  184 (449)
T KOG0460|consen  119 YAHTDCPGHADYIKNMITGAAQMDGAILVVAATDGPMPQTREHLLLARQVGVKHIVVFINKVDLVD  184 (449)
T ss_pred             cccCCCCchHHHHHHhhcCccccCceEEEEEcCCCCCcchHHHHHHHHHcCCceEEEEEecccccC
Confidence            445799853222222233344569999999988888889999999999999999999999998653

>PF06418 CTP_synth_N: CTP synthase N-terminus; InterPro: IPR017456 CTP synthase is involved in pyrimidine ribonucleotide/ribonucleoside metabolism, catalysing the synthesis of CTP from UTP by amination of the pyrimidine ring at the 4-position []

Probab=93.87  E-value=2  Score=39.80  Aligned_cols=43  Identities=23%  Similarity=0.341  Sum_probs=33.6

Q ss_pred             eEEEEEeC-cCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCC
Q 016622          174 NIVAVSSC-KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPS  216 (386)
Q Consensus       174 kvI~v~s~-kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~s  216 (386)
                      |-|.|++| -.|.||=.+|+.++..|..+|++|.++.+||+-+-
T Consensus         2 KyIfVtGGV~SglGKGi~aaSig~lLk~~G~~V~~~K~DPYlNv   45 (276)
T PF06418_consen    2 KYIFVTGGVVSGLGKGITAASIGRLLKSRGYKVTMIKIDPYLNV   45 (276)
T ss_dssp             EEEEEEE-SSSSSSHHHHHHHHHHHHHCTT--EEEEEEE-SSSS
T ss_pred             cEEEEeCCccccccHHHHHHHHHHHHHhCCeeeeeeeecccccc
Confidence            56777755 47999999999999999999999999999997543

The enzyme exists as a dimer of identical chains that aggregates as a tetramer. This gene has been found roughly 500 bp upstream of enolase in both beta (Nitrosomonas europaea) and gamma (Escherichia coli) subdivisions of Proteobacterium [].; GO: 0003883 CTP synthase activity, 0006221 pyrimidine nucleotide biosynthetic process; PDB: 2VO1_A 3NVA_B 1VCN_A 1VCO_A 1VCM_A 3IHL_B 2AD5_A 1S1M_B.

>cd04149 Arf6 Arf6 subfamily

Probab=93.86  E-value=0.98  Score=38.81  Aligned_cols=68  Identities=9%  Similarity=0.015  Sum_probs=40.3

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHH-HcC---CCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMF-SKL---KVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l-~~~---~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|+|+......+....+..+|.+++|...... ++.++.+.+..+ .+.   +.+ +-+|.|+++..
T Consensus        51 ~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~NK~Dl~  123 (168)
T cd04149          51 KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDAL-LLVFANKQDLP  123 (168)
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCc-EEEEEECcCCc
Confidence            356789999985432222222224567999999887653 455555544333 221   344 56899999853

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

>PF05729 NACHT: NACHT domain

Probab=93.83  E-value=0.075  Score=45.06  Aligned_cols=27  Identities=37%  Similarity=0.386  Sum_probs=23.0

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMG  202 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G  202 (386)
                      ++.|+ |.+|+||||++..++..++..+
T Consensus         2 ~l~I~-G~~G~GKStll~~~~~~~~~~~   28 (166)
T PF05729_consen    2 VLWIS-GEPGSGKSTLLRKLAQQLAEEE   28 (166)
T ss_pred             EEEEE-CCCCCChHHHHHHHHHHHHhcC
Confidence            44454 9999999999999999999765

>PRK11058 GTPase HflX; Provisional

Probab=93.82  E-value=0.83  Score=45.81  Aligned_cols=65  Identities=12%  Similarity=0.100  Sum_probs=36.1

Q ss_pred             cEEEEcCCCCCCh--------HHHhhhhhcCCCeEEEEeCCCcch-HHHH---HHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          282 DYLVIDMPPGTGD--------IQLTLCQVVPLTAAVIVTTPQKLA-FIDV---AKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       282 D~VIIDtpp~~~~--------~~~~~~~~~~~d~vviV~~~~~~s-~~~~---~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      .++|+||++....        ...+......+|.+++|+...... ....   .+.++.+...+.+++ +|+||++..
T Consensus       246 ~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvI-iV~NKiDL~  322 (426)
T PRK11058        246 ETVLADTVGFIRHLPHDLVAAFKATLQETRQATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTL-LVMNKIDML  322 (426)
T ss_pred             eEEEEecCcccccCCHHHHHHHHHHHHHhhcCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEE-EEEEcccCC
Confidence            5788898864221        111112234578888888875542 2333   233444433345555 788999863

>PF12846 AAA_10: AAA-like domain

Probab=93.80  E-value=0.089  Score=49.41  Aligned_cols=35  Identities=40%  Similarity=0.485  Sum_probs=30.9

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      ++|+ |+.|+||||+..++...+...|.+++++|..
T Consensus         4 ~~i~-G~tGsGKT~~~~~l~~~~~~~g~~~~i~D~~   38 (304)
T PF12846_consen    4 TLIL-GKTGSGKTTLLKNLLEQLIRRGPRVVIFDPK   38 (304)
T ss_pred             EEEE-CCCCCcHHHHHHHHHHHHHHcCCCEEEEcCC
Confidence            3444 9999999999999999999999999999754

>PTZ00035 Rad51 protein; Provisional

Probab=93.79  E-value=0.11  Score=50.51  Aligned_cols=38  Identities=18%  Similarity=0.105  Sum_probs=30.0

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHH------CCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAG------MGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~------~G~rVllID~D~  212 (386)
                      .++.|+ |..|+||||++..|+.....      .+.+|++||..-
T Consensus       119 ~iteI~-G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~  162 (337)
T PTZ00035        119 SITELF-GEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEG  162 (337)
T ss_pred             eEEEEE-CCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccC
Confidence            455555 89999999999999877652      467999999864

>COG1663 LpxK Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]

Probab=93.76  E-value=0.42  Score=45.80  Aligned_cols=41  Identities=34%  Similarity=0.561  Sum_probs=34.9

Q ss_pred             eEEEEEe-CcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          174 NIVAVSS-CKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s-~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      .||+|-+ .-||.|||-++..||..|.++|.++.++.=...+
T Consensus        48 PVI~VGNltvGGtGKTP~vi~la~~l~~rG~~~gvvSRGYgg   89 (336)
T COG1663          48 PVICVGNLTVGGTGKTPVVIWLAEALQARGVRVGVVSRGYGG   89 (336)
T ss_pred             CEEEEccEEECCCCcCHHHHHHHHHHHhcCCeeEEEecCcCC
Confidence            4777755 4699999999999999999999999999876544

>PRK06547 hypothetical protein; Provisional

Probab=93.75  E-value=0.085  Score=46.02  Aligned_cols=36  Identities=28%  Similarity=0.279  Sum_probs=26.4

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      .+.+|+|. |..|+||||++..|+..+   |  +.++++|-.
T Consensus        14 ~~~~i~i~-G~~GsGKTt~a~~l~~~~---~--~~~~~~d~~   49 (172)
T PRK06547         14 GMITVLID-GRSGSGKTTLAGALAART---G--FQLVHLDDL   49 (172)
T ss_pred             CCEEEEEE-CCCCCCHHHHHHHHHHHh---C--CCeecccce
Confidence            34577777 899999999999998864   3  445566643

>PLN02796 D-glycerate 3-kinase

Probab=93.74  E-value=0.11  Score=50.21  Aligned_cols=38  Identities=26%  Similarity=0.485  Sum_probs=32.1

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      -+|+|. |..|+||||++..|+..+...|.++..|-.|-
T Consensus       101 liIGI~-G~sGSGKSTLa~~L~~lL~~~g~~~g~IsiDd  138 (347)
T PLN02796        101 LVIGIS-APQGCGKTTLVFALVYLFNATGRRAASLSIDD  138 (347)
T ss_pred             EEEEEE-CCCCCcHHHHHHHHHHHhcccCCceeEEEECC
Confidence            467776 88999999999999999987788888887764

>PRK05748 replicative DNA helicase; Provisional

Probab=93.72  E-value=0.1  Score=52.71  Aligned_cols=41  Identities=24%  Similarity=0.382  Sum_probs=34.5

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVYGP  215 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~~~~  215 (386)
                      -+.+.++.+|.|||+++.++|...+ +.|++|+++.+.....
T Consensus       204 ~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSlEms~~  245 (448)
T PRK05748        204 DLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEMGAE  245 (448)
T ss_pred             ceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeCCCCHH
Confidence            4555669999999999999999988 5699999999887543

>PRK08840 replicative DNA helicase; Provisional

Probab=93.68  E-value=0.11  Score=52.64  Aligned_cols=40  Identities=25%  Similarity=0.319  Sum_probs=34.2

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~~~  214 (386)
                      -+.|.++.+|.|||+++.|+|...| ++|++|+++.+....
T Consensus       218 ~LiviaarPg~GKTafalnia~~~a~~~~~~v~~fSlEMs~  258 (464)
T PRK08840        218 DLIIVAARPSMGKTTFAMNLCENAAMDQDKPVLIFSLEMPA  258 (464)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHHHHHhCCCeEEEEeccCCH
Confidence            5556669999999999999999998 569999999988643

>PRK06904 replicative DNA helicase; Validated

Probab=93.65  E-value=0.11  Score=52.90  Aligned_cols=40  Identities=23%  Similarity=0.271  Sum_probs=34.0

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHH-CCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAG-MGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~-~G~rVllID~D~~~  214 (386)
                      -+.|.++.+|+|||+++.|+|...|. .|++|+++-+....
T Consensus       222 ~LiiIaarPg~GKTafalnia~~~a~~~g~~Vl~fSlEMs~  262 (472)
T PRK06904        222 DLIIVAARPSMGKTTFAMNLCENAAMASEKPVLVFSLEMPA  262 (472)
T ss_pred             cEEEEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEeccCCH
Confidence            45566699999999999999999884 69999999888643

>PTZ00386 formyl tetrahydrofolate synthetase; Provisional

Probab=93.60  E-value=0.1  Score=53.13  Aligned_cols=50  Identities=24%  Similarity=0.238  Sum_probs=40.0

Q ss_pred             CceEEEEEe---CcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCCCCCCCccCCCc
Q 016622          172 ISNIVAVSS---CKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVYGPSLPTMVSPE  224 (386)
Q Consensus       172 ~~kvI~v~s---~kGGvGKTTla~~LA~~La-~~G~rVllID~D~~~~sl~~~lg~~  224 (386)
                      .+|.|.|++   ..-|+||||++..|+.+|. +.|+++.+.   ++.||+.-.||..
T Consensus        67 ~gklIlVTaitPTP~GEGKtTttIGL~~aL~~~lgk~~~~~---lRePSlGP~FGiK  120 (625)
T PTZ00386         67 NGKYVVVAGMNPTPLGEGKSTTTIGLAQSLGAHLHRKTFAC---IRQPSQGPTFGIK  120 (625)
T ss_pred             CCcEEEEeecCCCCCCCCccchhhhhHHHHHHHhCcceEEE---EecCCcCCcCCcc
Confidence            356776665   4559999999999999999 789999876   6778887777654

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

Probab=93.59  E-value=0.73  Score=38.26  Aligned_cols=66  Identities=14%  Similarity=0.038  Sum_probs=35.8

Q ss_pred             CCCcEEEEcCCCCCChH--------HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDI--------QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~--------~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +.+.+.++|||+.....        .........+|.+++|.......-..-.+.+..  ..+.+ +-+|+|+.+..
T Consensus        47 ~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~d~~~~~~~~~~~~~~~--~~~~~-vi~v~nK~D~~  120 (157)
T cd04164          47 GGIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADLVLFVIDASRGLDEEDLEILEL--PADKP-IIVVLNKSDLL  120 (157)
T ss_pred             CCEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCCHHHHHHHHh--hcCCC-EEEEEEchhcC
Confidence            45678999998632110        011122345788888888774222222222222  23444 45888998854

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.

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

Probab=93.58  E-value=0.095  Score=55.35  Aligned_cols=45  Identities=27%  Similarity=0.284  Sum_probs=38.2

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSL  217 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl  217 (386)
                      ++++|.++ |..|+||||+|..|+..|...|..+.++|.|..+..+
T Consensus       459 ~~~~i~~~-G~~gsGKst~a~~l~~~l~~~~~~~~~l~~D~~r~~l  503 (632)
T PRK05506        459 KPATVWFT-GLSGSGKSTIANLVERRLHALGRHTYLLDGDNVRHGL  503 (632)
T ss_pred             CcEEEEec-CCCCchHHHHHHHHHHHHHHcCCCEEEEcChhhhhcc
Confidence            45677776 9999999999999999998889999999999866443

>PRK06761 hypothetical protein; Provisional

Probab=93.57  E-value=0.098  Score=49.30  Aligned_cols=39  Identities=26%  Similarity=0.409  Sum_probs=31.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEE-EEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGI-FDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVll-ID~D~  212 (386)
                      +++|.|. |..|+||||++..|+..|...|.++-. .+.|.
T Consensus         3 ~~lIvI~-G~~GsGKTTla~~L~~~L~~~g~~v~~~~~~~~   42 (282)
T PRK06761          3 TKLIIIE-GLPGFGKSTTAKMLNDILSQNGIEVELYLEGNL   42 (282)
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHhcCcCceEEEEEecCCC
Confidence            3566666 889999999999999999888888875 55554

>KOG2743 consensus Cobalamin synthesis protein [Coenzyme transport and metabolism]

Probab=93.56  E-value=1.4  Score=41.61  Aligned_cols=49  Identities=14%  Similarity=0.187  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhc--------CCCeEEEEeCCC
Q 016622          265 VSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVV--------PLTAAVIVTTPQ  315 (386)
Q Consensus       265 ~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~--------~~d~vviV~~~~  315 (386)
                      .-++++++.+  +.++||+|++.|.+-..+..+.-..+.        ..|+++-|+.+.
T Consensus       132 gvraie~lvq--kkGkfD~IllETTGlAnPaPia~~Fw~dd~l~sdVkLDGIVTvvD~K  188 (391)
T KOG2743|consen  132 GVRAIENLVQ--KKGKFDHILLETTGLANPAPIASMFWLDDELGSDVKLDGIVTVVDAK  188 (391)
T ss_pred             HHHHHHHHHh--cCCCcceEEEeccCCCCcHHHHHHHhhhhhhcCceeeeeEEEEEehh
Confidence            3467788877  348999999999854333222111111        257888887653

>PRK08116 hypothetical protein; Validated

Probab=93.55  E-value=0.12  Score=48.42  Aligned_cols=36  Identities=22%  Similarity=0.165  Sum_probs=31.2

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      -+.++ |..|+|||.++..+|..+.++|++|+++++.
T Consensus       116 gl~l~-G~~GtGKThLa~aia~~l~~~~~~v~~~~~~  151 (268)
T PRK08116        116 GLLLW-GSVGTGKTYLAACIANELIEKGVPVIFVNFP  151 (268)
T ss_pred             eEEEE-CCCCCCHHHHHHHHHHHHHHcCCeEEEEEHH
Confidence            35555 8899999999999999999889999999753

>PRK07261 topology modulation protein; Provisional

Probab=93.54  E-value=0.094  Score=45.61  Aligned_cols=23  Identities=35%  Similarity=0.395  Sum_probs=19.2

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      .|+|+ |.+|+||||+|..|+..+
T Consensus         2 ri~i~-G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAII-GYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEE-cCCCCCHHHHHHHHHHHh
Confidence            46777 899999999999987654

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

Probab=93.54  E-value=0.76  Score=48.03  Aligned_cols=65  Identities=15%  Similarity=0.106  Sum_probs=41.1

Q ss_pred             cEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          282 DYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       282 D~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      .+.|+|||+--....+.......+|.+++|+..+..-.......++.++..+.+++ +++|+++..
T Consensus        70 ~l~~iDTpG~e~f~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~l~~~~vpiI-Vv~NK~Dl~  134 (590)
T TIGR00491        70 GLLFIDTPGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYKTPFV-VAANKIDRI  134 (590)
T ss_pred             cEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCcCCCHhHHHHHHHHHHcCCCEE-EEEECCCcc
Confidence            48999999632222222222345799999988764322334455566677788754 888999864

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=93.52  E-value=1.8  Score=43.28  Aligned_cols=66  Identities=17%  Similarity=0.104  Sum_probs=39.2

Q ss_pred             CCcEEEEcCCCCCC---h----HHHhhhhhcCCCeEEEEeCCCc----chHHHHHHHHHHHHcC-----CCCeEEEEEcC
Q 016622          280 ELDYLVIDMPPGTG---D----IQLTLCQVVPLTAAVIVTTPQK----LAFIDVAKGVRMFSKL-----KVPCIAVVENM  343 (386)
Q Consensus       280 ~yD~VIIDtpp~~~---~----~~~~~~~~~~~d~vviV~~~~~----~s~~~~~~~~~~l~~~-----~~~i~gvVlN~  343 (386)
                      .+.++|+|+|+-..   .    ....+..+..++.+++|+....    ....+.....+.|...     +.+ .-+|+|+
T Consensus       205 ~~~~~laD~PGliega~~~~gLg~~fLrhier~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP-~IVV~NK  283 (424)
T PRK12297        205 GRSFVMADIPGLIEGASEGVGLGHQFLRHIERTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERP-QIVVANK  283 (424)
T ss_pred             CceEEEEECCCCcccccccchHHHHHHHHHhhCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCc-EEEEEeC
Confidence            45789999986321   0    1111222345788888888743    3455555655555542     344 4489999


Q ss_pred             CcC
Q 016622          344 CHF  346 (386)
Q Consensus       344 ~~~  346 (386)
                      ++.
T Consensus       284 ~DL  286 (424)
T PRK12297        284 MDL  286 (424)
T ss_pred             CCC
Confidence            985

>cd01874 Cdc42 Cdc42 subfamily

Probab=93.51  E-value=0.78  Score=39.76  Aligned_cols=68  Identities=12%  Similarity=0.045  Sum_probs=39.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHH-HHHHHHcC--CCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAK-GVRMFSKL--KVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~-~~~~l~~~--~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|+++.-....+.......+|.+++|.... ..++..+.. .+..+++.  +.++ -+|.|+++..
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~~~~~pi-ilvgnK~Dl~  118 (175)
T cd01874          47 EPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPF-LLVGTQIDLR  118 (175)
T ss_pred             EEEEEEEEECCCccchhhhhhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCE-EEEEECHhhh
Confidence            3577889999864322112212244678888887643 345666643 44444432  4444 5899998853

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

>cd01893 Miro1 Miro1 subfamily

Probab=93.51  E-value=1.4  Score=37.49  Aligned_cols=69  Identities=16%  Similarity=0.221  Sum_probs=39.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHH-HHHHHHHcC--CCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVA-KGVRMFSKL--KVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~-~~~~~l~~~--~~~i~gvVlN~~~~~~  348 (386)
                      ..+++.|+|+|+...........+..+|.+++|.... ..++..+. .....+++.  +.+ +-+|.|+++...
T Consensus        45 ~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~p-viiv~nK~Dl~~  117 (166)
T cd01893          45 ERVPTTIVDTSSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLGVKVP-IILVGNKSDLRD  117 (166)
T ss_pred             CeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEEchhccc
Confidence            5678999999854322111122245678888887654 34555543 233444432  444 457889988643

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.

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=93.50  E-value=0.13  Score=50.01  Aligned_cols=38  Identities=18%  Similarity=0.125  Sum_probs=30.0

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHH------CCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAG------MGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~------~G~rVllID~D~  212 (386)
                      .|.-..|..|+|||+++.+||...+.      .+.+|++||..-
T Consensus       127 ~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~  170 (344)
T PLN03187        127 CITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEG  170 (344)
T ss_pred             eEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCC
Confidence            55555599999999999999976652      136999999964

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=93.50  E-value=0.098  Score=45.21  Aligned_cols=35  Identities=31%  Similarity=0.448  Sum_probs=27.2

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      |++.|.++ |-.|+||||++..||..+   |.  -++|.|.
T Consensus         1 ~~~~i~~~-G~~GsGKst~~~~la~~l---g~--~~~d~D~   35 (171)
T PRK03731          1 MTQPLFLV-GARGCGKTTVGMALAQAL---GY--RFVDTDQ   35 (171)
T ss_pred             CCCeEEEE-CCCCCCHHHHHHHHHHHh---CC--CEEEccH
Confidence            34567776 899999999999999877   54  3578775

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=93.45  E-value=0.37  Score=39.08  Aligned_cols=69  Identities=10%  Similarity=-0.015  Sum_probs=39.3

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchH-HHHHHH----HHHHHcCCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAF-IDVAKG----VRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~-~~~~~~----~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ..+++.++|+|+..............+|.+++|........ ......    .......+.++ -+|+|+++...
T Consensus        43 ~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~-ivv~nk~D~~~  116 (157)
T cd00882          43 KKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVTDRESFENVKEWLLLILINKEGENIPI-ILVGNKIDLPE  116 (157)
T ss_pred             EEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCcE-EEEEecccccc
Confidence            46789999998633222222223445788888887766432 333222    22223345554 47789988654

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

>cd04126 Rab20 Rab20 subfamily

Probab=93.44  E-value=2.5  Score=38.36  Aligned_cols=68  Identities=12%  Similarity=0.053  Sum_probs=40.9

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~  347 (386)
                      ..|++.|+|+++.-....+.......+|.+++|..... .++..+...+..+.+.   +.+ +-+|.|+++..
T Consensus        42 ~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~~~p-iIlVgNK~DL~  113 (220)
T cd04126          42 GPYNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCL-FAVVGNKLDLT  113 (220)
T ss_pred             eEEEEEEEeCCCcccchhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECcccc
Confidence            45788999998643322222222445788888877554 4666665544444332   233 55899998864

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=93.43  E-value=0.57  Score=42.36  Aligned_cols=68  Identities=16%  Similarity=0.197  Sum_probs=38.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC--CCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL--KVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~  347 (386)
                      ..+.+-|+|+++.-....+.......+|.+++|..... .++..+...++.+.+.  +.+ +-+|.|+.+..
T Consensus        60 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~~~~p-iilvgNK~Dl~  130 (219)
T PLN03071         60 GKIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVCENIP-IVLCGNKVDVK  130 (219)
T ss_pred             eEEEEEEEECCCchhhhhhhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCc-EEEEEEchhhh
Confidence            34678899998533211111111345677787766544 4566666555555432  344 45888998853

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=93.42  E-value=0.093  Score=45.37  Aligned_cols=20  Identities=40%  Similarity=0.597  Sum_probs=18.0

Q ss_pred             EEEEEeCcCCCCHHHHHHHHH
Q 016622          175 IVAVSSCKGGVGKSTVAVNLA  195 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA  195 (386)
                      .|+|+ |-+|+||||++-.|+
T Consensus         2 ~I~IT-GTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAIT-GTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEe-CCCCCchHHHHHHHH
Confidence            68888 899999999998887

>PRK14490 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional

Probab=93.37  E-value=0.18  Score=49.52  Aligned_cols=37  Identities=24%  Similarity=0.296  Sum_probs=33.1

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      -+|+|+ |..|+||||++..|...|..+ ++|.++.-+.
T Consensus         6 ~~i~i~-G~~gsGKTTl~~~l~~~l~~~-~~V~~ik~~~   42 (369)
T PRK14490          6 FEIAFC-GYSGSGKTTLITALVRRLSER-FSVGYYKHGC   42 (369)
T ss_pred             EEEEEE-eCCCCCHHHHHHHHHHHHhhC-ceEEEEEeCC
Confidence            489998 778999999999999999988 9999998644

>PTZ00301 uridine kinase; Provisional

Probab=93.37  E-value=0.21  Score=45.02  Aligned_cols=40  Identities=28%  Similarity=0.549  Sum_probs=30.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHH-CC-CcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAG-MG-ARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~-~G-~rVllID~D~~~  214 (386)
                      .+|+|+ |-.|+||||+|..|+..+.. .| ..|.++-.|-+.
T Consensus         4 ~iIgIa-G~SgSGKTTla~~l~~~l~~~~~~~~~~vi~~D~yy   45 (210)
T PTZ00301          4 TVIGIS-GASGSGKSSLSTNIVSELMAHCGPVSIGVICEDFYY   45 (210)
T ss_pred             EEEEEE-CCCcCCHHHHHHHHHHHHHhhcCCCeEEEeCCCCCc
Confidence            478887 88899999999999988854 34 346677777654

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=93.36  E-value=0.12  Score=53.72  Aligned_cols=41  Identities=34%  Similarity=0.383  Sum_probs=35.4

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHH-CCCcEEEEEcCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAG-MGARVGIFDADVYG  214 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~-~G~rVllID~D~~~  214 (386)
                      +.+|.++ |..|+||||++..||..|.. .|.++.++|.|.-+
T Consensus       392 g~~Ivl~-Gl~GSGKSTia~~La~~L~~~~g~~~~~lD~D~vr  433 (568)
T PRK05537        392 GFTVFFT-GLSGAGKSTIAKALMVKLMEMRGRPVTLLDGDVVR  433 (568)
T ss_pred             CeEEEEE-CCCCChHHHHHHHHHHHhhhccCceEEEeCCcHHH
Confidence            4577776 99999999999999999986 78889999999654

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=93.35  E-value=1.1  Score=44.28  Aligned_cols=65  Identities=12%  Similarity=0.008  Sum_probs=36.9

Q ss_pred             cEEEEcCCCCCCh-------HHHhhhhhcCCCeEEEEeCCC----cchHHHHHHHHHHHHcC-----CCCeEEEEEcCCc
Q 016622          282 DYLVIDMPPGTGD-------IQLTLCQVVPLTAAVIVTTPQ----KLAFIDVAKGVRMFSKL-----KVPCIAVVENMCH  345 (386)
Q Consensus       282 D~VIIDtpp~~~~-------~~~~~~~~~~~d~vviV~~~~----~~s~~~~~~~~~~l~~~-----~~~i~gvVlN~~~  345 (386)
                      .++++|+|+-...       ....+..+..+|.+++|+...    .....+.....+.+.+.     +.+ .-+|+|+++
T Consensus       208 ~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP-~IlVlNKiD  286 (390)
T PRK12298        208 SFVVADIPGLIEGASEGAGLGIRFLKHLERCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKP-RWLVFNKID  286 (390)
T ss_pred             EEEEEeCCCccccccchhhHHHHHHHHHHhCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCC-EEEEEeCCc
Confidence            4889999863321       011122344578888888654    23445555555555543     344 447889988


Q ss_pred             CC
Q 016622          346 FD  347 (386)
Q Consensus       346 ~~  347 (386)
                      ..
T Consensus       287 l~  288 (390)
T PRK12298        287 LL  288 (390)
T ss_pred             cC
Confidence            53

>PRK06321 replicative DNA helicase; Provisional

Probab=93.34  E-value=0.13  Score=52.09  Aligned_cols=40  Identities=23%  Similarity=0.371  Sum_probs=34.1

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~~~  214 (386)
                      -+.|.++.+|+|||+++.++|..+| +.|++|+++.+....
T Consensus       227 ~LiiiaarPgmGKTafal~ia~~~a~~~g~~v~~fSLEMs~  267 (472)
T PRK06321        227 NLMILAARPAMGKTALALNIAENFCFQNRLPVGIFSLEMTV  267 (472)
T ss_pred             cEEEEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEeccCCH
Confidence            4556669999999999999999998 569999999888744

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=93.32  E-value=1.9  Score=39.24  Aligned_cols=95  Identities=13%  Similarity=0.079  Sum_probs=52.0

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHH-HHHHcC--CCCeEEEEEcCCcCCCCCc---
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGV-RMFSKL--KVPCIAVVENMCHFDADGK---  351 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~-~~l~~~--~~~i~gvVlN~~~~~~~~~---  351 (386)
                      ..+.+-|+||++......+.......+|.+++|..... .++..+...+ ..++..  +.+ +-+|.|+++......   
T Consensus        47 ~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~~~~p-iiLVgnK~DL~~~~~~~~  125 (222)
T cd04173          47 RRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFCPNAK-VVLVGCKLDMRTDLATLR  125 (222)
T ss_pred             EEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCC-EEEEEECcccccchhhhh
Confidence            45678899998643222222222446788888877554 4566664332 233322  444 448889998643210   


Q ss_pred             -----eecccCCChHHHHHHHhCC-CeEE
Q 016622          352 -----RYYPFGRGSGSQVVQQFGI-PHLF  374 (386)
Q Consensus       352 -----~~~~~~~~~~~~i~~~~g~-pvl~  374 (386)
                           ..........+.+++.+|. +++.
T Consensus       126 ~~~~~~~~pIs~e~g~~~ak~~~~~~y~E  154 (222)
T cd04173         126 ELSKQRLIPVTHEQGTVLAKQVGAVSYVE  154 (222)
T ss_pred             hhhhccCCccCHHHHHHHHHHcCCCEEEE
Confidence                 0011223456777778774 5554

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

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

Probab=93.31  E-value=0.55  Score=39.63  Aligned_cols=93  Identities=16%  Similarity=0.109  Sum_probs=57.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHcCC--CCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSKLK--VPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~~~--~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+-|+|+++......+.......+|.++++... +..++..+...+..+....  ...+.+|.|+.+.....    .
T Consensus        46 ~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~~----~  121 (162)
T PF00071_consen   46 KPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFDVTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDER----E  121 (162)
T ss_dssp             EEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGGGS----S
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccceeeeccccccccc----c
Confidence            567788999875432222222334567888887654 4456777777777665543  24677888998865411    1


Q ss_pred             cCCChHHHHHHHhCCCeEEe
Q 016622          356 FGRGSGSQVVQQFGIPHLFD  375 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~~  375 (386)
                      ......+++++.++.+++..
T Consensus       122 v~~~~~~~~~~~~~~~~~e~  141 (162)
T PF00071_consen  122 VSVEEAQEFAKELGVPYFEV  141 (162)
T ss_dssp             SCHHHHHHHHHHTTSEEEEE
T ss_pred             chhhHHHHHHHHhCCEEEEE
Confidence            12235678888888777653

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 ....

>PRK08084 DNA replication initiation factor; Provisional

Probab=93.31  E-value=0.13  Score=47.25  Aligned_cols=37  Identities=22%  Similarity=0.292  Sum_probs=32.7

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+.++ |..|+|||+++..++..+.+.|++|.++.++.
T Consensus        47 ~l~l~-Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~   83 (235)
T PRK08084         47 YIYLW-SREGAGRSHLLHAACAELSQRGRAVGYVPLDK   83 (235)
T ss_pred             eEEEE-CCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHH
Confidence            45555 89999999999999999998999999999975

>cd00157 Rho Rho (Ras homology) family

Probab=93.26  E-value=0.24  Score=42.19  Aligned_cols=69  Identities=13%  Similarity=0.092  Sum_probs=39.0

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHH-HHHHHHcC--CCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAK-GVRMFSKL--KVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~-~~~~l~~~--~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.++|+|+...........+..+|.+++|...+. .+...... .+..+...  +.+ +-+|.|+++...
T Consensus        46 ~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~  118 (171)
T cd00157          46 KQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHYCPNVP-IILVGTKIDLRD  118 (171)
T ss_pred             EEEEEEEEeCCCcccccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCC-EEEEEccHHhhh
Confidence            46778999998643211111112345788888888765 44444333 23333332  344 458889988543

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

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=93.24  E-value=0.13  Score=46.13  Aligned_cols=34  Identities=44%  Similarity=0.492  Sum_probs=25.8

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      |+.+|++| |+.|+||||++-    .|++.|..|  ||+|-
T Consensus         1 ~~~iIglT-G~igsGKStva~----~~~~~G~~v--idaD~   34 (201)
T COG0237           1 MMLIIGLT-GGIGSGKSTVAK----ILAELGFPV--IDADD   34 (201)
T ss_pred             CceEEEEe-cCCCCCHHHHHH----HHHHcCCeE--EEccH
Confidence            56799999 999999999875    444556655  67764

>PRK00698 tmk thymidylate kinase; Validated

Probab=93.23  E-value=0.19  Score=44.59  Aligned_cols=35  Identities=26%  Similarity=0.215  Sum_probs=29.6

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIF  208 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllI  208 (386)
                      ++.|+|. |--|+||||++..|+..|...|+.+...
T Consensus         3 ~~~I~ie-G~~gsGKsT~~~~L~~~l~~~~~~~~~~   37 (205)
T PRK00698          3 GMFITIE-GIDGAGKSTQIELLKELLEQQGRDVVFT   37 (205)
T ss_pred             ceEEEEE-CCCCCCHHHHHHHHHHHHHHcCCceeEe
Confidence            3577777 8899999999999999999888776654

>PRK06851 hypothetical protein; Provisional

Probab=93.22  E-value=0.34  Score=47.44  Aligned_cols=47  Identities=23%  Similarity=0.288  Sum_probs=37.4

Q ss_pred             cCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCC
Q 016622          170 QKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSL  217 (386)
Q Consensus       170 ~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl  217 (386)
                      ....+++.++ |..|+||||+...++..+.++|++|.+.=|-..-.++
T Consensus       211 ~~~~~~~~i~-G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~~dPdsl  257 (367)
T PRK06851        211 EGVKNRYFLK-GRPGTGKSTMLKKIAKAAEERGFDVEVYHCGFDPDSL  257 (367)
T ss_pred             cccceEEEEe-CCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCCCCc
Confidence            3445666666 9999999999999999999999999999775433334

>cd01870 RhoA_like RhoA-like subfamily

Probab=93.16  E-value=1.1  Score=38.20  Aligned_cols=68  Identities=9%  Similarity=0.038  Sum_probs=35.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHH-HHHHHHc--CCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAK-GVRMFSK--LKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~-~~~~l~~--~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+||++.-.-.......+..+|.+++|...+ ..++..+.. ....+++  .+.++ -+|.|+.+..
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl~  118 (175)
T cd01870          47 KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI-ILVGNKKDLR  118 (175)
T ss_pred             EEEEEEEEeCCCchhhhhccccccCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCE-EEEeeChhcc
Confidence            3567889999853211111111234567777765544 334444432 3334443  24554 4888998853

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

>COG2229 Predicted GTPase [General function prediction only]

Probab=93.14  E-value=3.2  Score=36.28  Aligned_cols=67  Identities=7%  Similarity=0.103  Sum_probs=38.2

Q ss_pred             CCCcEEEEcCCCCCCh-HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCC-CCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGD-IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLK-VPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~-~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~-~~i~gvVlN~~~~~  347 (386)
                      +++-+=++|||+-.-- ..+.. ....++++++++.....--..+..+++.+.... ++ +.|..|+.+..
T Consensus        66 ~~~~v~LfgtPGq~RF~fm~~~-l~~ga~gaivlVDss~~~~~~a~~ii~f~~~~~~ip-~vVa~NK~DL~  134 (187)
T COG2229          66 EDTGVHLFGTPGQERFKFMWEI-LSRGAVGAIVLVDSSRPITFHAEEIIDFLTSRNPIP-VVVAINKQDLF  134 (187)
T ss_pred             CcceEEEecCCCcHHHHHHHHH-HhCCcceEEEEEecCCCcchHHHHHHHHHhhccCCC-EEEEeeccccC
Confidence            4466677777753211 11111 122356666666655544447788888887776 55 45777887743

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=93.11  E-value=0.53  Score=50.46  Aligned_cols=68  Identities=16%  Similarity=0.048  Sum_probs=39.6

Q ss_pred             CCCcEEEEcCCCCC-------ChHHH----hhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGT-------GDIQL----TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~-------~~~~~----~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ...++.++|||+..       +....    ....+..+|.+++|.......-..-.+.+..+.+.+.+++ +|+||.+..
T Consensus       496 ~~~~~~liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~advvilViDat~~~s~~~~~i~~~~~~~~~piI-iV~NK~DL~  574 (712)
T PRK09518        496 DGEDWLFIDTAGIKRRQHKLTGAEYYSSLRTQAAIERSELALFLFDASQPISEQDLKVMSMAVDAGRALV-LVFNKWDLM  574 (712)
T ss_pred             CCCEEEEEECCCcccCcccchhHHHHHHHHHHHHhhcCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEE-EEEEchhcC
Confidence            44568899998521       11111    1122345788999887765422222345556666677755 888998853

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=93.11  E-value=0.094  Score=46.37  Aligned_cols=33  Identities=27%  Similarity=0.328  Sum_probs=25.7

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      |+|. |..|+||||+|..|+..+.    .+.+|..|-.
T Consensus         2 i~i~-G~sgsGKTtla~~l~~~~~----~~~~i~~Ddf   34 (187)
T cd02024           2 VGIS-GVTNSGKTTLAKLLQRILP----NCCVIHQDDF   34 (187)
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHcC----CCeEEccccc
Confidence            5665 8999999999999998862    4677777643

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=93.10  E-value=0.17  Score=43.96  Aligned_cols=32  Identities=31%  Similarity=0.428  Sum_probs=26.0

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEE
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIF  208 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllI  208 (386)
                      |.+| |+.|+||||+...+...|...|.+|.-+
T Consensus         2 i~iT-G~pG~GKTTll~k~i~~l~~~~~~v~Gf   33 (168)
T PF03266_consen    2 IFIT-GPPGVGKTTLLKKVIEELKKKGLPVGGF   33 (168)
T ss_dssp             EEEE-S-TTSSHHHHHHHHHHHHHHTCGGEEEE
T ss_pred             EEEE-CcCCCCHHHHHHHHHHHhhccCCccceE
Confidence            4555 9999999999999999999888777544

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>PRK00081 coaE dephospho-CoA kinase; Reviewed

Probab=93.09  E-value=0.12  Score=45.84  Aligned_cols=35  Identities=40%  Similarity=0.470  Sum_probs=27.3

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      ||++|+++ |.-|+||||++..|+.    .|.  -++|+|.-
T Consensus         1 ~~~~i~lt-G~~gsGKst~~~~l~~----~g~--~~i~~D~~   35 (194)
T PRK00081          1 MMLIIGLT-GGIGSGKSTVANLFAE----LGA--PVIDADAI   35 (194)
T ss_pred             CCeEEEEE-CCCCCCHHHHHHHHHH----cCC--EEEEecHH
Confidence            45688888 8889999999987765    365  56888863

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=93.08  E-value=0.12  Score=52.51  Aligned_cols=68  Identities=10%  Similarity=0.124  Sum_probs=44.9

Q ss_pred             CCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +.+.++|||||+ ..+. ......+..+|.+++|+.....-.....+....+...+.+.+-+++||++..
T Consensus       105 ~~~~i~~iDTPG-h~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~~l~~~lg~~~iIvvvNKiD~~  173 (474)
T PRK05124        105 EKRKFIIADTPG-HEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHSFIATLLGIKHLVVAVNKMDLV  173 (474)
T ss_pred             CCcEEEEEECCC-cHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHHHHHHHhCCCceEEEEEeeccc
Confidence            577899999996 3322 1122334567999999887654333345555666666766566899999864

>KOG3381 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.07  E-value=0.34  Score=40.46  Aligned_cols=59  Identities=14%  Similarity=0.337  Sum_probs=45.6

Q ss_pred             CcccHHHHHHHhccCCCCCCCCCccccCCeeEEEEe--c---CC--CeEEEEEEeCCCCCCchHHH
Q 016622           73 TGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQIN--E---AL--GEVSFRLELTTPACPIKDMF  131 (386)
Q Consensus        73 ~~~~~~~i~~~L~~V~dPe~~~div~lg~V~~v~~~--~---~~--~~v~v~l~lt~~~cp~~~~i  131 (386)
                      .....+.+.+.++.|+|||-+..+-+|+.|+.-.++  +   ..  .-|.|.+++|-|.|+++-.|
T Consensus        32 ~~~~~~~~~dlir~I~DPEhP~TLeqL~VV~ee~v~V~d~~~~~~~s~V~i~ftPTipHCSmaTlI   97 (161)
T KOG3381|consen   32 DSEDAEEIFDLIRDIRDPEHPLTLEQLNVVSEEGVEVDDPNVGDEESYVRITFTPTIPHCSMATLI   97 (161)
T ss_pred             cchhHHHHHHHHhccCCCCCCccHHHccceeecceEeecCCCCCcceEEEEEeccCCCcchHHhhh
Confidence            455777899999999999999988888888654443  2   11  25889999999999977544

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=93.06  E-value=0.17  Score=45.13  Aligned_cols=34  Identities=29%  Similarity=0.356  Sum_probs=27.5

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      +..+ .|..|+||||+...++..+...|++|+++-
T Consensus        20 ~~~l-~G~aGtGKT~~l~~~~~~~~~~g~~v~~~a   53 (196)
T PF13604_consen   20 VSVL-QGPAGTGKTTLLKALAEALEAAGKRVIGLA   53 (196)
T ss_dssp             EEEE-EESTTSTHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             EEEE-EECCCCCHHHHHHHHHHHHHhCCCeEEEEC
Confidence            4445 488999999999999999999999999884

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=93.05  E-value=0.11  Score=46.74  Aligned_cols=34  Identities=21%  Similarity=0.352  Sum_probs=26.3

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHH--------HHCCCcEEEEE
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTL--------AGMGARVGIFD  209 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~L--------a~~G~rVllID  209 (386)
                      +.+..|-+|+||||+.+.++..+        ...+.+++++-
T Consensus        19 ~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~   60 (236)
T PF13086_consen   19 ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVS   60 (236)
T ss_dssp             -EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEE
T ss_pred             CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeec
Confidence            67777999999999999999988        46788888875

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

Probab=93.04  E-value=0.59  Score=40.02  Aligned_cols=68  Identities=15%  Similarity=0.166  Sum_probs=40.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC--CCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL--KVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.++|+++.-....+.-.....+|.+++|..... .++..+...++.+.+.  +.++ -+|.|+++..
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~pi-iiv~nK~Dl~  117 (166)
T cd00877          47 GKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDVTSRVTYKNVPNWHRDLVRVCGNIPI-VLCGNKVDIK  117 (166)
T ss_pred             EEEEEEEEECCCChhhccccHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCcE-EEEEEchhcc
Confidence            45778899998532111111122345788888877654 3555565555555443  4555 4888999864

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

>PRK09165 replicative DNA helicase; Provisional

Probab=93.03  E-value=0.15  Score=52.16  Aligned_cols=40  Identities=25%  Similarity=0.466  Sum_probs=33.5

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHC---------------CCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGM---------------GARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~---------------G~rVllID~D~~~  214 (386)
                      -+.+.++.+|.||||++.++|...|+.               |++|+++-+....
T Consensus       218 ~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlEMs~  272 (497)
T PRK09165        218 DLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEMSA  272 (497)
T ss_pred             ceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCcCCH
Confidence            455666999999999999999999853               7899999887754

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=93.02  E-value=0.17  Score=41.18  Aligned_cols=32  Identities=31%  Similarity=0.277  Sum_probs=25.4

Q ss_pred             EEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          177 AVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       177 ~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .++ |..|+||||++..+|..+   |..++-+|+..
T Consensus         2 ll~-G~~G~GKT~l~~~la~~l---~~~~~~i~~~~   33 (132)
T PF00004_consen    2 LLH-GPPGTGKTTLARALAQYL---GFPFIEIDGSE   33 (132)
T ss_dssp             EEE-SSTTSSHHHHHHHHHHHT---TSEEEEEETTH
T ss_pred             EEE-CcCCCCeeHHHHHHHhhc---ccccccccccc
Confidence            344 889999999999999987   56777776653

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=93.01  E-value=0.11  Score=49.43  Aligned_cols=36  Identities=25%  Similarity=0.165  Sum_probs=27.3

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      +++|.+ .|..|+||||+|..|+..+.    ....+|.|..
T Consensus         2 ~~liil-~G~pGSGKSTla~~L~~~~~----~~~~l~~D~~   37 (300)
T PHA02530          2 MKIILT-VGVPGSGKSTWAREFAAKNP----KAVNVNRDDL   37 (300)
T ss_pred             cEEEEE-EcCCCCCHHHHHHHHHHHCC----CCEEEeccHH
Confidence            345555 59999999999999988762    4678887764

>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=92.99  E-value=0.092  Score=43.65  Aligned_cols=31  Identities=32%  Similarity=0.341  Sum_probs=24.3

Q ss_pred             EEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          177 AVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       177 ~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+..|..|+||||++..|+..+.     ..+||.|.
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~~-----~~~i~~D~   32 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRLG-----AVVISQDE   32 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHST-----EEEEEHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHCC-----CEEEeHHH
Confidence            34459999999999988876553     67788886

...

>PRK13946 shikimate kinase; Provisional

Probab=92.99  E-value=0.13  Score=45.26  Aligned_cols=33  Identities=42%  Similarity=0.476  Sum_probs=26.6

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +.|.++ |..|+||||++..||..|   |.+  ++|.|.
T Consensus        11 ~~I~l~-G~~GsGKsti~~~LA~~L---g~~--~id~D~   43 (184)
T PRK13946         11 RTVVLV-GLMGAGKSTVGRRLATML---GLP--FLDADT   43 (184)
T ss_pred             CeEEEE-CCCCCCHHHHHHHHHHHc---CCC--eECcCH
Confidence            467777 889999999999999888   555  577774

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=92.99  E-value=0.15  Score=48.75  Aligned_cols=38  Identities=24%  Similarity=0.317  Sum_probs=30.1

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHH------CCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAG------MGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~------~G~rVllID~D~  212 (386)
                      .++-|+ |..|+|||+++.++|...+.      .+.+|++||+.-
T Consensus        96 ~i~ei~-G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~  139 (310)
T TIGR02236        96 AITEVF-GEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTEN  139 (310)
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCC
Confidence            455555 99999999999999988763      234999999975

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]

Probab=92.98  E-value=0.52  Score=41.38  Aligned_cols=34  Identities=38%  Similarity=0.551  Sum_probs=28.3

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      |.|. .-.|-||||-|..+|....-+|+||+++-.
T Consensus        31 i~V~-TG~GKGKTTAAlG~alRa~GhG~rv~vvQF   64 (198)
T COG2109          31 IIVF-TGNGKGKTTAALGLALRALGHGLRVGVVQF   64 (198)
T ss_pred             EEEE-ecCCCChhHHHHHHHHHHhcCCCEEEEEEE
Confidence            3343 456899999999999999999999999854

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=92.93  E-value=1.4  Score=42.92  Aligned_cols=67  Identities=16%  Similarity=0.075  Sum_probs=37.9

Q ss_pred             CCcEEEEcCCCCCCh---H-----HHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHcC---CCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGTGD---I-----QLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSKL---KVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~---~-----~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~  347 (386)
                      ...+.|+||++...+   .     ..+...+..+|.+++|+..... .........+.+++.   +.++ -+|+|+++..
T Consensus       236 ~~~i~l~DT~G~~~~l~~~lie~f~~tle~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~pi-IlV~NK~Dl~  314 (351)
T TIGR03156       236 GGEVLLTDTVGFIRDLPHELVAAFRATLEEVREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQ-LLVYNKIDLL  314 (351)
T ss_pred             CceEEEEecCcccccCCHHHHHHHHHHHHHHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCE-EEEEEeecCC
Confidence            456889999864221   0     1111224457999999876543 333333333444443   4454 4899999863

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).

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=92.93  E-value=0.11  Score=43.88  Aligned_cols=32  Identities=41%  Similarity=0.417  Sum_probs=24.8

Q ss_pred             EEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          178 VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       178 v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      +..|..|+||||+|..|+..+   |  ..++|.|...
T Consensus         3 ~l~G~~GsGKST~a~~l~~~~---~--~~~i~~D~~~   34 (150)
T cd02021           3 VVMGVSGSGKSTVGKALAERL---G--APFIDGDDLH   34 (150)
T ss_pred             EEEcCCCCCHHHHHHHHHhhc---C--CEEEeCcccc
Confidence            445999999999999998874   3  3567887655

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK05636 replicative DNA helicase; Provisional

Probab=92.88  E-value=0.17  Score=51.77  Aligned_cols=40  Identities=23%  Similarity=0.348  Sum_probs=33.8

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~~~  214 (386)
                      -+.+.++.+|+|||+++.++|...+ +.|++|+++.+....
T Consensus       266 ~Liiiaarpg~GKT~~al~~a~~~a~~~g~~v~~fSlEMs~  306 (505)
T PRK05636        266 QMIIVAARPGVGKSTLALDFMRSASIKHNKASVIFSLEMSK  306 (505)
T ss_pred             ceEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEEeeCCH
Confidence            4556669999999999999999888 568999999887644

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=92.85  E-value=0.1  Score=44.68  Aligned_cols=23  Identities=43%  Similarity=0.550  Sum_probs=19.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      +|+| ||++|+||||+|..||..+
T Consensus         2 ~ItI-sG~pGsG~TTva~~lAe~~   24 (179)
T COG1102           2 VITI-SGLPGSGKTTVARELAEHL   24 (179)
T ss_pred             EEEe-ccCCCCChhHHHHHHHHHh
Confidence            4555 5999999999999999877

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=92.79  E-value=2.2  Score=37.39  Aligned_cols=95  Identities=13%  Similarity=0.091  Sum_probs=53.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHH-HHHHHHHHcC--CCCeEEEEEcCCcCCCCC----
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDV-AKGVRMFSKL--KVPCIAVVENMCHFDADG----  350 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~-~~~~~~l~~~--~~~i~gvVlN~~~~~~~~----  350 (386)
                      ..+.+-|.||++.-....+.......+|.+++|...+. .++..+ ...++.+++.  +.+ +-+|.|+++.....    
T Consensus        51 ~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~~~~p-iilVgNK~DL~~~~~~~~  129 (182)
T cd04172          51 QRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTK-MLLVGCKSDLRTDLTTLV  129 (182)
T ss_pred             EEEEEEEEECCCchhhHhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCC-EEEEeEChhhhcChhhHH
Confidence            34678899998542211222222445788888876543 566665 4555555443  344 45889999864210    


Q ss_pred             ----ceecccCCChHHHHHHHhCC-CeEE
Q 016622          351 ----KRYYPFGRGSGSQVVQQFGI-PHLF  374 (386)
Q Consensus       351 ----~~~~~~~~~~~~~i~~~~g~-pvl~  374 (386)
                          .+........++++++.+|. +++.
T Consensus       130 ~~~~~~~~~v~~~~~~~~a~~~~~~~~~E  158 (182)
T cd04172         130 ELSNHRQTPVSYDQGANMAKQIGAATYIE  158 (182)
T ss_pred             HHHhcCCCCCCHHHHHHHHHHcCCCEEEE
Confidence                00011233567888888885 5553

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

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=92.76  E-value=0.13  Score=45.85  Aligned_cols=42  Identities=26%  Similarity=0.354  Sum_probs=30.0

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSL  217 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl  217 (386)
                      +++.|++|-+|+||||++..+...+.  +...+.||.|.....+
T Consensus        15 P~~~i~aG~~GsGKSt~~~~~~~~~~--~~~~v~i~~D~~r~~~   56 (199)
T PF06414_consen   15 PTLIIIAGQPGSGKSTLARQLLEEFG--GGGIVVIDADEFRQFH   56 (199)
T ss_dssp             -EEEEEES-TTSTTHHHHHHHHHHT---TT-SEEE-GGGGGGGS
T ss_pred             CEEEEEeCCCCCCHHHHHHHhhhhcc--CCCeEEEehHHHHHhc
Confidence            47777779999999999998877665  6788999999865433

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=92.68  E-value=0.14  Score=41.78  Aligned_cols=40  Identities=25%  Similarity=0.168  Sum_probs=29.9

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHC-----CCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGM-----GARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~-----G~rVllID~D~~~  214 (386)
                      .+.+..|..|+|||+++.+++..+...     ..+++.+++....
T Consensus         5 ~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   49 (131)
T PF13401_consen    5 RILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSR   49 (131)
T ss_dssp             --EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHS
T ss_pred             cccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCC
Confidence            344555999999999999999999864     6788888876544

>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=92.66  E-value=0.12  Score=41.80  Aligned_cols=20  Identities=45%  Similarity=0.439  Sum_probs=18.1

Q ss_pred             EeCcCCCCHHHHHHHHHHHH
Q 016622          179 SSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       179 ~s~kGGvGKTTla~~LA~~L  198 (386)
                      .+|..|+||||++..|+..+
T Consensus         3 i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    3 ISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEESTTSSHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHH
Confidence            34899999999999999998

...

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	386
3kb1_A	262	Crystal Structure Of The Nucleotide-Binding Protein		8e-39
2ph1_A	262	Crystal Structure Of Nucleotide-Binding Protein Af2		4e-36
3vx3_A	248	Crystal Structure Of [nife] Hydrogenase Maturation		7e-28
1uwd_A	103	Nmr Structure Of A Protein With Unknown Function Fr		5e-09
1hyq_A	263	Mind Bacterial Cell Division Regulator From A. Fulg		1e-05

>pdb|3KB1|A Chain A, Crystal Structure Of The Nucleotide-Binding Protein Af_226 In Complex With Adp From Archaeoglobus Fulgidus, Northeast Structural Genomics Consortium Target Gr157 Length = 262

Iteration: 1
 Score =  157 bits (398), Expect = 8e-39,   Method: Compositional matrix adjust.
 Identities = 90/221 (40%), Positives = 126/221 (57%), Gaps = 5/221 (2%)
Query: 163 EQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVS 222
           E + E L KI   +AV S KGGVGKSTV   LA   A  G +VGI DAD  GPS+P +  
Sbjct: 8   EDIKERLDKIGFRIAVXSGKGGVGKSTVTALLAVHYAKQGKKVGILDADFLGPSIPHLFG 67
Query: 223 PENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQGR---AIMRGPMVSGVINQLLTTTEWG 279
            E   + ++ E    + T+ LG+K+ S  F    R    I RGP+++G I + L    WG
Sbjct: 68  LEKGKVAVSDEGLEPVLTQRLGIKVXSIQFLLPKRETPVIWRGPLIAGXIREFLGRVAWG 127
Query: 280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAV 339
           ELDYL+ID+PPGTGD  LT+ Q      AVIV+TPQ+L    V K +    + K   + +
Sbjct: 128 ELDYLLIDLPPGTGDAPLTVXQDAKPNGAVIVSTPQELTAAVVEKAITXAEQTKTAVLGI 187
Query: 340 VENMCHFDAD--GKRYYPFGRGSGSQVVQQFGIPHLFDLPI 378
           VEN  +F+    G+R Y FG G  S++ +++ I  + ++PI
Sbjct: 188 VENXAYFECPNCGERTYLFGEGKASELARKYKIEFITEIPI 228

>pdb|2PH1|A Chain A, Crystal Structure Of Nucleotide-Binding Protein Af2382 From Archaeoglobus Fulgidus, Northeast Structural Genomics Target Gr165 Length = 262

Iteration: 1
 Score =  148 bits (374), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 84/222 (37%), Positives = 121/222 (54%), Gaps = 5/222 (2%)
Query: 163 EQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVS 222
           E++ E L KI + +AV S KGGVGKSTV   LA   A  G +VGI DAD  GPS+P +  
Sbjct: 8   EEIKERLGKIKSRIAVXSGKGGVGKSTVTALLAVHYARQGKKVGILDADFLGPSIPILFG 67
Query: 223 PENRLLEMNPEKRTIIPTEYLGVKLVSFGF---SGQGRAIMRGPMVSGVINQLLTTTEWG 279
             N  + ++ E    + T+  G+K+ S  F         I RGP+++G I + L    WG
Sbjct: 68  LRNARIAVSAEGLEPVLTQKYGIKVXSXQFLLPKENTPVIWRGPLIAGXIREFLGRVAWG 127
Query: 280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAV 339
           ELD+L+ID+PPGTGD  LT+ Q    T  V+V+TPQ+L  + V K +    +     + +
Sbjct: 128 ELDHLLIDLPPGTGDAPLTVXQDAKPTGVVVVSTPQELTAVIVEKAINXAEETNTSVLGL 187
Query: 340 VENMCHFDAD--GKRYYPFGRGSGSQVVQQFGIPHLFDLPIR 379
           VEN  +F     G + Y FG G G  + +++ I     +PI 
Sbjct: 188 VENXSYFVCPNCGHKSYIFGEGKGESLAKKYNIGFFTSIPIE 229

>pdb|3VX3|A Chain A, Crystal Structure Of [nife] Hydrogenase Maturation Protein Hypb From Thermococcus Kodakarensis Kod1 Length = 248

Iteration: 1
 Score =  121 bits (303), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 75/220 (34%), Positives = 113/220 (51%), Gaps = 16/220 (7%)
Query: 169 LQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLL 228
           L+ +  I+ V S KGGVGKS V+  LA  LA  G RVG+ D D +G S   ++  E +  
Sbjct: 15  LEGVKRIIPVVSGKGGVGKSLVSTTLALVLAEKGYRVGLLDLDFHGASDHVILGFEPK-- 72
Query: 229 EMNPEKRTIIPTEYLGVKLVSFGFSGQGRAI-MRGPMVSGVINQLLTTTEWGELDYLVID 287
           E   E R ++P    G+K ++  +  + R   +RG  +S  + +LLT T W ELDYLVID
Sbjct: 73  EFPEEDRGVVPPTVHGIKFMTIAYYTEDRPTPLRGKEISDALIELLTITRWDELDYLVID 132
Query: 288 MPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMC--- 344
           MPPG GD  L + + +     ++V TP KL+   V K + +  +     I VVENM    
Sbjct: 133 MPPGLGDQLLDVLRFLKRGEFLVVATPSKLSLNVVRKLIELLKEEGHKVIGVVENMKLRS 192
Query: 345 -HFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVS 383
              D +             ++ ++FG+P+L  +P  P + 
Sbjct: 193 EQLDDE---------KDVEKLAEEFGVPYLVGIPFYPDLD 223

>pdb|1UWD|A Chain A, Nmr Structure Of A Protein With Unknown Function From Thermotoga Maritima (Tm0487), Which Belongs To The Duf59 Family. Length = 103

Iteration: 1
 Score = 58.5 bits (140), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 32/86 (37%), Positives = 46/86 (53%), Gaps = 1/86 (1%)
Query: 71  VSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDM 130
           +S    + DVL AL  +ID + G D+VS G V D+QI++    V   + +TTP CP+  M
Sbjct: 2   MSKKVTKEDVLNALKNVIDFELGLDVVSLGLVYDIQIDDQ-NNVKVLMTMTTPMCPLAGM 60
Query: 131 FEQRANEVVLAIPWVNKVNVTMSAQP 156
               A E +  I  VN V V ++  P
Sbjct: 61  ILSDAEEAIKKIEGVNNVEVELTFDP 86

>pdb|1HYQ|A Chain A, Mind Bacterial Cell Division Regulator From A. Fulgidus Length = 263

Iteration: 1
 Score = 47.4 bits (111), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 50/176 (28%), Positives = 80/176 (45%), Gaps = 19/176 (10%)
Query: 176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPEN---RLLEMNP 232
           + V+S KGG GK+T+  NL   LA +G  V I DAD+   +L  ++  E     L  +  
Sbjct: 5   ITVASGKGGTGKTTITANLGVALAQLGHDVTIVDADITMANLELILGMEGLPVTLQNVLA 64
Query: 233 EKRTIIPTEYL---GVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMP 289
            +  I    Y+   GVK+V  G S +G        +  V+ Q++ +T     D L++D P
Sbjct: 65  GEARIDEAIYVGPGGVKVVPAGVSLEGLRKANPEKLEDVLTQIMEST-----DILLLDAP 119
Query: 290 PGTGDIQLTLCQVVPLTAA---VIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVEN 342
            G     L    V+ + AA   ++V  P+  +  D  K   +  +L    + VV N
Sbjct: 120 AG-----LERSAVIAIAAAQELLLVVNPEISSITDGLKTKIVAERLGTKVLGVVVN 170

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	386
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	4e-99
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	1e-23
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	2e-22
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	1e-17
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	4e-16
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	1e-14
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	1e-13
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	2e-12
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	3e-12
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	4e-12
1uwd_A	103	Hypothetical protein TM0487; similar to PAAD prote	4e-12
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	1e-11
3cq1_A	103	Putative uncharacterized protein TTHB138; DTDP-4-k	2e-11
3cwq_A	209	Para family chromosome partitioning protein; alpha	2e-11
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	2e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-10
3lno_A	108	Putative uncharacterized protein; alpha-beta fold,	3e-10
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	1e-09
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	3e-04
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	3e-08
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	5e-08
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	8e-08
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	1e-07
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	6e-07
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	8e-07
3ez9_A	403	Para; DNA binding, winged-HTH, partition, biosynth	4e-06
3igf_A	374	ALL4481 protein; two-domained protein consisting o	9e-06
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	2e-05
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	2e-05
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	6e-05
3end_A	307	Light-independent protochlorophyllide reductase ir	2e-04
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	2e-04

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A* Length = 262

 Score =  294 bits (755), Expect = 4e-99
 Identities = 86/225 (38%), Positives = 127/225 (56%), Gaps = 5/225 (2%)

Query: 163 EQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVS 222
           E++ E L KI + +AV S KGGVGKSTV   LA   A  G +VGI DAD  GPS+P +  
Sbjct: 8   EEIKERLGKIKSRIAVMSGKGGVGKSTVTALLAVHYARQGKKVGILDADFLGPSIPILFG 67

Query: 223 PENRLLEMNPEKRTIIPTEYLGVKLVSFGF--SGQGRA-IMRGPMVSGVINQLLTTTEWG 279
             N  + ++ E    + T+  G+K++S  F    +    I RGP+++G+I + L    WG
Sbjct: 68  LRNARIAVSAEGLEPVLTQKYGIKVMSMQFLLPKENTPVIWRGPLIAGMIREFLGRVAWG 127

Query: 280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAV 339
           ELD+L+ID+PPGTGD  LT+ Q    T  V+V+TPQ+L  + V K + M  +     + +
Sbjct: 128 ELDHLLIDLPPGTGDAPLTVMQDAKPTGVVVVSTPQELTAVIVEKAINMAEETNTSVLGL 187

Query: 340 VENMCHF--DADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTV 382
           VENM +F     G + Y FG G G  + +++ I     +PI   +
Sbjct: 188 VENMSYFVCPNCGHKSYIFGEGKGESLAKKYNIGFFTSIPIEEEL 232

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale} Length = 373

 Score =   99 bits (249), Expect = 1e-23
 Identities = 48/274 (17%), Positives = 89/274 (32%), Gaps = 46/274 (16%)

Query: 101 FVKDMQINEALGEVSFRLEL--TTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPAR 158
            VK+ +I+  + E  F ++       C +         E++     + K       Q   
Sbjct: 63  SVKEYRIDVLIAEEDFNIDKSEFKRNCGLAYFTGTPGIELIKDEIAICKY------QRVD 116

Query: 159 PIFAEQL------------PEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVG 206
            IF + L              G    S++V  +S  GGVG STVA   A   A MG +V 
Sbjct: 117 VIFKQILGVYSDMAANVATISGENDKSSVVIFTSPCGGVGTSTVAAACAIAHANMGKKVF 176

Query: 207 IFDADVYGPSLPTM--VSPENRLLE-----------MNPEKRTIIPTEYLGVKLVSFGFS 253
             + +  G +            + +           +  +  + I     GV   S    
Sbjct: 177 YLNIEQCG-TTDVFFQAEGNATMSDVIYSLKSRKANLLLKLESCIKQSQEGVSYFSSTKV 235

Query: 254 GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAA---VI 310
                 +    +  +I  +         D +++D+P      +L L     L+ A   ++
Sbjct: 236 ALDILEISYADIDTLIGNIQ---GMDNYDEIIVDLPFSLEIEKLKL-----LSKAWRIIV 287

Query: 311 VTTPQKLAFIDVAKGVRMFSKL-KVPCIAVVENM 343
           V    +L+     +       L +   I ++ NM
Sbjct: 288 VNDGSQLSNYKFMRAYESVVLLEQNDDINIIRNM 321

>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* Length = 254

 Score = 94.4 bits (235), Expect = 2e-22
 Identities = 34/204 (16%), Positives = 66/204 (32%), Gaps = 32/204 (15%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR-------- 226
            +AV+  KGGVGK+TVA  L   +A    ++   D D     L   +             
Sbjct: 2   KLAVAG-KGGVGKTTVAAGLIKIMASDYDKIYAVDGDP-DSCLGQTLGLSIEEAYAITPL 59

Query: 227 ---------------LLEMNPEKRTIIPTEYL----GVKLVSFGFSGQGRAIMRGPMVSG 267
                          LL +NP+    +          + L+  G   +G +       + 
Sbjct: 60  IEMKDEIREKTGDGGLLILNPKVDGDLDKYGRYIDDKIFLIRMGEIKKGGSQCYCRE-NS 118

Query: 268 VINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVR 327
            +  +++     + + +V+DM  G   +     + V     + V  P   +        +
Sbjct: 119 FLGSVVSALFLDKKEAVVMDMGAGIEHLTRGTAKAV--DMMIAVIEPNLNSIKTGLNIEK 176

Query: 328 MFSKLKVPCIAVVENMCHFDADGK 351
           +   L +  +  V N      + K
Sbjct: 177 LAGDLGIKKVRYVINKVRNIKEEK 200

>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell division, cell cycle; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.10 Length = 263

 Score = 81.1 bits (201), Expect = 1e-17
 Identities = 48/187 (25%), Positives = 75/187 (40%), Gaps = 21/187 (11%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR---LLE-M 230
            + V+S KGG GK+T+  NL   LA +G  V I DAD+   +L  ++  E     L   +
Sbjct: 4   TITVASGKGGTGKTTITANLGVALAQLGHDVTIVDADITMANLELILGMEGLPVTLQNVL 63

Query: 231 NPEKR---TIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVID 287
             E R    I      GVK+V  G S +G        +  V+ Q++        D L++D
Sbjct: 64  AGEARIDEAIYVGPG-GVKVVPAGVSLEGLRKANPEKLEDVLTQIM-----ESTDILLLD 117

Query: 288 MPPGTGDIQLTLCQVVPLTAA---VIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMC 344
            P G     +       + AA   ++V  P+  +  D  K   +  +L    + VV N  
Sbjct: 118 APAGLERSAVI-----AIAAAQELLLVVNPEISSITDGLKTKIVAERLGTKVLGVVVNRI 172

Query: 345 HFDADGK 351
                  
Sbjct: 173 TTLGIEM 179

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum} Length = 245

 Score = 76.1 bits (188), Expect = 4e-16
 Identities = 36/217 (16%), Positives = 78/217 (35%), Gaps = 30/217 (13%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMG-ARVGIFDADVYGPSLPTMV---SPENRLLEM 230
           +    S KGG G S +A N A+ L+      V   D  +    L   +   +    L ++
Sbjct: 6   VFGFVSAKGGDGGSCIAANFAFALSQEPDIHVLAVDISLPFGDLDMYLSGNTHSQDLADI 65

Query: 231 --NPEK------RTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELD 282
               ++       T++      + L+    + +    +    VS +I+   +       D
Sbjct: 66  SNASDRLDKSLLDTMVQHISPSLDLIPSPATFEKIVNIEPERVSDLIHIAAS-----FYD 120

Query: 283 YLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPC--IAVV 340
           Y+++D       + + +  +  L    IVTTP   +     + +++  + + P   I ++
Sbjct: 121 YIIVDFGASIDHVGVWV--LEHLDELCIVTTPSLQSLRRAGQLLKLCKEFEKPISRIEII 178

Query: 341 ENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLP 377
            N         R     R +  ++ +  G P    +P
Sbjct: 179 LN---------RADTNSRITSDEIEKVIGRPISKRIP 206

>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* Length = 237

 Score = 71.8 bits (177), Expect = 1e-14
 Identities = 38/183 (20%), Positives = 71/183 (38%), Gaps = 16/183 (8%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR-------L 227
           I+++ S KGG GK+TV  NL+  L   G +V   D D+   +L  ++  ++        L
Sbjct: 4   IISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGDLTMANLSLVLGVDDPDVTLHDVL 63

Query: 228 LEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVID 287
                 +  I  T++  V ++      +         +  VI  L       + D+++ID
Sbjct: 64  AGEANVEDAIYMTQFDNVYVLPGAVDWEHVLKADPRKLPEVIKSLK-----DKFDFILID 118

Query: 288 MPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD 347
            P G       +  ++    A++VT P+     D  K   +  K  +  +  V N   + 
Sbjct: 119 CPAGLQ--LDAMSAMLSGEEALLVTNPEISCLTDTMKVGIVLKKAGLAILGFVLNR--YG 174

Query: 348 ADG 350
              
Sbjct: 175 RSD 177

>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* Length = 260

 Score = 69.2 bits (170), Expect = 1e-13
 Identities = 34/170 (20%), Positives = 68/170 (40%), Gaps = 20/170 (11%)

Query: 173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLL---- 228
           + I+ V+S KGGVGK+T +  +A  LA  G +  + D  +   +L  ++  E R++    
Sbjct: 2   ARIIVVTSGKGGVGKTTSSAAIATGLAQKGKKTVVIDFAIGLRNLDLIMGCERRVVYDFV 61

Query: 229 -----EMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMR--GPMVSGVINQLLTTTEWGEL 281
                +    +  I       + ++    + Q R         V+ V++ L       + 
Sbjct: 62  NVIQGDATLNQALIKDKRTENLYILP---ASQTRDKDALTREGVAKVLDDLKAM----DF 114

Query: 282 DYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSK 331
           +++V D P G     L          A+I T P+  +  D  + + + + 
Sbjct: 115 EFIVCDSPAGIETGALMALYFA--DEAIITTNPEVSSVRDSDRILGILAS 162

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli} Length = 299

 Score = 65.8 bits (161), Expect = 2e-12
 Identities = 36/216 (16%), Positives = 68/216 (31%), Gaps = 53/216 (24%)

Query: 173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR------ 226
           +NI+ ++      GK+ V+  LA  +A    +V   DAD+       + +  N       
Sbjct: 104 NNILMITGATPDSGKTFVSSTLAAVIAQSDQKVLFIDADLRRGYSHNLFTVSNEHGLSEY 163

Query: 227 LLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVIN--QLLTTTEWGEL--- 281
           L   +   + I      G  +           I RG +     N  +LL      +L   
Sbjct: 164 LAGKDELNKVIQHFGKGGFDV-----------ITRGQVPP---NPSELLMRDRMRQLLEW 209

Query: 282 -----DYLVIDMPPGTGDIQLTLCQVVPLT-AAVI---------VTTPQKLAFIDVAKGV 326
                D +++D PP           ++ ++ AAV+         V         +V+  +
Sbjct: 210 ANDHYDLVIVDTPP-----------MLAVSDAAVVGRSVGTSLLVARFGLNTAKEVSLSM 258

Query: 327 RMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGS 362
           +   +  V     + N           Y +G     
Sbjct: 259 QRLEQAGVNIKGAILNG--VIKRASTAYSYGYNYYG 292

>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} Length = 286

 Score = 65.8 bits (161), Expect = 3e-12
 Identities = 39/214 (18%), Positives = 70/214 (32%), Gaps = 53/214 (24%)

Query: 173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR------ 226
           +N++ ++     +G + V  NLA  ++    RV + D D+       ++   N       
Sbjct: 92  NNVLMMTGVSPSIGMTFVCANLAAVISQTNKRVLLIDCDMRKGYTHELLGTNNVNGLSEI 151

Query: 227 LLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVIN--QLLTTTEWGEL--- 281
           L+          PT      L           I RG +     N  +LL +  + EL   
Sbjct: 152 LIGQGDITTAAKPTSIAKFDL-----------IPRGQVPP---NPSELLMSERFAELVNW 197

Query: 282 -----DYLVIDMPPGTGDIQLTLCQVVPLT-AAVI---------VTTPQKLAFIDVAKGV 326
                D ++ID PP           ++ +T AA++         V         +V   +
Sbjct: 198 ASKNYDLVLIDTPP-----------ILAVTDAAIVGRHVGTTLMVARYAVNTLKEVETSL 246

Query: 327 RMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGS 360
             F +  +P   V+ N          Y  +G   
Sbjct: 247 SRFEQNGIPVKGVILNS--IFRRASAYQDYGYYE 278

>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* Length = 206

 Score = 63.9 bits (156), Expect = 4e-12
 Identities = 28/222 (12%), Positives = 58/222 (26%), Gaps = 64/222 (28%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEK 234
           +++  + KGG GK+T  +N+A  L+  G  + + D D                 +     
Sbjct: 3   VISFLNPKGGSGKTTAVINIATALSRSGYNIAVVDTDPQMSLT--------NWSKAGKAA 54

Query: 235 RTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD 294
             +                           V G+   L       + D+ ++D       
Sbjct: 55  FDVFT-------------------AASEKDVYGIRKDL------ADYDFAIVDGAGSLSV 89

Query: 295 IQLTLCQVVPLTAA---VIVTTPQKLA------FIDVAKGVRMFSKLKVPCIAVVENMCH 345
           I         +  +   +I  TP  L        + V +      K++      +     
Sbjct: 90  ITSAA-----VMVSDLVIIPVTPSPLDFSAAGSVVTVLEAQAYSRKVE---ARFLITRK- 140

Query: 346 FDADGKRYYPFGRGSGSQV---VQQFGIPHLFDLPIRPTVSY 384
                           + +   ++  G+   F   I     Y
Sbjct: 141 ---------IEMATMLNVLKESIKDTGVK-AFRTAITQRQVY 172

>1uwd_A Hypothetical protein TM0487; similar to PAAD protein, alpha/beta fold,structural genomics joint center for structural genomics, JCSG; NMR {Thermotoga maritima} SCOP: d.52.8.2 PDB: 1wcj_A Length = 103

 Score = 60.9 bits (149), Expect = 4e-12
 Identities = 30/76 (39%), Positives = 42/76 (55%), Gaps = 1/76 (1%)

Query: 77  ENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRAN 136
           + DVL AL  +ID + G D+VS G V D+QI++    V   + +TTP CP+  M    A 
Sbjct: 8   KEDVLNALKNVIDFELGLDVVSLGLVYDIQIDDQ-NNVKVLMTMTTPMCPLAGMILSDAE 66

Query: 137 EVVLAIPWVNKVNVTM 152
           E +  I  VN V V +
Sbjct: 67  EAIKKIEGVNNVEVEL 82

>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* Length = 271

 Score = 63.8 bits (156), Expect = 1e-11
 Identities = 45/213 (21%), Positives = 74/213 (34%), Gaps = 51/213 (23%)

Query: 168 GLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR- 226
                   + ++S   G GKST+A NLA   A  G +  I D D+  P+   + +  N  
Sbjct: 77  NPDSAVQSIVITSEAPGAGKSTIAANLAVAYAQAGYKTLIVDGDMRKPTQHYIFNLPNNE 136

Query: 227 -----LLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVIN--QLLTTTEWG 279
                LL  +  + +II TE   + +           +  GP+     N  +L+T+  + 
Sbjct: 137 GLSSLLLNWSTYQDSIISTEIEDLDV-----------LTSGPIPP---NPSELITSRAFA 182

Query: 280 EL--------DYLVIDMPPGTGDIQLTLCQVVPLT----------AAVIVTTPQKLAFID 321
            L        ++++ID PP           V  +T            V V   +     +
Sbjct: 183 NLYDTLLMNYNFVIIDTPP-----------VNTVTDAQLFSKFTGNVVYVVNSENNNKDE 231

Query: 322 VAKGVRMFSKLKVPCIAVVENMCHFDADGKRYY 354
           V KG  +        + VV N    D     Y 
Sbjct: 232 VKKGKELIEATGAKLLGVVLNRMPKDKSASYYA 264

>3cq1_A Putative uncharacterized protein TTHB138; DTDP-4-keto-L-rhamnose reductase, plasmid, oxidoreductase, structural genomics, NPPSFA; 1.90A {Thermus thermophilus} PDB: 2cu6_A 3cq2_A 3cq3_A* Length = 103

 Score = 59.4 bits (145), Expect = 2e-11
 Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 2/76 (2%)

Query: 77  ENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRAN 136
           E      L  + DP+ G D+V+ G + D+ +         R+ LTTP CP+ D   +   
Sbjct: 8   EAQAWALLEAVYDPELGLDVVNLGLIYDLVVEP--PRAYVRMTLTTPGCPLHDSLGEAVR 65

Query: 137 EVVLAIPWVNKVNVTM 152
           + +  +P V +V V +
Sbjct: 66  QALSRLPGVEEVEVEV 81

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP} Length = 209

 Score = 61.7 bits (150), Expect = 2e-11
 Identities = 42/217 (19%), Positives = 71/217 (32%), Gaps = 62/217 (28%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEK 234
           I+ V+S KGGVGK+T AV+L+  LA  G    + D D   P                   
Sbjct: 2   IITVASFKGGVGKTTTAVHLSAYLALQG-ETLLIDGD---P------------------- 38

Query: 235 RTIIPTEYLGVKLVSFGFSGQGRA---IMRGPMVSGVINQLLTTTEWGELDYLVIDMPPG 291
                                  A     RG +   V+++        +   +VID    
Sbjct: 39  --------------------NRSATGWGKRGSLPFKVVDERQAAKYAPKYQNIVIDTQAR 78

Query: 292 TGDIQLTLCQVVPLTAAVIV-TTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADG 350
             D    L  +      +++ +TP  LA   +   +    KL      ++  +       
Sbjct: 79  PED--EDLEALADGCDLLVIPSTPDALALDALMLTIETLQKLGNNRFRILLTIIP----- 131

Query: 351 KRYYPFGRGSGS---QVVQQFGIPHLFDLPIRPTVSY 384
               P+    G    Q++   G+P LF   I+   ++
Sbjct: 132 ----PYPSKDGDEARQLLTTAGLP-LFKRGIKRYSAF 163

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A Length = 286

 Score = 60.2 bits (146), Expect = 2e-10
 Identities = 37/152 (24%), Positives = 61/152 (40%), Gaps = 23/152 (15%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEK 234
           ++ V + KGG GKST+AV+L   L   GA+V + D D+   +  +    ENR   ++ +K
Sbjct: 6   VIVVGNEKGGAGKSTIAVHLVTALLYGGAKVAVIDLDLRQRT--SARFFENRRAWLDNKK 63

Query: 235 RTIIPTEYLG-----VKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMP 289
             +     L      V L       Q               + +      E D+++ID P
Sbjct: 64  IELPEPLALNLSDNDVALAERPEEEQVAGFEA------AFARAM-----AECDFILIDTP 112

Query: 290 PGTGDIQLTLCQVVPLTAAVIVTTPQKLAFID 321
            G      +    +    A +V TP   +F+D
Sbjct: 113 GG-----DSAITRMAHGRADLVVTPMNDSFVD 139

>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 = 61.0 bits (147), Expect = 3e-10
 Identities = 54/392 (13%), Positives = 118/392 (30%), Gaps = 116/392 (29%)

Query: 67  TSVEVSTGTAENDVLKALSQIIDP--DFGTDIVSCGFVKD-MQIN-EALGEVSFRLELTT 122
           +  E+       D +    ++         ++V   FV++ ++IN + L     + E   
Sbjct: 47  SKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQ-KFVEEVLRINYKFLMS-PIKTEQRQ 104

Query: 123 PACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQPARPIFAEQLPEGLQKI--SNIVAVSS 180
           P+  +  M+ ++ + +        K NV+      R     +L + L ++  +  V +  
Sbjct: 105 PS-MMTRMYIEQRDRLYNDNQVFAKYNVS------RLQPYLKLRQALLELRPAKNVLIDG 157

Query: 181 CKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEM---------- 230
              G GK+ VA+++  +           D  ++  +L    SPE  +LEM          
Sbjct: 158 -VLGSGKTWVALDVCLSY----KVQCKMDFKIFWLNLKNCNSPET-VLEMLQKLLYQIDP 211

Query: 231 ------NPEKRTIIPTEYLGVKLVSF-----------------------GFSGQGRAIM- 260
                 +      +    +  +L                           F+   + ++ 
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLT 271

Query: 261 -RGPMVSGVINQL----------------LTTTEWGELDYLVIDMPPGTGDIQLTLCQVV 303
            R      V + L                LT  E   L    +D  P   D+   +    
Sbjct: 272 TRF---KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP--QDLPREVLTTN 326

Query: 304 PLTAAVI-------VTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPF 356
           P   ++I       + T      ++  K   +        + V+E      A+ ++ +  
Sbjct: 327 PRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES----SLNVLE-----PAEYRKMF-- 375

Query: 357 GRGSGSQVVQQFGIPHLF--DLPIRPTVSYMI 386
                     +  +   F     I PT+   +
Sbjct: 376 ---------DRLSV---FPPSAHI-PTILLSL 394

>3lno_A Putative uncharacterized protein; alpha-beta fold, structural genomics, center for structural genomics of infectious diseases, csgid; 2.10A {Bacillus anthracis} Length = 108

 Score = 56.0 bits (136), Expect = 3e-10
 Identities = 21/77 (27%), Positives = 37/77 (48%), Gaps = 2/77 (2%)

Query: 77  ENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKD-MFEQRA 135
           EN +   L  +IDP+ G DIV+ G V D+  +E        + +T+  CP+   +     
Sbjct: 10  ENKLYANLEAVIDPELGVDIVNLGLVYDVTADEN-NNAVITMTMTSIGCPMAGQIVSDVK 68

Query: 136 NEVVLAIPWVNKVNVTM 152
             +   +P VN++ V +
Sbjct: 69  KVLSTNVPEVNEIEVNV 85

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A* Length = 589

 Score = 58.8 bits (142), Expect = 1e-09
 Identities = 40/237 (16%), Positives = 71/237 (29%), Gaps = 77/237 (32%)

Query: 182 KGGVGKSTVAVNLAYTLAGMGARVGI--FD-----ADVYGPSL---PTMVSPENRL--LE 229
           KGGVGK++++   A  LA  G RV +   D       V+  ++      ++    L  LE
Sbjct: 16  KGGVGKTSISCATAIRLAEQGKRVLLVSTDPASNVGQVFSQTIGNTIQAIASVPGLSALE 75

Query: 230 MNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQL--LTTTEW--------- 278
           ++P+       +Y              + ++   +VS +  QL    TTE          
Sbjct: 76  IDPQAAA---QQYRA------RIVDPIKGVLPDDVVSSINEQLSGACTTEIAAFDEFTGL 126

Query: 279 -------GELDYLVIDMPP--------------------------------GTGDIQLTL 299
                     D+++ D  P                                G    +   
Sbjct: 127 LTDASLLTRFDHIIFDTAPTGHTIRLLQLPGAWSSFIDSNPEGASCLGPMAGLEKQREQY 186

Query: 300 CQVV------PLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADG 350
              V        T  V+V   QK    +VA+     + + +    +V N      + 
Sbjct: 187 AYAVEALSDPKRTRLVLVARLQKSTLQEVARTHLELAAIGLKNQYLVINGVLPKTEA 243

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A* Length = 589

 Score = 41.8 bits (98), Expect = 3e-04
 Identities = 45/278 (16%), Positives = 82/278 (29%), Gaps = 53/278 (19%)

Query: 143 PWVNKVNVTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMG 202
           P  +  +     Q         L + + +  + + +   KGGVGK+T+A  +A  LA MG
Sbjct: 296 PVASPSSDEYLQQRPDIPSLSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADMG 355

Query: 203 ARVGI--FD-----ADVYGPSLP----TMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFG 251
             V +   D     +     SL     + + P                 E  G +L   G
Sbjct: 356 FDVHLTTSDPAAHLSMTLNGSLNNLQVSRIDPHEETERYRQHVL-----ETKGKELDEAG 410

Query: 252 FSGQGRAIMRGP-----MVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPL- 305
                   +R P      V    ++++         ++V+D  P TG   L L       
Sbjct: 411 -KRLLEEDLRSPCTEEIAVFQAFSRVIREAGK---RFVVMDTAP-TGHTLLLLDATGAYH 465

Query: 306 -------------------------TAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVV 340
                                    T  ++VT P+    ++ A       +  +     +
Sbjct: 466 REIAKKMGEKGHFTTPMMLLQDPERTKVLLVTLPETTPVLEAANLQADLERAGIHPWGWI 525

Query: 341 ENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPI 378
            N     AD +      R    ++ Q   +       +
Sbjct: 526 INNSLSIADTRSPLLRMRAQ-QELPQIESVKRQHASRV 562

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes} Length = 298

 Score = 53.4 bits (129), Expect = 3e-08
 Identities = 12/37 (32%), Positives = 20/37 (54%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD 211
           ++  +  KGGVGKS ++   AY    +  +V + D D
Sbjct: 38  VILNNYFKGGVGKSKLSTMFAYLTDKLNLKVLMIDKD 74

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A Length = 398

 Score = 53.2 bits (128), Expect = 5e-08
 Identities = 30/190 (15%), Positives = 62/190 (32%), Gaps = 37/190 (19%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGM------GARVGIFDAD-------VYGPSLPTMV 221
           ++ +S+ KGGV K+   V+LA+ +           R+ + D D                +
Sbjct: 110 VIFISNLKGGVSKTVSTVSLAHAMRAHPHLLMEDLRILVIDLDPQSSATMFLSHKHSIGI 169

Query: 222 SPENR-------LLEMNPEKRTIIPTEYLGVKLV-----SFGFSGQGRAIM----RGPMV 265
                       +      +  I+P+   GV ++         +   R +      G  +
Sbjct: 170 VNATSAQAMLQNVSREELLEEFIVPSVVPGVDVMPASIDDAFIASDWRELCNEHLPGQNI 229

Query: 266 SGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAA--VIVTT-PQKLAFIDV 322
             V+ + +      + D++++D  P      L       L +A  +     P  + F   
Sbjct: 230 HAVLKENVIDKLKSDYDFILVDSGP-----HLDAFLKNALASANILFTPLPPATVDFHSS 284

Query: 323 AKGVRMFSKL 332
            K V    +L
Sbjct: 285 LKYVARLPEL 294

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A* Length = 257

 Score = 51.8 bits (125), Expect = 8e-08
 Identities = 20/43 (46%), Positives = 29/43 (67%)

Query: 169 LQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD 211
           L+     +A+++ KGGVGK+T A+NLA  LA +G RV + D D
Sbjct: 2   LRAKVRRIALANQKGGVGKTTTAINLAAYLARLGKRVLLVDLD 44

>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 Length = 267

 Score = 51.5 bits (124), Expect = 1e-07
 Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 2/56 (3%)

Query: 157 ARPIFAEQLPEGL-QKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD 211
                  Q P  +  K   I+ ++S KGGVGKST A+ LA  L+    +V + D D
Sbjct: 10  GTLEAQTQGPGSMDNKKPKIITIASIKGGVGKSTSAIILATLLS-KNNKVLLIDMD 64

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae} Length = 361

 Score = 49.8 bits (119), Expect = 6e-07
 Identities = 15/37 (40%), Positives = 23/37 (62%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD 211
            ++  + KGGVGK+T++ N+A+  A  G RV   D D
Sbjct: 3   TISFFNNKGGVGKTTLSTNVAHYFALQGKRVLYVDCD 39

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe} Length = 329

 Score = 49.4 bits (118), Expect = 8e-07
 Identities = 31/157 (19%), Positives = 58/157 (36%), Gaps = 25/157 (15%)

Query: 152 MSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGI--FD 209
           MS  P        L +   K   +      KGGVGK+T + +LA  ++ + + V +   D
Sbjct: 1   MSFDPLPGTLENLLEQTSLKWIFVGG----KGGVGKTTTSCSLAIQMSKVRSSVLLISTD 56

Query: 210 -----ADVYGPSL---PTMVSPENRL--LEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAI 259
                +D +G         V   + L  +E++P       TE    +  +   SG  + +
Sbjct: 57  PAHNLSDAFGTKFGKDARKVPGFDNLSAMEIDPNLSIQEMTEQADQQNPNNPLSGMMQDL 116

Query: 260 MRGP------MVSGVINQLLTTTEWGELDYLVIDMPP 290
                     +    I + + + E+   D ++ D  P
Sbjct: 117 AFTIPGIDEALAFAEILKQIKSMEF---DCVIFDTAP 150

>3ez9_A Para; DNA binding, winged-HTH, partition, biosynthetic protein; 2.80A {Salmonella enterica subsp} PDB: 3ezf_A Length = 403

 Score = 47.4 bits (113), Expect = 4e-06
 Identities = 31/176 (17%), Positives = 54/176 (30%), Gaps = 46/176 (26%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGM------GARVGIFDAD-------VYGPSLPTMV 221
           ++ V + KGGV K+   V LA+ L           R+ + D D           +     
Sbjct: 113 VIFVVNLKGGVSKTVSTVTLAHALRVHQDLLRHDLRILVIDLDPQASSTMFLDHTHSIGS 172

Query: 222 SPENR-------LLEMNPEKRTIIPTEYLGVKLV-----SFGFSG---------QGRAIM 260
             E         L      K  I PT   GV ++         +                
Sbjct: 173 ILETAAQAMLNNLDAETLRKEVIRPTIVPGVDVIPASIDDGFVASQWRELVEEHLPGQNQ 232

Query: 261 RGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAA--VIVTTP 314
              +   +I+++       + D++ ID  P      L    +  L A+  ++  TP
Sbjct: 233 YEILRRNIIDRVA-----DDYDFIFIDTGP-----HLDPFLLNGLAASDLLLTPTP 278

>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal alpha-beta the C-terminal all beta domain., structural genomics; 2.00A {Nostoc SP} Length = 374

 Score = 46.4 bits (110), Expect = 9e-06
 Identities = 23/134 (17%), Positives = 41/134 (30%), Gaps = 34/134 (25%)

Query: 182 KGGVGKSTVAVNLAYTLAGMGARV---GIFD---ADVYGPSL---PTMVSPENRLLEMNP 232
           K GV ++ +A+  A  LA  G RV   G+ +     +   +L   P  ++P   +++   
Sbjct: 10  KSGVARTKIAIAAAKLLASQGKRVLLAGLAEPVLPLLLEQTLTPDPQQIAPNLEVVQFQS 69

Query: 233 EKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTT----------------T 276
                                      +R P++  V  Q L                   
Sbjct: 70  SVLL---ERNWE------EVKKLEAQYLRTPIIKEVYGQELVVLPGMDSALALNAIREYD 120

Query: 277 EWGELDYLVIDMPP 290
             G+ D +V D   
Sbjct: 121 ASGKYDTIVYDGTG 134

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid} Length = 324

 Score = 44.9 bits (106), Expect = 2e-05
 Identities = 25/130 (19%), Positives = 46/130 (35%), Gaps = 24/130 (18%)

Query: 182 KGGVGKSTVAVNLAYTLAGMGARVGI--FD-----ADVYGPSL---PTMVSPENRLLEMN 231
           KGGVGK+T++   A  +A  G +  +   D     +D     +   PT ++     +E++
Sbjct: 22  KGGVGKTTISAATALWMARSGKKTLVISTDPAHSLSDSLEREIGHTPTKITENLYAVEID 81

Query: 232 PEK------RTIIPTEYLGVKLVSFGFSGQGRAIMRGP-----MVSGVINQLLTTTEWGE 280
           PE         +     +   +       Q       P            + +TT E+  
Sbjct: 82  PEVAMEEYQAKLQEQAAMNPGMGLDMLQDQMDMASMSPGIDEAAAFDQFLRYMTTDEY-- 139

Query: 281 LDYLVIDMPP 290
            D ++ D  P
Sbjct: 140 -DIVIFDTAP 148

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A* Length = 334

 Score = 44.9 bits (106), Expect = 2e-05
 Identities = 25/128 (19%), Positives = 47/128 (36%), Gaps = 22/128 (17%)

Query: 182 KGGVGKSTVAVNLAYTLAGMGARVGI--FD-----ADVYGPSL---PTMVSPENRL--LE 229
           KGGVGK+T + +LA  LA +   V +   D     +D +         +V   + L  +E
Sbjct: 24  KGGVGKTTTSCSLAIQLAKVRRSVLLLSTDPAHNLSDAFSQKFGKEARLVEGFDNLYAME 83

Query: 230 MNPEKRTI-IPTEYLGVKLVSFGFSGQGRAIMRGP------MVSGVINQLLTTTEWGELD 282
           ++P      +     G      G  G  + +          M    + + + +  +   +
Sbjct: 84  IDPNGSMQDLLAGQTGDGDAGMGGVGVMQDLAYAIPGIDEAMSFAEVLKQVNSLSY---E 140

Query: 283 YLVIDMPP 290
            +V D  P
Sbjct: 141 TIVFDTAP 148

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A* Length = 349

 Score = 43.4 bits (102), Expect = 6e-05
 Identities = 30/128 (23%), Positives = 48/128 (37%), Gaps = 19/128 (14%)

Query: 182 KGGVGKSTVAVNLAYTLAGMGARVGI--FD-----ADVYGPSL---PTMVSPENRL--LE 229
           KGGVGK+T++      LA  G +V I   D      D++       PT V   + L  +E
Sbjct: 34  KGGVGKTTMSAATGVYLAEKGLKVVIVSTDPAHSLRDIFEQEFGHEPTKVKGYDNLYVVE 93

Query: 230 MNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSG-------VINQLLTTTEWGELD 282
           ++P+K      E L  ++    F G+                     +  L   +  E D
Sbjct: 94  IDPQKAMEEYKEKLKAQIEENPFLGEMLEDQLEMAALSPGTDESAAFDVFLKYMDSNEFD 153

Query: 283 YLVIDMPP 290
            ++ D  P
Sbjct: 154 VVIFDTAP 161

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A Length = 289

 Score = 41.5 bits (98), Expect = 2e-04
 Identities = 14/24 (58%), Positives = 16/24 (66%)

Query: 182 KGGVGKSTVAVNLAYTLAGMGARV 205
           KGG+GKST   NL   LA MG +V
Sbjct: 10  KGGIGKSTTTQNLVAALAEMGKKV 33

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	386
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	99.97
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	99.96
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	99.96
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	99.95
3fwy_A	314	Light-independent protochlorophyllide reductase I	99.95
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	99.95
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	99.95
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	99.94
3end_A	307	Light-independent protochlorophyllide reductase ir	99.94
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	99.94
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	99.94
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	99.93
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	99.93
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	99.93
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	99.93
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	99.93
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	99.92
3ez9_A	403	Para; DNA binding, winged-HTH, partition, biosynth	99.92
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	99.92
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	99.92
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	99.91
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	99.91
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	99.9
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	99.9
3cwq_A	209	Para family chromosome partitioning protein; alpha	99.89
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	99.87
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	99.86
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	99.86
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	99.86
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	99.83
2xxa_A	433	Signal recognition particle protein; protein trans	99.77
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	99.76
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	99.74
3igf_A	374	ALL4481 protein; two-domained protein consisting o	99.73
1uwd_A	103	Hypothetical protein TM0487; similar to PAAD prote	99.7
3lno_A	108	Putative uncharacterized protein; alpha-beta fold,	99.69
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	99.69
3cq1_A	103	Putative uncharacterized protein TTHB138; DTDP-4-k	99.67
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	99.67
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	99.65
3of5_A	228	Dethiobiotin synthetase; structural genomics, cent	99.64
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	99.63
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	99.6
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	99.58
3fgn_A	251	Dethiobiotin synthetase; biotin biosynthesis, BIOD	99.58
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	99.57
3qxc_A	242	Dethiobiotin synthetase; DTBS, structural genomics	99.5
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	99.5
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	99.42
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.38
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	99.23
3ux2_A	130	MIP18 family protein FAM96A; immune system, DUF59,	99.16
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.03
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	98.99
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	98.76
4a0g_A	831	Adenosylmethionine-8-amino-7-oxononanoate aminotra	98.64
2obn_A	349	Hypothetical protein; structural genomics, joint c	98.6
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	98.58
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	98.51
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	98.37
2og2_A	359	Putative signal recognition particle receptor; nuc	98.21
3pzx_A	557	Formate--tetrahydrofolate ligase; HET: TOE; 2.20A	98.21
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	98.09
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	97.83
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	97.74
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	97.6
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.51
2g0t_A	350	Conserved hypothetical protein; structural genomic	97.42
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	97.37
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	97.36
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	97.36
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	97.35
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	97.28
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	97.27
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	97.26
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	97.15
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	97.15
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.11
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	97.06
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	97.05
1vco_A	550	CTP synthetase; tetramer, riken structural genomic	97.0
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	96.97
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	96.97
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	96.96
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	96.96
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	96.96
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	96.96
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	96.96
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	96.94
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	96.94
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	96.93
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	96.92
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.92
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	96.91
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	96.89
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	96.88
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	96.88
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	96.87
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	96.86
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.86
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	96.85
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	96.82
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	96.81
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.8
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	96.78
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	96.74
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	96.71
1s1m_A	545	CTP synthase; CTP synthetase, UTP:ammonia ligase (	96.7
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	96.69
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.69
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	96.69
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	96.68
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	96.68
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	96.68
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	96.67
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	96.65
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	96.64
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	96.6
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	96.58
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	96.57
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	96.57
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	96.53
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	96.53
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.51
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.51
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	96.48
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	96.47
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	96.46
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	96.46
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	96.44
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	96.44
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	96.44
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	96.43
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	96.42
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	96.4
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.39
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	96.38
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	96.37
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	96.35
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	96.33
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	96.33
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	96.32
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	96.32
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	96.31
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	96.3
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	96.3
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	96.29
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	96.28
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	96.27
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	96.27
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	96.23
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	96.22
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.2
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	96.18
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.17
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	96.14
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	96.14
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	96.12
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	96.11
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	96.1
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	96.09
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	96.06
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	96.02
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	96.02
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	96.0
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	96.0
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.0
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	95.98
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	95.98
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	95.97
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	95.97
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	95.97
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.88
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	95.87
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.87
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	95.78
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.78
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	95.77
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	95.77
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	95.76
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	95.76
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	95.74
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	95.73
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.73
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.72
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	95.69
2cvh_A	220	DNA repair and recombination protein RADB; filamen	95.68
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.64
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	95.62
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	95.6
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	95.57
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	95.53
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	95.52
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	95.5
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.5
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	95.5
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	95.5
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	95.49
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	95.47
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.44
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	95.43
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	95.43
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	95.41
3llu_A	196	RAS-related GTP-binding protein C; structural geno	95.41
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	95.37
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	95.37
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.37
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.37
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	95.36
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	95.32
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	95.32
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	95.28
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.26
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	95.25
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	95.23
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	95.23
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.23
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	95.15
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	95.12
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.1
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	95.07
1nrj_B	218	SR-beta, signal recognition particle receptor beta	95.03
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	95.02
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	95.0
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.0
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	95.0
1wb1_A	482	Translation elongation factor SELB; selenocysteine	94.98
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	94.98
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.98
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	94.97
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	94.96
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	94.94
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	94.94
2wji_A	165	Ferrous iron transport protein B homolog; membrane	94.92
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	94.92
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	94.91
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	94.88
3bos_A	242	Putative DNA replication factor; P-loop containing	94.88
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	94.85
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	94.82
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	94.81
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	94.79
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	94.79
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	94.77
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	94.75
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	94.69
3do6_A	543	Formate--tetrahydrofolate ligase; TM1766, putative	94.68
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	94.67
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	94.63
2r6a_A	454	DNAB helicase, replicative helicase; replication,	94.61
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	94.59
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	94.54
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	94.54
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	94.54
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	94.5
1via_A	175	Shikimate kinase; structural genomics, transferase	94.5
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	94.48
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	94.46
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	94.45
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	94.43
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	94.43
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	94.32
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	94.32
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	94.29
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	94.26
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	94.24
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.23
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	94.16
2qgz_A	308	Helicase loader, putative primosome component; str	94.12
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.1
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	94.06
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	94.05
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	94.04
2z43_A	324	DNA repair and recombination protein RADA; archaea	94.02
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	94.01
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	94.0
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	93.96
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	93.85
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	93.82
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	93.76
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	93.76
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	93.75
2fh5_B	214	SR-beta, signal recognition particle receptor beta	93.73
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	93.69
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	93.65
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	93.63
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	93.62
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	93.62
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	93.55
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	93.54
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	93.5
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	93.5
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	93.47
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	93.46
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	93.43
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	93.39
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	93.38
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	93.37
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	93.35
3io5_A	333	Recombination and repair protein; storage dimer, i	93.34
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	93.33
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	93.25
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	93.24
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	93.21
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	93.15
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	93.15
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.13
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	93.09
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	93.01
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	92.99
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	92.98
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	92.83
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	92.79
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	92.75
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	92.75
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	92.74
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	92.73
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	92.66
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	92.66
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	92.4
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	92.38
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	92.28
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	92.27
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	92.25
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	92.25
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	92.21
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	92.21
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	92.14
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	92.13
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	92.12
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	92.08
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	92.07
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	92.04
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	91.98
2c5m_A	294	CTP synthase; cytidine 5-prime triphosphate synthe	91.97
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	91.96
2ewv_A	372	Twitching motility protein PILT; pilus retraction	91.96
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	91.94
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	91.94
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	91.79
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	91.79
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	91.76
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	91.55
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	91.52
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	91.42
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	91.35
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	91.33
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	91.33
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	91.29
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	91.23
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	91.22
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	91.14
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	91.09
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	91.07
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	91.01
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	90.38
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	90.92
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	90.89
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	90.8
4a74_A	231	DNA repair and recombination protein RADA; hydrola	90.79
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	90.76
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	90.71
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	90.7
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	90.63
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	90.45
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	90.42
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	90.39
2vli_A	183	Antibiotic resistance protein; transferase, tunica	90.39
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	90.37
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	90.14
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	90.13
3nva_A	535	CTP synthase; rossman fold, nucleotide binding, LI	90.1
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	90.07
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	90.04
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	90.04
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	90.02
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	89.96
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	89.93
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	89.76
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	89.6
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	89.58
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	89.45
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	89.44
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	89.43
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	89.38
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	89.3
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	89.23
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	89.04
2chg_A	226	Replication factor C small subunit; DNA-binding pr	88.89
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	88.84
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	88.83
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	88.79
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	88.79
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	88.68
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	88.65
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	88.61
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	88.56
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	88.53
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	88.53
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	88.51
1w78_A	422	FOLC bifunctional protein; DHFS, dihydrofolate syn	88.51
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	88.48
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	88.18
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	88.14
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	88.09
2eyu_A	261	Twitching motility protein PILT; pilus retraction	88.06
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	88.01
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	87.87
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	87.81
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	87.69
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	87.62
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	87.61
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	87.6
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	87.6
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	87.34
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	87.28
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	87.26
1jbw_A	428	Folylpolyglutamate synthase; FPGS folate AMPPCP te	87.08
1xhj_A	88	Nitrogen fixation protein NIFU; alpha-beta, NIFU-l	86.98
3eag_A	326	UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-ME	86.94
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	86.87
3nrs_A	437	Dihydrofolate:folylpolyglutamate synthetase; struc	86.7
2vo1_A	295	CTP synthase 1; pyrimidine biosynthesis, glutamine	86.68
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	86.63
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	86.56
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	86.55
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	86.53
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	86.45
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	86.32
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	86.3
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	86.14
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	85.83
1e8c_A	498	UDP-N-acetylmuramoylalanyl-D-glutamate--2,6- diami	85.44
3orf_A	251	Dihydropteridine reductase; alpha-beta-alpha sandw	85.4
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	85.26
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	85.24
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	85.14
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	84.99
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	84.72
2vos_A	487	Folylpolyglutamate synthase protein FOLC; ligase,	84.67
1o5z_A	442	Folylpolyglutamate synthase/dihydrofolate synthas;	84.65
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	84.43
3ged_A	247	Short-chain dehydrogenase/reductase SDR; SCOR, ros	84.36
2wtz_A	535	UDP-N-acetylmuramoyl-L-alanyl-D-glutamate- -2,6-di	84.36
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	84.15
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	84.13
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	84.02
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	83.97
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	83.93
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	83.78
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	83.74
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	83.67
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	83.47
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	83.46
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	83.43
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	83.41
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	83.36
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	83.28
3lk7_A	451	UDP-N-acetylmuramoylalanine--D-glutamate ligase; a	83.23
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	83.18
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	83.15
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	83.13
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	82.93
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	82.81
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	82.75
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	82.74
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	82.72
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	82.59
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	82.39
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	82.29
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	82.28
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	82.17
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	81.98
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	81.45
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	81.37
1p9r_A	418	General secretion pathway protein E; bacterial typ	81.34
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	81.08
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	80.99
2ehd_A	234	Oxidoreductase, oxidoreductase, short-chain dehydr	80.96
2x5o_A	439	UDP-N-acetylmuramoylalanine--D-glutamate ligase; A	80.87
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	80.44
1tue_A	212	Replication protein E1; helicase, replication, E1E	80.41
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	80.13
1dek_A	241	Deoxynucleoside monophosphate kinase; transferase,	80.12

>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=99.97  E-value=1.2e-30  Score=242.74  Aligned_cols=217  Identities=39%  Similarity=0.647  Sum_probs=167.8

Q ss_pred             ccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeee--ccCC
Q 016622          167 EGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPT--EYLG  244 (386)
Q Consensus       167 ~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~--~~~~  244 (386)
                      .++++++++|+|+|+|||+||||+|+|||.+|+++|+||++||+|++++++..+++.......  .....+.+.  ..+|
T Consensus        12 ~~l~~~~~vI~v~s~kGGvGKTT~a~nLA~~la~~G~~VlliD~D~~~~~l~~~l~~~~~~~~--~~~~~~~~~~~~~~~   89 (262)
T 2ph1_A           12 ERLGKIKSRIAVMSGKGGVGKSTVTALLAVHYARQGKKVGILDADFLGPSIPILFGLRNARIA--VSAEGLEPVLTQKYG   89 (262)
T ss_dssp             HHHTTCSCEEEEECSSSCTTHHHHHHHHHHHHHHTTCCEEEEECCSSCCHHHHHTTCCSCCCE--EETTEEECEECTTTC
T ss_pred             hhhccCCeEEEEEcCCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCCCCHHHHhcCCCcccc--ccccCccccccCCCC
Confidence            456778999999999999999999999999999999999999999999888888876543110  011222222  4568


Q ss_pred             ceEEecCCCCCcc---cccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHH
Q 016622          245 VKLVSFGFSGQGR---AIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFID  321 (386)
Q Consensus       245 l~vl~~~~~~~~~---~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~  321 (386)
                      ++++|.+......   ..+..+.....++++++.+.++.||||||||||+.++.......+..+|.+++|+.++..++..
T Consensus        90 l~vlp~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yD~ViID~pp~~~~~~~~~~~~~~aD~viiv~~~~~~s~~~  169 (262)
T 2ph1_A           90 IKVMSMQFLLPKENTPVIWRGPLIAGMIREFLGRVAWGELDHLLIDLPPGTGDAPLTVMQDAKPTGVVVVSTPQELTAVI  169 (262)
T ss_dssp             CEEECGGGGSTTCSSCCCCCSHHHHHHHHHHHHSBCCCSCSEEEEECCSSSSSHHHHHHHHHCCSEEEEEECSSSCCHHH
T ss_pred             eEEEeccccCCCcccchhhcCchHHHHHHHHHHHhhccCCCEEEEECcCCCchHHHHHHhhccCCeEEEEecCccchHHH
Confidence            9999977543221   1234445667888888877657899999999999987555444444679999999999999999


Q ss_pred             HHHHHHHHHcCCCCeEEEEEcCCcCCCC--CceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          322 VAKGVRMFSKLKVPCIAVVENMCHFDAD--GKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       322 ~~~~~~~l~~~~~~i~gvVlN~~~~~~~--~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      +.+.++.+++.+.+++|+|+|+++....  ......+.+...+++.+.+|.++++.||+++.+.++
T Consensus       170 ~~~~~~~l~~~~~~~~gvV~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~Ip~~~~~~~a  235 (262)
T 2ph1_A          170 VEKAINMAEETNTSVLGLVENMSYFVCPNCGHKSYIFGEGKGESLAKKYNIGFFTSIPIEEELIKL  235 (262)
T ss_dssp             HHHHHHHHHTTTCCEEEEEETTCCEECTTTCCEECTTCCCCHHHHHHHTTCSEEEECCBCHHHHHH
T ss_pred             HHHHHHHHHhCCCCEEEEEECCCccCCcccccccccccccHHHHHHHHcCCCeEEEeeCchHHHHh
Confidence            9999999999999999999999875321  112222334568899999999999999999998875

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=99.96  E-value=9.4e-29  Score=226.79  Aligned_cols=199  Identities=16%  Similarity=0.238  Sum_probs=150.5

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHC-CCcEEEEEcCCCCCCCCccCC-Cccc--cccc----CCCC----Ccee
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFDADVYGPSLPTMVS-PENR--LLEM----NPEK----RTII  238 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~-G~rVllID~D~~~~sl~~~lg-~~~~--~~~~----~~~~----~~i~  238 (386)
                      +++++|+|+|+|||+||||+|+|||.+||++ |+||++||+|++.++++.+|+ ....  +.+.    ....    ..+.
T Consensus         2 ~~~~vI~v~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~   81 (245)
T 3ea0_A            2 NAKRVFGFVSAKGGDGGSCIAANFAFALSQEPDIHVLAVDISLPFGDLDMYLSGNTHSQDLADISNASDRLDKSLLDTMV   81 (245)
T ss_dssp             -CCEEEEEEESSTTSSHHHHHHHHHHHHTTSTTCCEEEEECCTTTCCGGGGTCSSCCSCCHHHHHHTGGGCCHHHHHHHS
T ss_pred             CCCeEEEEECCCCCcchHHHHHHHHHHHHhCcCCCEEEEECCCCCCCHHHHhCCCCCCCCHHHHHhhHhhhhHHHHHHHh
Confidence            4678999999999999999999999999998 999999999999889988884 2221  1100    0000    1123


Q ss_pred             eeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcch
Q 016622          239 PTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLA  318 (386)
Q Consensus       239 ~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s  318 (386)
                      ....+|++++|.+........+.    ...+.++++.++ +.|||||||+||+.+......  +..+|.+++|+.++..+
T Consensus        82 ~~~~~~l~~l~~~~~~~~~~~~~----~~~l~~~l~~l~-~~yD~viiD~p~~~~~~~~~~--l~~ad~viiv~~~~~~~  154 (245)
T 3ea0_A           82 QHISPSLDLIPSPATFEKIVNIE----PERVSDLIHIAA-SFYDYIIVDFGASIDHVGVWV--LEHLDELCIVTTPSLQS  154 (245)
T ss_dssp             EEEETTEEEECCCSSHHHHHHCC----HHHHHHHHHHHH-HHCSEEEEEEESSCCTTHHHH--GGGCSEEEEEECSSHHH
T ss_pred             EecCCCeEEEcCCCChHhhhcCC----HHHHHHHHHHHH-hhCCEEEEeCCCCCchHHHHH--HHHCCEEEEEecCcHHH
Confidence            34567999999775433322222    234555555554 689999999999987654443  55679999999999999


Q ss_pred             HHHHHHHHHHHHcCC--CCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCCh-hhhhc
Q 016622          319 FIDVAKGVRMFSKLK--VPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRP-TVSYM  385 (386)
Q Consensus       319 ~~~~~~~~~~l~~~~--~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~-~i~~a  385 (386)
                      +..+.++++.+++.+  ...+|+|+||++....         ...+++.+.+|.++++.||+++ .+.++
T Consensus       155 ~~~~~~~~~~l~~~~~~~~~~~~v~N~~~~~~~---------~~~~~~~~~~~~~v~~~ip~~~~~~~~a  215 (245)
T 3ea0_A          155 LRRAGQLLKLCKEFEKPISRIEIILNRADTNSR---------ITSDEIEKVIGRPISKRIPQDEDAMQES  215 (245)
T ss_dssp             HHHHHHHHHHHHTCSSCCSCEEEEEESTTSCTT---------SCHHHHHHHHTSCEEEEECCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCccceEEEEecCCCCCC---------CCHHHHHHHhCCCeEEECCCChHHHHHH
Confidence            999999999999887  5679999999875432         1347888999999999999996 56554

>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=99.96  E-value=2.2e-28  Score=223.35  Aligned_cols=199  Identities=20%  Similarity=0.276  Sum_probs=152.8

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc---cc----ccCCCCCceeeeccCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR---LL----EMNPEKRTIIPTEYLG  244 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~---~~----~~~~~~~~i~~~~~~~  244 (386)
                      |+++|+|+|+|||+||||+|+|||.+|+++|+||++||+|+++++++.+||....   +.    ......+.+.+...++
T Consensus         1 M~~~i~v~s~kgGvGKTt~a~~LA~~la~~g~~VlliD~D~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~~i~~~~~~~   80 (237)
T 1g3q_A            1 MGRIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGDLTMANLSLVLGVDDPDVTLHDVLAGEANVEDAIYMTQFDN   80 (237)
T ss_dssp             CCEEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTTSCCHHHHTTCCCCSSCHHHHHTTSSCGGGGCEECSSTT
T ss_pred             CceEEEEecCCCCCCHHHHHHHHHHHHHhcCCeEEEEeCCCCCCChhHhcCCCCCCCCHHHHhcCCCCHHHHhhcCCCCC
Confidence            5689999999999999999999999999999999999999998898888887543   11    1111122333333479


Q ss_pred             ceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHH
Q 016622          245 VKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAK  324 (386)
Q Consensus       245 l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~  324 (386)
                      ++++|.... .....+..   ...+.++++.++ ++|||||||+||+.+......  +..+|.+++|+.++..++.++.+
T Consensus        81 l~~lp~~~~-~~~~~~~~---~~~l~~~l~~l~-~~yD~viiD~~~~~~~~~~~~--~~~ad~vi~v~~~~~~~~~~~~~  153 (237)
T 1g3q_A           81 VYVLPGAVD-WEHVLKAD---PRKLPEVIKSLK-DKFDFILIDCPAGLQLDAMSA--MLSGEEALLVTNPEISCLTDTMK  153 (237)
T ss_dssp             EEEECCCCS-HHHHHHCC---GGGHHHHHHTTG-GGCSEEEEECCSSSSHHHHHH--HTTCSEEEEEECSCHHHHHHHHH
T ss_pred             EEEEeCCCc-cchhhhcC---HHHHHHHHHHHH-hcCCEEEEECCCCcCHHHHHH--HHHCCeEEEEecCCcccHHHHHH
Confidence            999983322 11111110   234556666665 789999999999988544433  56679999999999999999999


Q ss_pred             HHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          325 GVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       325 ~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      .++.+++.+.++.|+|+|+++.....        ...+++.+.+|.++++.||+++.+.++
T Consensus       154 ~~~~l~~~~~~~~~vv~N~~~~~~~~--------~~~~~~~~~~~~~~~~~Ip~~~~~~~a  206 (237)
T 1g3q_A          154 VGIVLKKAGLAILGFVLNRYGRSDRD--------IPPEAAEDVMEVPLLAVIPEDPAIREG  206 (237)
T ss_dssp             HHHHHHHTTCEEEEEEEEEETSCTTC--------CCHHHHHHHHCSCEEEEEECCHHHHHH
T ss_pred             HHHHHHhCCCceEEEEEecCCcccch--------hHHHHHHHHhCccceeeCCCChHHHHH
Confidence            99999988889999999998765421        346788889999999999999988765

>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=99.95  E-value=2e-28  Score=226.65  Aligned_cols=202  Identities=17%  Similarity=0.205  Sum_probs=150.9

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccc--------cccCCCCCceee-ecc
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL--------LEMNPEKRTIIP-TEY  242 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~--------~~~~~~~~~i~~-~~~  242 (386)
                      |+++|+|+|+|||+||||+|+|||.+|+++|+||++||+|+++++++.++|.....        .......+.+.. ...
T Consensus         1 M~~vi~v~s~kgGvGKTt~a~~LA~~la~~g~~VlliD~D~~~~~~~~~lg~~~~~~~~l~~~l~~~~~~~~~~~~~~~~   80 (260)
T 3q9l_A            1 MARIIVVTSGKGGVGKTTSSAAIATGLAQKGKKTVVIDFAIGLRNLDLIMGCERRVVYDFVNVIQGDATLNQALIKDKRT   80 (260)
T ss_dssp             -CEEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCSSCCHHHHTTCGGGCCSCHHHHHTTSSCHHHHCEECSSS
T ss_pred             CCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCcEEEEECCCCCCChhHHhCCCCcccCCHHHHhcCCCChHHheeccCCC
Confidence            57899999999999999999999999999999999999999888999888876431        001111122222 234


Q ss_pred             CCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCC-CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHH
Q 016622          243 LGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWG-ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFID  321 (386)
Q Consensus       243 ~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~-~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~  321 (386)
                      ++++++|.+.... ...+.    ...+.++++.++ . .|||||||+||+.+.....  .+..+|.+++|+.++..++..
T Consensus        81 ~~l~~lp~~~~~~-~~~~~----~~~~~~~l~~l~-~~~yD~viiD~p~~~~~~~~~--~l~~ad~vi~v~~~~~~s~~~  152 (260)
T 3q9l_A           81 ENLYILPASQTRD-KDALT----REGVAKVLDDLK-AMDFEFIVCDSPAGIETGALM--ALYFADEAIITTNPEVSSVRD  152 (260)
T ss_dssp             TTEEEECCCSCCC-TTSSC----HHHHHHHHHHHH-HTTCSEEEEECCSSSSHHHHH--HHHTCSEEEEEECSSHHHHHH
T ss_pred             CCEEEecCCCccc-hhhCC----HHHHHHHHHHHh-ccCCCEEEEcCCCCCCHHHHH--HHHhCCEEEEEecCChhHHHH
Confidence            7999999876532 12222    234555555554 5 8999999999998864443  356789999999999999999


Q ss_pred             HHHHHHHHHcCCC--------CeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          322 VAKGVRMFSKLKV--------PCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       322 ~~~~~~~l~~~~~--------~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      +.++++.++..+.        ...|+|+|+++.......    .....+++.+.+|.++++.||+++.+.++
T Consensus       153 ~~~~~~~l~~~~~~~~~~~~~~~~~~v~N~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~Ip~~~~~~~a  220 (260)
T 3q9l_A          153 SDRILGILASKSRRAENGEEPIKEHLLLTRYNPGRVSRG----DMLSMEDVLEILRIKLVGVIPEDQSVLRA  220 (260)
T ss_dssp             HHHHHHHHTTSSHHHHTTCSCCEEEEEEEEECHHHHHTT----SSCCHHHHHHHHCSEEEEEEECCHHHHHH
T ss_pred             HHHHHHHHHHhccccccccCCcceEEEEecCCccccccc----cccCHHHHHHHhCCceEEecCCChhHHHH
Confidence            9999999987652        578999999875431000    00135889999999999999999998765

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=99.95  E-value=5.6e-27  Score=223.03  Aligned_cols=200  Identities=19%  Similarity=0.183  Sum_probs=147.0

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc-cc----ccC-----CCCCceeeec
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR-LL----EMN-----PEKRTIIPTE  241 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~-~~----~~~-----~~~~~i~~~~  241 (386)
                      .+|+|+|+ |||||||||+|+|||.+||++|+||++||+|+++++...+.+.... ..    ...     .....+....
T Consensus        47 ~aKVIAIa-GKGGVGKTTtavNLA~aLA~~GkkVllID~Dpq~~s~~~l~~~~~~~~~~~~~~~~~~~~~~~~~d~i~~~  125 (314)
T 3fwy_A           47 GAKVFAVY-GKGGIGKSTTSSNLSAAFSILGKRVLQIGCDPKHDSTFTLTGSLVPTVIDVLKDVDFHPEELRPEDFVFEG  125 (314)
T ss_dssp             CCEEEEEE-CSTTSSHHHHHHHHHHHHHHTTCCEEEEEESSSCCTTHHHHTSCCCCHHHHHHHTTSCGGGCCHHHHCEEC
T ss_pred             CceEEEEE-CCCccCHHHHHHHHHHHHHHCCCeEEEEecCCCCcccccccCCCCCcchhhHhhhccccccccHhHheeec
Confidence            46899998 7999999999999999999999999999999998776544332211 00    000     0111223344


Q ss_pred             cCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHH
Q 016622          242 YLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFID  321 (386)
Q Consensus       242 ~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~  321 (386)
                      ..++++++.+....... +........+..+.+...++.||||++|++++.....+. ..+.++|.+++|++++..++.+
T Consensus       126 ~~~i~~v~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~d~~D~v~iD~~~~~~~~~~~-~al~aAd~viIvt~~e~~Al~~  203 (314)
T 3fwy_A          126 FNGVMCVEAGGPPAGTG-CGGYVVGQTVKLLKQHHLLDDTDVVIFDVLGDVVCGGFA-APLQHADQAVVVTANDFDSIYA  203 (314)
T ss_dssp             GGGCEEEECCCCCTTCS-CTTHHHHHHHHHHHHTTTTSSCSEEEEEECCSSCCGGGG-GGGGTCSEEEEEECSSHHHHHH
T ss_pred             CCCeEEEeCCCCcccch-hhhccHHHHHHHHHhcchhhcCceEeeccCCcchhhhhH-hHHhhCCeEEEEeCCcHHHHHH
Confidence            56889998775433322 233444556666665555689999999999887643332 3366789999999999999999


Q ss_pred             HHHHHHHHHcC----CCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          322 VAKGVRMFSKL----KVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       322 ~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      +.++++.++..    +.++.|+|+|+....           ...+++++.++.++++.||+++.++++
T Consensus       204 ~~~l~~~i~~~~~~~~~~l~GiI~n~~~~~-----------~~v~~~a~~~~~~~lg~IP~d~~Vr~a  260 (314)
T 3fwy_A          204 MNRIIAAVQAKSKNYKVRLAGCVANRSRAT-----------DEVDRFCKETNFRRLAHMPDLDAIRRS  260 (314)
T ss_dssp             HHHHHHHHHTTTTTCCCEEEEEEEESCSCC-----------HHHHHHHHHHTCCEEEEECCCHHHHHH
T ss_pred             HHHHHHHHHHHhccCCCceEEEEEcCCCch-----------hHHHHHHHHhCCeEEEEecCchHHHHH
Confidence            99888877653    566789999986532           347889999999999999999999875

>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=99.95  E-value=1.1e-27  Score=222.41  Aligned_cols=198  Identities=24%  Similarity=0.269  Sum_probs=149.7

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc---cc----ccCCCCCceeeeccCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR---LL----EMNPEKRTIIPTEYLG  244 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~---~~----~~~~~~~~i~~~~~~~  244 (386)
                      |+++|+|+|+|||+||||+|+|||.+|+++|+||++||+|+++++++.+||....   +.    ......+.+.+ ...+
T Consensus         1 M~~~I~v~s~kgGvGKTt~a~~LA~~la~~g~~VlliD~D~~~~~l~~~l~~~~~~~~l~~~l~~~~~~~~~i~~-~~~~   79 (263)
T 1hyq_A            1 MVRTITVASGKGGTGKTTITANLGVALAQLGHDVTIVDADITMANLELILGMEGLPVTLQNVLAGEARIDEAIYV-GPGG   79 (263)
T ss_dssp             -CEEEEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEECCCSSSSHHHHTTCCCCCCCHHHHHTTSSCGGGGCEE-CGGG
T ss_pred             CCeEEEEECCCCCCCHHHHHHHHHHHHHhCCCcEEEEECCCCCCCcchhcCCCCCCCCHHHHHcCCCcHHHhhee-CCCC
Confidence            5689999999999999999999999999999999999999998898888887543   11    11111222222 2468


Q ss_pred             ceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHH
Q 016622          245 VKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAK  324 (386)
Q Consensus       245 l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~  324 (386)
                      ++++|............    ...+.++++.+. +.|||||||+||+.+......  +..+|.+++|+.++..++.++.+
T Consensus        80 l~~lp~~~~~~~~~~~~----~~~l~~~l~~l~-~~yD~viiD~~~~~~~~~~~~--~~~ad~vi~v~~~~~~~~~~~~~  152 (263)
T 1hyq_A           80 VKVVPAGVSLEGLRKAN----PEKLEDVLTQIM-ESTDILLLDAPAGLERSAVIA--IAAAQELLLVVNPEISSITDGLK  152 (263)
T ss_dssp             CEEEECCSCHHHHHHHC----HHHHHHHHHHHH-HTCSEEEEECCSSSSHHHHHH--HHHSSEEEEEECSSHHHHHHHHH
T ss_pred             eEEEcCCCCcChhhccC----hHHHHHHHHHHH-hhCCEEEEeCCCCCChHHHHH--HHHCCEEEEEeCCChhHHHHHHH
Confidence            99999432211111100    345555665555 789999999999988544433  55679999999999999999999


Q ss_pred             HHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          325 GVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       325 ~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      .++.+++.+.+..|+|+|+++.....        ...+++.+.+|.++++.||+++.+.++
T Consensus       153 ~~~~l~~~~~~~~~vv~N~~~~~~~~--------~~~~~~~~~~~~~~~~~Ip~~~~~~~a  205 (263)
T 1hyq_A          153 TKIVAERLGTKVLGVVVNRITTLGIE--------MAKNEIEAILEAKVIGLIPEDPEVRRA  205 (263)
T ss_dssp             HHHHHHHHTCEEEEEEEEEECTTTHH--------HHHHHHHHHTTSCEEEEEECCHHHHHH
T ss_pred             HHHHHHhcCCCeeEEEEccCCccccc--------chHHHHHHHhCCCeEEECCCCHHHHHH
Confidence            99999888889999999998754311        246788888999999999999988765

>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=99.95  E-value=2.4e-27  Score=220.71  Aligned_cols=202  Identities=21%  Similarity=0.119  Sum_probs=136.6

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCc---------cc----ccccCCCCCce
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPE---------NR----LLEMNPEKRTI  237 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~---------~~----~~~~~~~~~~i  237 (386)
                      +++++|+|+|+|||+||||+|+|||.+|| +|+||++||+|++++....+++..         ..    +.......+.+
T Consensus        25 ~~~~vI~v~s~kGGvGKTT~a~~LA~~la-~g~~VlliD~D~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~i  103 (267)
T 3k9g_A           25 KKPKIITIASIKGGVGKSTSAIILATLLS-KNNKVLLIDMDTQASITSYFYEKIEKLGINFTKFNIYEILKENVDIDSTI  103 (267)
T ss_dssp             -CCEEEEECCSSSSSCHHHHHHHHHHHHT-TTSCEEEEEECTTCHHHHHTHHHHHHTTCCTTTSSHHHHHTTSSCGGGGC
T ss_pred             CCCeEEEEEeCCCCchHHHHHHHHHHHHH-CCCCEEEEECCCCCCHHHHhhccccccccCcccccHHHHhcCCCCHHHhh
Confidence            56799999999999999999999999999 999999999999885544432111         00    11111222333


Q ss_pred             eeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc
Q 016622          238 IPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL  317 (386)
Q Consensus       238 ~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~  317 (386)
                      ... .+|++++|.+.................+.++++.+. +.|||||||+||+.+......  +..+|.+++|++++..
T Consensus       104 ~~~-~~~l~~lp~~~~~~~~~~~~~~~~~~~l~~~l~~l~-~~yD~viiD~pp~~~~~~~~~--l~~aD~vivv~~~~~~  179 (267)
T 3k9g_A          104 INV-DNNLDLIPSYLTLHNFSEDKIEHKDFLLKTSLGTLY-YKYDYIVIDTNPSLDVTLKNA--LLCSDYVIIPMTAEKW  179 (267)
T ss_dssp             EEE-ETTEEEECCCGGGGGTTTCCCTTGGGHHHHHHHTTC-TTCSEEEEEECSSCSHHHHHH--HTTCSEEEEEEESCTT
T ss_pred             ccC-CCCEEEEeCChHHHHHHHhhhhhHHHHHHHHHHHhh-cCCCEEEEECcCCccHHHHHH--HHHCCeEEEEeCCChH
Confidence            333 479999998754332211111112346777777776 799999999999997654433  5668999999999999


Q ss_pred             hHHHHHHHHHHHHcCCCC-eEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhcC
Q 016622          318 AFIDVAKGVRMFSKLKVP-CIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYMI  386 (386)
Q Consensus       318 s~~~~~~~~~~l~~~~~~-i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~ai  386 (386)
                      ++..+.++++.+++.+.+ .+++|+||+.....       .+...+.+.+  +.++++.||+++.+.+++
T Consensus       180 s~~~~~~~~~~l~~~~~~~~~~vv~N~~~~~~~-------~~~~~~~l~~--~~~~~~~Ip~~~~~~~a~  240 (267)
T 3k9g_A          180 AVESLDLFNFFVRKLNLFLPIFLIITRFKKNRT-------HKTLFEILKT--KDRFLGTISEREDLNRRI  240 (267)
T ss_dssp             HHHHHHHHHHHHHTTTCCCCEEEEEEEECTTCS-------CCHHHHHHTT--STTEEEEEEC--------
T ss_pred             HHHHHHHHHHHHHHHhccCCEEEEEecccCcch-------HHHHHHHHhc--CcccceecCcHHHHHHHH
Confidence            999999999999988543 35799999843221       1122333333  789999999999998764

>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=99.94  E-value=1.7e-26  Score=217.09  Aligned_cols=173  Identities=17%  Similarity=0.217  Sum_probs=136.0

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc------ccccCCCCCceeeeccCC
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR------LLEMNPEKRTIIPTEYLG  244 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~------~~~~~~~~~~i~~~~~~~  244 (386)
                      +..++|+|+|+|||+||||+|+|||..||+.|+||+|||+|+++++++.+|+....      +.......+.+.+...++
T Consensus        90 ~~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLID~D~~~~~l~~~~~~~~~~gl~~~l~~~~~~~~~i~~~~~~~  169 (286)
T 3la6_A           90 AQNNVLMMTGVSPSIGMTFVCANLAAVISQTNKRVLLIDCDMRKGYTHELLGTNNVNGLSEILIGQGDITTAAKPTSIAK  169 (286)
T ss_dssp             TTCCEEEEEESSSSSSHHHHHHHHHHHHHTTTCCEEEEECCTTTCCHHHHHTCCCTTCHHHHHHTSSCTTTTCEECSSTT
T ss_pred             CCCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEeccCCCCCHHHHhCCCCCCCHHHHccCCCCHHHheeccCCCC
Confidence            34579999999999999999999999999999999999999999999988887643      222234455666667789


Q ss_pred             ceEEecCCCCC-cccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHHHH
Q 016622          245 VKLVSFGFSGQ-GRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDV  322 (386)
Q Consensus       245 l~vl~~~~~~~-~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~~~  322 (386)
                      ++++|.+.... ....+....    +.++++.++ +.||+|||||||..... ...+  ...+|.+++|+.++..+...+
T Consensus       170 l~vl~~g~~~~~~~ell~~~~----l~~ll~~l~-~~yD~VIIDtpp~~~~~da~~l--~~~aD~vllVv~~~~~~~~~~  242 (286)
T 3la6_A          170 FDLIPRGQVPPNPSELLMSER----FAELVNWAS-KNYDLVLIDTPPILAVTDAAIV--GRHVGTTLMVARYAVNTLKEV  242 (286)
T ss_dssp             EEEECCCSCCSCHHHHHTSHH----HHHHHHHHH-HHCSEEEEECCCTTTCTHHHHH--TTTCSEEEEEEETTTSBHHHH
T ss_pred             EEEEeCCCCCCCHHHHhchHH----HHHHHHHHH-hCCCEEEEcCCCCcchHHHHHH--HHHCCeEEEEEeCCCCcHHHH
Confidence            99999886543 333444444    444444444 78999999999977532 2222  334699999999999999999


Q ss_pred             HHHHHHHHcCCCCeEEEEEcCCcCCCCC
Q 016622          323 AKGVRMFSKLKVPCIAVVENMCHFDADG  350 (386)
Q Consensus       323 ~~~~~~l~~~~~~i~gvVlN~~~~~~~~  350 (386)
                      .+.++.+++.+.+++|+|+|+++....+
T Consensus       243 ~~~~~~l~~~g~~~~GvVlN~v~~~~~~  270 (286)
T 3la6_A          243 ETSLSRFEQNGIPVKGVILNSIFRRASA  270 (286)
T ss_dssp             HHHHHHHHHTTCCCCEEEEEEECCCCCT
T ss_pred             HHHHHHHHhCCCCEEEEEEcCccccccC
Confidence            9999999999999999999999866543

>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=99.94  E-value=1.6e-26  Score=212.22  Aligned_cols=194  Identities=15%  Similarity=0.080  Sum_probs=143.1

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccccccc----CC------------------
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEM----NP------------------  232 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~----~~------------------  232 (386)
                      .|+| |+|||+||||+|+|||..||++|+||++||+|++ ++++.+||........    ..                  
T Consensus         2 kI~v-s~kGGvGKTt~a~~LA~~la~~g~~VlliD~D~~-~~l~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (254)
T 3kjh_A            2 KLAV-AGKGGVGKTTVAAGLIKIMASDYDKIYAVDGDPD-SCLGQTLGLSIEEAYAITPLIEMKDEIREKTGDGGLLILN   79 (254)
T ss_dssp             EEEE-ECSSSHHHHHHHHHHHHHHTTTCSCEEEEEECTT-SCHHHHTTCCHHHHHTSCCGGGCHHHHHHHHCSSSCCCSS
T ss_pred             EEEE-ecCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCC-cChHHHhCCCcccccccccchhHHHHHHhhccCCcccccC
Confidence            4888 7899999999999999999999999999999997 7888888865432100    00                  


Q ss_pred             CCCceee----eccCCceE-EecCCCCCcccccCCchHHHHHHHHHHhc-CCCCCcEEEEcCCCCCChHHHhhhhhcCCC
Q 016622          233 EKRTIIP----TEYLGVKL-VSFGFSGQGRAIMRGPMVSGVINQLLTTT-EWGELDYLVIDMPPGTGDIQLTLCQVVPLT  306 (386)
Q Consensus       233 ~~~~i~~----~~~~~l~v-l~~~~~~~~~~~~~~~~~~~~l~~ll~~~-~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d  306 (386)
                      ..-...+    ....++++ ++.+.......... ......+.++++.+ . ++||||||||||+.+....  ..+..+|
T Consensus        80 ~~l~~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~~~~~l~~~l~~l~~-~~yD~viiD~pp~~~~~~~--~~l~~aD  155 (254)
T 3kjh_A           80 PKVDGDLDKYGRYIDDKIFLIRMGEIKKGGSQCY-CRENSFLGSVVSALFL-DKKEAVVMDMGAGIEHLTR--GTAKAVD  155 (254)
T ss_dssp             CCCTTSGGGSSEESSSSEEEEECCCCCCCCSSCC-HHHHHHHHHHHHHHHH-TCCSEEEEEECTTCTTCCH--HHHTTCS
T ss_pred             CchhccHHhcccccCCeEEEEEecccccCCCCCC-cchHHHHHHHHHHhcc-CCCCEEEEeCCCcccHHHH--HHHHHCC
Confidence            0000111    12346777 77664322111111 11113466666665 4 8999999999999876433  3356789


Q ss_pred             eEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhC-CCeEEecCCChhhhhc
Q 016622          307 AAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFG-IPHLFDLPIRPTVSYM  385 (386)
Q Consensus       307 ~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g-~pvl~~IP~d~~i~~a  385 (386)
                      .+++|+.++..++..+.++.+.+++.+...+++|+||++..           ...+++.+.++ .++.+.||+++.+.++
T Consensus       156 ~viiv~~~~~~s~~~~~~~~~~~~~~~~~~~~~v~N~~~~~-----------~~~~~~~~~~~~~~~~~~Ip~~~~~~~a  224 (254)
T 3kjh_A          156 MMIAVIEPNLNSIKTGLNIEKLAGDLGIKKVRYVINKVRNI-----------KEEKLIKKHLPEDKILGIIPYNELFIEL  224 (254)
T ss_dssp             EEEEEECSSHHHHHHHHHHHHHHHHHTCSCEEEEEEEECCH-----------HHHHHHHHHSCGGGEEEEEECCHHHHSC
T ss_pred             EEEEecCCCHHHHHHHHHHHHHHHHcCCccEEEEEeCCCCh-----------hHHHHHHHHhcCCcccccccCcHHHHHH
Confidence            99999999999999999999999998988899999998732           24677888887 8899999999998876

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=99.94  E-value=4.8e-27  Score=217.64  Aligned_cols=198  Identities=21%  Similarity=0.299  Sum_probs=141.2

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc--c---cccCCCCCceeeeccCCc
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR--L---LEMNPEKRTIIPTEYLGV  245 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~--~---~~~~~~~~~i~~~~~~~l  245 (386)
                      +.+++|+|+|+|||+||||+|+|||..|+++|+||++||+|+++ ++..+++....  +   .......+.+.+  .+++
T Consensus         4 ~~~~vI~v~s~kGGvGKTt~a~~LA~~la~~g~~VlliD~D~~~-~~~~~l~~~~~~~l~~~l~~~~~~~~i~~--~~~l   80 (257)
T 1wcv_1            4 AKVRRIALANQKGGVGKTTTAINLAAYLARLGKRVLLVDLDPQG-NATSGLGVRAERGVYHLLQGEPLEGLVHP--VDGF   80 (257)
T ss_dssp             -CCCEEEECCSSCCHHHHHHHHHHHHHHHHTTCCEEEEECCTTC-HHHHHTTCCCSCCHHHHHTTCCGGGTCEE--ETTE
T ss_pred             CCCEEEEEEeCCCCchHHHHHHHHHHHHHHCCCCEEEEECCCCc-CHHHHhCCCCCCCHHHHHcCCCHHHHccc--cCCE
Confidence            35689999999999999999999999999999999999999975 56666765432  1   000112222333  5799


Q ss_pred             eEEecCCCCCcc--cccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHH
Q 016622          246 KLVSFGFSGQGR--AIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVA  323 (386)
Q Consensus       246 ~vl~~~~~~~~~--~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~  323 (386)
                      +++|.+......  ......   ..+.++++.   +.||||||||||+.+......  +..+|.+++|+.++..++..+.
T Consensus        81 ~vlp~~~~~~~~~~~l~~~~---~~l~~~l~~---~~yD~iiiD~pp~~~~~~~~~--l~~aD~viiv~~~~~~s~~~~~  152 (257)
T 1wcv_1           81 HLLPATPDLVGATVELAGAP---TALREALRD---EGYDLVLLDAPPSLSPLTLNA--LAAAEGVVVPVQAEYYALEGVA  152 (257)
T ss_dssp             EEECCCTTHHHHHHHHTTCT---THHHHHCCC---TTCSEEEEECCSSCCHHHHHH--HHHCSEEEEEEESSTHHHHHHH
T ss_pred             EEEeCChhHHHHHHHHhhHH---HHHHHHhcc---cCCCEEEEeCCCCCCHHHHHH--HHHCCeEEEEecCchHHHHHHH
Confidence            999876532211  111110   344454433   689999999999988654433  4567999999999999999888


Q ss_pred             HHHHHHHc------CCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeE-EecCCChhhhhc
Q 016622          324 KGVRMFSK------LKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHL-FDLPIRPTVSYM  385 (386)
Q Consensus       324 ~~~~~l~~------~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl-~~IP~d~~i~~a  385 (386)
                      ++++.+++      .+.++.|+|+|+++....      ..+...+.+.+.+|.+++ +.||+++.+.++
T Consensus       153 ~~~~~l~~~~~~~~~~~~~~gvv~N~~~~~~~------~~~~~~~~l~~~~~~~~~~~~Ip~~~~~~~a  215 (257)
T 1wcv_1          153 GLLATLEEVRAGLNPRLRLLGILVTMYDGRTL------LAQQVEAQLRAHFGEKVFWTVIPRNVRLAEA  215 (257)
T ss_dssp             HHHHHHHHHHHHTCTTCEEEEEEEESBCTTCS------HHHHHHHHHHHHHGGGBCSCCCBCCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCceEEEEEEEeECCCcH------HHHHHHHHHHHHccccccCccCCCcHHHHHH
Confidence            88877754      256778999999875431      112345677888898876 789999988765

>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=99.93  E-value=8e-26  Score=201.63  Aligned_cols=169  Identities=15%  Similarity=0.139  Sum_probs=130.6

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF  252 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~  252 (386)
                      ||+|+|+|+|||+||||+|.|||..|+++|+||++||+|++++.. .+++.                 ...++++++.+.
T Consensus         1 M~vi~v~s~kgG~GKTt~a~~la~~la~~g~~vlliD~D~~~~~~-~~~~~-----------------~~~~~~~~~~~~   62 (206)
T 4dzz_A            1 MKVISFLNPKGGSGKTTAVINIATALSRSGYNIAVVDTDPQMSLT-NWSKA-----------------GKAAFDVFTAAS   62 (206)
T ss_dssp             CEEEEECCSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTTCHHH-HHHTT-----------------SCCSSEEEECCS
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEEECCCCCCHH-HHHhc-----------------CCCCCcEEecCc
Confidence            579999999999999999999999999999999999999876433 22221                 112477777542


Q ss_pred             CCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcC
Q 016622          253 SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKL  332 (386)
Q Consensus       253 ~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~  332 (386)
                                    ..+.++++.+. ++|||||||+||+.+......  +..+|.+++|+.++..+ ..+.++++.+++.
T Consensus        63 --------------~~l~~~l~~l~-~~yD~viiD~~~~~~~~~~~~--l~~ad~viiv~~~~~~~-~~~~~~~~~l~~~  124 (206)
T 4dzz_A           63 --------------EKDVYGIRKDL-ADYDFAIVDGAGSLSVITSAA--VMVSDLVIIPVTPSPLD-FSAAGSVVTVLEA  124 (206)
T ss_dssp             --------------HHHHHTHHHHT-TTSSEEEEECCSSSSHHHHHH--HHHCSEEEEEECSCTTT-HHHHHHHHHHHTT
T ss_pred             --------------HHHHHHHHHhc-CCCCEEEEECCCCCCHHHHHH--HHHCCEEEEEecCCHHH-HHHHHHHHHHHHH
Confidence                          34555555555 689999999999997554444  55579999999999999 9999999999876


Q ss_pred             C-----CCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeE-EecCCChhhhhc
Q 016622          333 K-----VPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHL-FDLPIRPTVSYM  385 (386)
Q Consensus       333 ~-----~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl-~~IP~d~~i~~a  385 (386)
                      +     .++ |+|+||++....  .     .....+..+.+|.+++ +.||+++.+.++
T Consensus       125 ~~~~~~~~~-~vv~N~~~~~~~--~-----~~~~~~~l~~~~~~vl~~~Ip~~~~~~~a  175 (206)
T 4dzz_A          125 QAYSRKVEA-RFLITRKIEMAT--M-----LNVLKESIKDTGVKAFRTAITQRQVYVKS  175 (206)
T ss_dssp             SCGGGCCEE-EEEECSBCTTEE--E-----EHHHHHHHHHHTCCBCSSCCBCCHHHHHH
T ss_pred             HHhCCCCcE-EEEEeccCCCch--H-----HHHHHHHHHHcCCceeeccccccHHHHHH
Confidence            4     344 999999885432  1     1235666677899999 899999988765

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=99.93  E-value=5.2e-26  Score=211.70  Aligned_cols=202  Identities=20%  Similarity=0.184  Sum_probs=138.3

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc------cccc---CCCCCceeeeccC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR------LLEM---NPEKRTIIPTEYL  243 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~------~~~~---~~~~~~i~~~~~~  243 (386)
                      |++|+| ++|||+||||+|+|||.+||++|+||++||+|++++....+++....      +...   ....+ +.....+
T Consensus         1 M~vI~v-s~KGGvGKTT~a~nLA~~la~~G~~VlliD~D~q~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~-~i~~~~~   78 (269)
T 1cp2_A            1 MRQVAI-YGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPKADSTRLLLGGLAQKSVLDTLREEGEDVELDS-ILKEGYG   78 (269)
T ss_dssp             CEEEEE-EECTTSSHHHHHHHHHHHHHTTTCCEEEEEECTTSCSSHHHHTSCCCCCHHHHHHHHGGGCCHHH-HCEECGG
T ss_pred             CcEEEE-ecCCCCcHHHHHHHHHHHHHHCCCcEEEEcCCCCCCHHHHhcCCCCcccHHHHHhccCcCCCHHH-hhccCCC
Confidence            479999 68999999999999999999999999999999999887766654322      0000   01111 1234467


Q ss_pred             CceEEecCCCCCcccccCCch-HHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhh-hhhcCCCeEEEEeCCCcchHHH
Q 016622          244 GVKLVSFGFSGQGRAIMRGPM-VSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTL-CQVVPLTAAVIVTTPQKLAFID  321 (386)
Q Consensus       244 ~l~vl~~~~~~~~~~~~~~~~-~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~-~~~~~~d~vviV~~~~~~s~~~  321 (386)
                      |++++|.+............. ....+.+.++.+. ++||||||||||+.....+.. .....+|.+++|+.++..++..
T Consensus        79 ~l~vl~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~-~~yD~iiiD~~~~~~~~~~~~~~~~~~aD~viiv~~~~~~s~~~  157 (269)
T 1cp2_A           79 GIRCVESGGPEPGVGCAGRGIITSINMLEQLGAYT-DDLDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALYA  157 (269)
T ss_dssp             GCEEEECCCCCTTSSCHHHHHHHHHHHHHHTTCCC-TTCSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECSSHHHHHH
T ss_pred             CeeEEeCCCchhhccccCcchhhHHHHHHHHHhhc-cCCCEEEEeCCchhhhhhhhhhhhHhhCCEEEEeecCchhhHHH
Confidence            999999875432211000000 0011222233333 679999999998664321111 1113579999999999999999


Q ss_pred             HHHHHHHHHcC----CCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          322 VAKGVRMFSKL----KVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       322 ~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      +.++++.+++.    +.+++|+|+|+++...        .+...+++.+.+|.++++.||+++.+.++
T Consensus       158 ~~~~~~~l~~~~~~~~~~~~gvv~N~~~~~~--------~~~~~~~l~~~~~~~v~~~Ip~~~~~~~a  217 (269)
T 1cp2_A          158 ANNISKGIQKYAKSGGVRLGGIICNSRKVAN--------EYELLDAFAKELGSQLIHFVPRSPMVTKA  217 (269)
T ss_dssp             HHHHHHHHHHHBTTBBCEEEEEEEECCSSSC--------CHHHHHHHHHHHTCCEEEEECCCHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCcEEEEEeecCCcch--------hHHHHHHHHHHcCCcccccCCCCcHHHHH
Confidence            98888887653    5678899999986322        12356788889999999999999988765

>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=99.93  E-value=6.8e-26  Score=211.57  Aligned_cols=171  Identities=22%  Similarity=0.248  Sum_probs=129.1

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccc------cccCCCCCceeeeccCCc
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL------LEMNPEKRTIIPTEYLGV  245 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~------~~~~~~~~~i~~~~~~~l  245 (386)
                      .+++|+|+|.|||+||||+|+|||..||+.|+||++||+|+++++++.+|+.....      .......+.+.+...+++
T Consensus        81 ~~kvI~vts~kgG~GKTt~a~nLA~~lA~~G~rVLLID~D~~~~~l~~~~~~~~~~gl~~~L~~~~~l~~~i~~~~~~~l  160 (271)
T 3bfv_A           81 AVQSIVITSEAPGAGKSTIAANLAVAYAQAGYKTLIVDGDMRKPTQHYIFNLPNNEGLSSLLLNWSTYQDSIISTEIEDL  160 (271)
T ss_dssp             CCCEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCSSSCCHHHHTTCCCSSSHHHHHTTSSCHHHHEEECSSTTE
T ss_pred             CCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCCccHHHHcCCCCCCCHHHHhCCCCCHHHcEEeCCCCCE
Confidence            45799999999999999999999999999999999999999999998888865431      111112234445555899


Q ss_pred             eEEecCCCCCc-ccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHHHHH
Q 016622          246 KLVSFGFSGQG-RAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDVA  323 (386)
Q Consensus       246 ~vl~~~~~~~~-~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~~~~  323 (386)
                      +++|.+..... ...+..+    .+.++++.++ +.||||||||||..... ...+  ...+|.+++|+.++..+...+.
T Consensus       161 ~vl~~g~~~~~~~ell~~~----~l~~ll~~l~-~~yD~VIIDtpp~~~~~d~~~l--~~~aD~vilVv~~~~~~~~~~~  233 (271)
T 3bfv_A          161 DVLTSGPIPPNPSELITSR----AFANLYDTLL-MNYNFVIIDTPPVNTVTDAQLF--SKFTGNVVYVVNSENNNKDEVK  233 (271)
T ss_dssp             EEECCCSCCSCHHHHHTSH----HHHHHHHHHH-HHCSEEEEECCCTTTCSHHHHH--HHHHCEEEEEEETTSCCHHHHH
T ss_pred             EEEECCCCCCCHHHHhChH----HHHHHHHHHH-hCCCEEEEeCCCCchHHHHHHH--HHHCCEEEEEEeCCCCcHHHHH
Confidence            99998865332 2333444    3444444444 78999999999976421 1222  2235999999999999999999


Q ss_pred             HHHHHHHcCCCCeEEEEEcCCcCCCC
Q 016622          324 KGVRMFSKLKVPCIAVVENMCHFDAD  349 (386)
Q Consensus       324 ~~~~~l~~~~~~i~gvVlN~~~~~~~  349 (386)
                      +.++.+++.+.+++|+|+|+++....
T Consensus       234 ~~~~~l~~~~~~~~GvVlN~~~~~~~  259 (271)
T 3bfv_A          234 KGKELIEATGAKLLGVVLNRMPKDKS  259 (271)
T ss_dssp             HHHHHHHTTTCEEEEEEEEEECC---
T ss_pred             HHHHHHHhCCCCEEEEEEeCCcCCCC
Confidence            99999999999999999999986554

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=99.93  E-value=1.2e-25  Score=211.84  Aligned_cols=200  Identities=21%  Similarity=0.183  Sum_probs=137.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc--c---cccC-----CCCCceeeecc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR--L---LEMN-----PEKRTIIPTEY  242 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~--~---~~~~-----~~~~~i~~~~~  242 (386)
                      |++|+| ++|||+||||+|+|||.+||++|+||++||+|++++.+..+++....  +   ....     .....+.....
T Consensus         2 MkvIav-s~KGGvGKTT~a~nLA~~La~~G~rVlliD~D~q~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~i~~~~   80 (289)
T 2afh_E            2 MRQCAI-YGKGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKADSTRLILHSKAQNTIMEMAAEAGTVEDLELEDVLKAGY   80 (289)
T ss_dssp             CEEEEE-EECTTSSHHHHHHHHHHHHHHTTCCEEEEEECSSSCSSHHHHCCSSCCBHHHHHHTTSSGGGCCHHHHCEECG
T ss_pred             ceEEEE-eCCCcCcHHHHHHHHHHHHHHCCCeEEEEecCCCCCHHHHhcCCCCCCcHHHHHhcccccccCCHHHhhccCC
Confidence            479999 58999999999999999999999999999999999887766554322  1   1100     00011223446


Q ss_pred             CCceEEecCCCCCcccccCCchHHHH--HHHHHHhcC--CCCCcEEEEcCCCCCChHHHh-hhhhcCCCeEEEEeCCCcc
Q 016622          243 LGVKLVSFGFSGQGRAIMRGPMVSGV--INQLLTTTE--WGELDYLVIDMPPGTGDIQLT-LCQVVPLTAAVIVTTPQKL  317 (386)
Q Consensus       243 ~~l~vl~~~~~~~~~~~~~~~~~~~~--l~~ll~~~~--~~~yD~VIIDtpp~~~~~~~~-~~~~~~~d~vviV~~~~~~  317 (386)
                      +|++++|.+.......    ......  ..++++.+.  .++||||||||||......+. ......+|.+++|++++..
T Consensus        81 ~~l~~l~~~~~~~~~~----~~~~~~~~~~~l~~~l~~l~~~yD~ViID~~~~~~~~~~~~~~~~~~aD~viiv~~~~~~  156 (289)
T 2afh_E           81 GGVKCVESGGPEPGVG----CAGRGVITAINFLEEEGAYEDDLDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSGEMM  156 (289)
T ss_dssp             GGCEEEECCCCCTTTC----CHHHHHHHHHHHHHHTTCSSTTCSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECSSHH
T ss_pred             CCeEEEeCCCcccccc----ccchhhhHHHHHHHHHHhhccCCCEEEEeCCCccccchhhhhhhhhhCCEEEEEecCCHH
Confidence            7999999775422111    111111  113333331  268999999999865422111 1112357999999999999


Q ss_pred             hHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          318 AFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       318 s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      ++..+.++++.+++    .+.++.|+|+|+++...        .+...+.+.+.+|.++++.||+++.+.++
T Consensus       157 s~~~~~~~~~~l~~~~~~~~~~~~gvv~N~~~~~~--------~~~~~~~l~~~~g~~~l~~Ip~~~~~~~a  220 (289)
T 2afh_E          157 AMYAANNISKGIVKYANSGSVRLGGLICNSRNTDR--------EDELIIALANKLGTQMIHFVPRDNVVQRA  220 (289)
T ss_dssp             HHHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCTT--------HHHHHHHHHHHHTSCEEEEECCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCceEEEEEecCCchh--------HHHHHHHHHHHcCccccccCCCchhHHHH
Confidence            99999888877764    36778999999975321        12356788889999999999999988765

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=99.93  E-value=2e-25  Score=211.31  Aligned_cols=171  Identities=17%  Similarity=0.167  Sum_probs=131.3

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc------ccccCCCCCceeeeccCCc
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR------LLEMNPEKRTIIPTEYLGV  245 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~------~~~~~~~~~~i~~~~~~~l  245 (386)
                      .+++|+|+|.|||+||||+|+|||..||+.|+||++||+|+++++++.+|+....      +.......+.+.+...+++
T Consensus       103 ~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLID~D~r~~~l~~~~~~~~~~gl~~~L~~~~~l~~~i~~~~~~~l  182 (299)
T 3cio_A          103 ENNILMITGATPDSGKTFVSSTLAAVIAQSDQKVLFIDADLRRGYSHNLFTVSNEHGLSEYLAGKDELNKVIQHFGKGGF  182 (299)
T ss_dssp             SCCEEEEEESSSSSCHHHHHHHHHHHHHHTTCCEEEEECCTTTCCHHHHTTCCCSSSHHHHHTTSSCHHHHCEEETTTTE
T ss_pred             CCeEEEEECCCCCCChHHHHHHHHHHHHhCCCcEEEEECCCCCccHHHHcCCCCCCCHHHHCcCCCCHHHhhhccCCCCE
Confidence            4579999999999999999999999999999999999999999999888886543      1111122234555556899


Q ss_pred             eEEecCCCCCcc-cccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHHHHH
Q 016622          246 KLVSFGFSGQGR-AIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDVA  323 (386)
Q Consensus       246 ~vl~~~~~~~~~-~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~~~~  323 (386)
                      +++|.+...... ..+...    .+.++++.++ ++||||||||||..... ...+  ...+|.+++|+.++..+...+.
T Consensus       183 ~vl~~g~~~~~~~ell~~~----~l~~ll~~l~-~~yD~VIIDtpp~~~~~d~~~l--~~~ad~vilV~~~~~~~~~~~~  255 (299)
T 3cio_A          183 DVITRGQVPPNPSELLMRD----RMRQLLEWAN-DHYDLVIVDTPPMLAVSDAAVV--GRSVGTSLLVARFGLNTAKEVS  255 (299)
T ss_dssp             EEECCCSCCSCHHHHHTSH----HHHHHHHHHH-HHCSEEEEECCCTTTCTHHHHH--GGGCSEEEEEEETTTSCTTHHH
T ss_pred             EEEECCCCCCCHHHHhCHH----HHHHHHHHHH-hCCCEEEEcCCCCchhHHHHHH--HHHCCEEEEEEcCCCChHHHHH
Confidence            999987654332 333434    4444554444 78999999999977521 1222  2346999999999999999999


Q ss_pred             HHHHHHHcCCCCeEEEEEcCCcCCCC
Q 016622          324 KGVRMFSKLKVPCIAVVENMCHFDAD  349 (386)
Q Consensus       324 ~~~~~l~~~~~~i~gvVlN~~~~~~~  349 (386)
                      +.++.+++.+.+++|+|+|+++....
T Consensus       256 ~~~~~l~~~~~~~~GvVlN~~~~~~~  281 (299)
T 3cio_A          256 LSMQRLEQAGVNIKGAILNGVIKRAS  281 (299)
T ss_dssp             HHHHHHHHTTCCCCCEEEEECCCCCS
T ss_pred             HHHHHHHhCCCCeEEEEEeCCccCCC
Confidence            99999999999999999999987653

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=99.92  E-value=2.7e-25  Score=210.08  Aligned_cols=204  Identities=16%  Similarity=0.144  Sum_probs=144.7

Q ss_pred             CceEEEEEe--CcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCC---CCccCCCccc---cc---ccCCCCCceeee
Q 016622          172 ISNIVAVSS--CKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPS---LPTMVSPENR---LL---EMNPEKRTIIPT  240 (386)
Q Consensus       172 ~~kvI~v~s--~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~s---l~~~lg~~~~---~~---~~~~~~~~i~~~  240 (386)
                      +.++|+|++  +|||+||||+|+|||..|+++|+||++||+|++++.   +...++....   +.   ........+...
T Consensus        33 ~~~~i~v~~~s~KGGvGKTT~a~nLA~~la~~G~rVlliD~D~q~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~~~~~  112 (298)
T 2oze_A           33 KNEAIVILNNYFKGGVGKSKLSTMFAYLTDKLNLKVLMIDKDLQATLTKDLAKTFKVELPRVNFYEGLKNGNLASSIVHL  112 (298)
T ss_dssp             HCSCEEEEECCSSSSSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHTTTSCCCCCSSCHHHHHHHTCCGGGCEES
T ss_pred             CCcEEEEEeccCCCCchHHHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHhccCCCCcccHHHHHhcCChhhhhccc
Confidence            456899998  899999999999999999999999999999999864   2233443211   10   001112223322


Q ss_pred             ccCCceEEecCCCCCccccc----CCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc
Q 016622          241 EYLGVKLVSFGFSGQGRAIM----RGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK  316 (386)
Q Consensus       241 ~~~~l~vl~~~~~~~~~~~~----~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~  316 (386)
                       .+|++++|++........+    ........+.++++.+. ++||||||||||+.+......  +..+|.+++|+.++.
T Consensus       113 -~~~l~vlp~~~~~~~~~~l~~~~~~~~~~~~l~~~l~~l~-~~yD~IiiD~pp~~~~~~~~~--l~~aD~viiv~~~~~  188 (298)
T 2oze_A          113 -TDNLDLIPGTFDLMLLPKLTRSWTFENESRLLATLLAPLK-SDYDLIIIDTVPTPSVYTNNA--IVASDYVMIPLQAEE  188 (298)
T ss_dssp             -SSSEEEECCCGGGGGHHHHTTTSCHHHHHTHHHHHHGGGG-GGCSEEEEEECSSCSHHHHHH--HHHCSEEEEEECGGG
T ss_pred             -CCCeEEEeCCchHHHHHHHhhhhccccHHHHHHHHHHHHh-cCCCEEEEECCCCccHHHHHH--HHHCCeEEEEecCcH
Confidence             4799999977533221111    11122345778887776 789999999999998654433  446899999999999


Q ss_pred             chHHHHHHHHHHHHc------CCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCC--CeE-EecCCChhhhhc
Q 016622          317 LAFIDVAKGVRMFSK------LKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGI--PHL-FDLPIRPTVSYM  385 (386)
Q Consensus       317 ~s~~~~~~~~~~l~~------~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~--pvl-~~IP~d~~i~~a  385 (386)
                      .++..+.++++.+++      .+.+++|+|+||++....      ..+...+++.+.++.  +++ ..||++..+.++
T Consensus       189 ~s~~~~~~~~~~l~~~~~~~~~~~~~~gvv~n~~~~~~~------~~~~~~~~~~~~~~~~~~v~~~~Ip~~~~~~~a  260 (298)
T 2oze_A          189 ESTNNIQNYISYLIDLQEQFNPGLDMIGFVPYLVDTDSA------TIKSNLEELYKQHKEDNLVFQNIIKRSNKVSTW  260 (298)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHCTTCEEEEEEEEESCTTCH------HHHHHHHHHHHHTTTTCCBCSSCEECCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCeEEEEEEEEECCCcH------HHHHHHHHHHHHhccccccccccccccHHHHHH
Confidence            999999999888866      367889999999876431      112356778888886  554 589999888765

>3ez9_A Para; DNA binding, winged-HTH, partition, biosynthetic protein; 2.80A {Salmonella enterica subsp} PDB: 3ezf_A

Probab=99.92  E-value=9.5e-26  Score=222.38  Aligned_cols=206  Identities=18%  Similarity=0.180  Sum_probs=119.3

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHH------HCCCcEEEEEcCCCCCCCCccCCCcccccc---------------
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLA------GMGARVGIFDADVYGPSLPTMVSPENRLLE---------------  229 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La------~~G~rVllID~D~~~~sl~~~lg~~~~~~~---------------  229 (386)
                      .++++|+|+|+|||+||||+|+|||.+||      ++|+||++||+|+++ +++.+||.......               
T Consensus       109 ~~~~vIav~s~KGGvGKTT~a~nLA~~LA~~g~~~~~g~rVlliD~D~~~-~l~~~l~~~~~~~~~~~~~~~~l~~~~~~  187 (403)
T 3ez9_A          109 KSPYVIFVVNLKGGVSKTVSTVTLAHALRVHQDLLRHDLRILVIDLDPQA-SSTMFLDHTHSIGSILETAAQAMLNNLDA  187 (403)
T ss_dssp             CSCEEEEECCC--------CHHHHHHHHHSCGGGGGGCCCEEEEEESSSS-GGGSCC----------CCHHHHHHHTCCH
T ss_pred             CCceEEEEEcCCCCchHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCCCC-ChhhhhCCCcccCcccccHHHHHHhcccc
Confidence            46789999999999999999999999999      689999999999976 78888876542110               


Q ss_pred             cCCCCCceeeeccCCceEEecCCCCCcc---------cccC-CchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhh
Q 016622          230 MNPEKRTIIPTEYLGVKLVSFGFSGQGR---------AIMR-GPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTL  299 (386)
Q Consensus       230 ~~~~~~~i~~~~~~~l~vl~~~~~~~~~---------~~~~-~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~  299 (386)
                      .......+.+...+|++++|++......         ..+. .......++++++.+. ++||||||||||+++..... 
T Consensus       188 ~~~~~~~i~~~~~~~l~~lp~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~-~~yD~VIID~pP~~~~~~~~-  265 (403)
T 3ez9_A          188 ETLRKEVIRPTIVPGVDVIPASIDDGFVASQWRELVEEHLPGQNQYEILRRNIIDRVA-DDYDFIFIDTGPHLDPFLLN-  265 (403)
T ss_dssp             HHHHHTTSEECSSTTEEEECCCTTHHHHHHTHHHHHHHHSTTSCTTSHHHHHTGGGSG-GGCSEEEEEECSSCSHHHHH-
T ss_pred             cccHHHHHhhcccCCceEEecCcchhhHHHHHHHHHHHhccccchHHHHHHHHHHHHh-hcCCEEEEECCCCccHHHHH-
Confidence            0011234555566899999987642100         0011 1111224456666665 78999999999999855443 


Q ss_pred             hhhcCCCeEEEEeCCCcchHHHHHH-------HHHHHHcC--CCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCC
Q 016622          300 CQVVPLTAAVIVTTPQKLAFIDVAK-------GVRMFSKL--KVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGI  370 (386)
Q Consensus       300 ~~~~~~d~vviV~~~~~~s~~~~~~-------~~~~l~~~--~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~  370 (386)
                       .+..+|.+++|++|+..++..+.+       .++.+++.  +.++.|++.|+.......     ..+...+.+.+.+|.
T Consensus       266 -al~~aD~vliv~~p~~~~~~~~~~~l~~l~~~~~~l~~~~~~~~l~giv~vl~~~~~~~-----~~~~~~~~~~~~~g~  339 (403)
T 3ez9_A          266 -GLAASDLLLTPTPPAQVDFHSTLKYLTRLPEMLEQLEEEGVEPRLSASIGFMSKMTGKR-----DHETSHSLAREVYAS  339 (403)
T ss_dssp             -HHHHCSEEEEEECSSHHHHHHHHHHHHTHHHHHHHHHHTTCCCCCCEEEEEECC---CH-----HHHHHHHHHHHHHTT
T ss_pred             -HHHHCCEEEEEecCchhhHHHHHHHHHHHHHHHHHHHhcCCCCceeEEEEEEeccCCch-----hHHHHHHHHHHHhhH
Confidence             356789999999999886654444       44444544  444555544333222210     011245677888999


Q ss_pred             CeE-EecCCChhhhhc
Q 016622          371 PHL-FDLPIRPTVSYM  385 (386)
Q Consensus       371 pvl-~~IP~d~~i~~a  385 (386)
                      +++ +.||+++.+.++
T Consensus       340 ~vl~~~IP~~~~v~~a  355 (403)
T 3ez9_A          340 NILDSSLPRLDGFERC  355 (403)
T ss_dssp             SEECCC----------
T ss_pred             hhhceeCCchHHHHHH
Confidence            998 899999998875

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae}

Probab=99.92  E-value=8.1e-25  Score=212.58  Aligned_cols=174  Identities=20%  Similarity=0.172  Sum_probs=121.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcc---------------------cccc--
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPEN---------------------RLLE--  229 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~---------------------~~~~--  229 (386)
                      ||+|+|+|+|||+||||+|+|||..||++|+||++||+|++++....+++...                     .+.+  
T Consensus         1 MkvIav~s~KGGvGKTT~a~nLA~~LA~~G~rVLlID~D~q~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~d~l   80 (361)
T 3pg5_A            1 MRTISFFNNKGGVGKTTLSTNVAHYFALQGKRVLYVDCDPQCNATQLMLTEEQTESIYLDGLNDEVAERNSLAKTVYAIF   80 (361)
T ss_dssp             CEEEEBCCSSCCHHHHHHHHHHHHHHHHTTCCEEEEECCTTCTTHHHHSCHHHHHHHCCC----CGGGGGHHHHSGGGGG
T ss_pred             CeEEEEEcCCCCCcHHHHHHHHHHHHHhCCCcEEEEEcCCCCChhhhhcCchhhhhhhcccccccccccccccCCHHHHH
Confidence            58999999999999999999999999999999999999999877666654321                     1111  


Q ss_pred             ------cCCCCC--ceeeeccCCceEEecCCCCCccccc-C--------Cc----hHHHHHHHHHHhcC-CCCCcEEEEc
Q 016622          230 ------MNPEKR--TIIPTEYLGVKLVSFGFSGQGRAIM-R--------GP----MVSGVINQLLTTTE-WGELDYLVID  287 (386)
Q Consensus       230 ------~~~~~~--~i~~~~~~~l~vl~~~~~~~~~~~~-~--------~~----~~~~~l~~ll~~~~-~~~yD~VIID  287 (386)
                            .....+  .+.....+|++++|++......... .        +.    .....+.++++.++ +..|||||||
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~L~llp~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~ll~~l~~~~~yD~VIID  160 (361)
T 3pg5_A           81 VPLREGESQIAAEITPMRSERFGVDVLPGHPALSQIEDLMSDSWQSALGRQTGPFRRIHWAGQLAHAMERDDRYDVIFFD  160 (361)
T ss_dssp             HHHHTTCSSCCCCCCCBCCTTTTSEEECCCGGGGTHHHHHHHHHHHHHTTCHHHHTTTTHHHHHHHHHHHTTCCSEEEEE
T ss_pred             HHHhcCCCChhhcceeeccCCCCEEEEeCCchHHHHHHHHHHHhhhhhccccchhhHHHHHHHHHHHHhhccCCCEEEEE
Confidence                  011111  2334445699999987543322111 0        00    00123555665554 1389999999


Q ss_pred             CCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcC--------------------C--------------
Q 016622          288 MPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKL--------------------K--------------  333 (386)
Q Consensus       288 tpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~--------------------~--------------  333 (386)
                      |||+++.....  .+..+|.+++|+.++..++..+.++++.+++.                    +              
T Consensus       161 ~pP~l~~~~~~--aL~~aD~viip~~~~~~s~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~  238 (361)
T 3pg5_A          161 VGPSLGPFNRT--VLLGCDAFVTPTATDLFSFHAFGNLARWFDAWVTQYAEIHEGNMAEWKKYSADVEAKTRPLRLGGFD  238 (361)
T ss_dssp             CCSCCSHHHHH--HHTTCSEEEEEECCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSTHHHHTSSSCTTSSS
T ss_pred             CCCCcCHHHHH--HHHHCCEEEEEecCChHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccCCcccccccccccccccc
Confidence            99999855444  36678999999999999999998888777554                    1              


Q ss_pred             ---CCeEEEEEcCCcCCC
Q 016622          334 ---VPCIAVVENMCHFDA  348 (386)
Q Consensus       334 ---~~i~gvVlN~~~~~~  348 (386)
                         .+++|+|+|+++...
T Consensus       239 ~~~l~~lG~v~n~~~~r~  256 (361)
T 3pg5_A          239 GEGLRYLGYTTLEYVKRR  256 (361)
T ss_dssp             SSCCEEEEEEECC-----
T ss_pred             ccccceeeEEEEcchhhc
Confidence               778999999988765

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A

Probab=99.92  E-value=5.5e-26  Score=223.74  Aligned_cols=206  Identities=16%  Similarity=0.188  Sum_probs=140.9

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHH------CCCcEEEEEcCCCCCCCCccCCCccccc-----------cc---
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAG------MGARVGIFDADVYGPSLPTMVSPENRLL-----------EM---  230 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~------~G~rVllID~D~~~~sl~~~lg~~~~~~-----------~~---  230 (386)
                      .++++|+|+|+|||+||||+|+|||.+||.      +|+||++||+|+++ +++.+||......           ..   
T Consensus       106 ~~~~vIav~s~KGGvGKTT~a~nLA~~La~~~~~~~~g~rVlliD~D~q~-~l~~~l~~~~~~~~~~~~~~~~l~~~~~~  184 (398)
T 3ez2_A          106 SEAYVIFISNLKGGVSKTVSTVSLAHAMRAHPHLLMEDLRILVIDLDPQS-SATMFLSHKHSIGIVNATSAQAMLQNVSR  184 (398)
T ss_dssp             CSCEEEEECCSSSSSSHHHHHHHHHHHHHHCTTTGGGCCCEEEEEECTTC-HHHHHHSCHHHHSSCCSCHHHHHHHCCCH
T ss_pred             CCCeEEEEEeCCCCccHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCCCC-ChhHHhCCccccccccccHHHHHHhhccc
Confidence            467899999999999999999999999994      79999999999965 6777777643210           00   


Q ss_pred             -CCCCCceeeeccCCceEEecCCCCCcc----------cccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhh
Q 016622          231 -NPEKRTIIPTEYLGVKLVSFGFSGQGR----------AIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTL  299 (386)
Q Consensus       231 -~~~~~~i~~~~~~~l~vl~~~~~~~~~----------~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~  299 (386)
                       ....+.+.+...+|++++|++......          ...........++++++.+. ++||||||||||+++......
T Consensus       185 ~~~~~~~i~~~~~~~l~vlp~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~l~-~~yD~ViiD~pp~~~~~~~~~  263 (398)
T 3ez2_A          185 EELLEEFIVPSVVPGVDVMPASIDDAFIASDWRELCNEHLPGQNIHAVLKENVIDKLK-SDYDFILVDSGPHLDAFLKNA  263 (398)
T ss_dssp             HHHHHHTCEECSSTTEEEECCCTTHHHHHHTHHHHHHHHSTTSCTTSHHHHHTHHHHT-TTCSEEEEEECSCCSHHHHHH
T ss_pred             cccHHHHhhcccCCCceEecCCchhhhHHHHHHHHHHhhccccChHHHHHHHHHHHhh-ccCCEEEEeCCCCccHHHHHH
Confidence             001223455566899999987642100          00011111234456666665 799999999999998665544


Q ss_pred             hhhcCCCeEEEEeCCCcchHHHHHH-------HHHHHHcC--CCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCC
Q 016622          300 CQVVPLTAAVIVTTPQKLAFIDVAK-------GVRMFSKL--KVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGI  370 (386)
Q Consensus       300 ~~~~~~d~vviV~~~~~~s~~~~~~-------~~~~l~~~--~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~  370 (386)
                        +..+|.+++|++|+..++..+.+       .++.+++.  +.++.|+|.|+.......     ..+...+++.+.+|.
T Consensus       264 --l~~aD~vliv~~p~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~giv~~~~~~~~~~-----~~~~~~~~l~~~~g~  336 (398)
T 3ez2_A          264 --LASANILFTPLPPATVDFHSSLKYVARLPELVKLISDEGCECQLATNIGFMSKLSNKA-----DHKYCHSLAKEVFGG  336 (398)
T ss_dssp             --HHHCSEEEEEECCSHHHHHHHHHHHHHHHHHHHHHHHTSCCCCCCCEEEEEEEECSCH-----HHHHHHHHHHHHHGG
T ss_pred             --HHHCCEEEEEecCchhhHHHHHHHHHHHHHHHHHHHHcCCCCceeEEEEEEecCCCch-----hHHHHHHHHHHHhcc
Confidence              55789999999999886554444       44444444  455667776665543211     011346778888999


Q ss_pred             CeE-EecCCChhhhhc
Q 016622          371 PHL-FDLPIRPTVSYM  385 (386)
Q Consensus       371 pvl-~~IP~d~~i~~a  385 (386)
                      +++ +.||+++.+.++
T Consensus       337 ~vl~~~IP~~~~i~~a  352 (398)
T 3ez2_A          337 DMLDVFLPRLDGFERC  352 (398)
T ss_dssp             GBCSCCEECCHHHHHH
T ss_pred             cccceeccchHHHHHH
Confidence            888 799999998875

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=99.91  E-value=6.4e-25  Score=214.29  Aligned_cols=197  Identities=19%  Similarity=0.223  Sum_probs=136.1

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccc--cc---c-C--------CCCCc
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL--LE---M-N--------PEKRT  236 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~--~~---~-~--------~~~~~  236 (386)
                      +.+++|+|+|+|||+||||+|+|||..||++|+||++||+| ..++++.++|.....  .+   . .        ...+.
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~La~~g~rVlliD~D-~~~~l~~~lg~~~~~~l~d~l~~~~~~~~~~~~~l~~~  219 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAHANMGKKVFYLNIE-QCGTTDVFFQAEGNATMSDVIYSLKSRKANLLLKLESC  219 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHHHHHTCCEEEEECC-TTCCHHHHCCCSCSCCHHHHHHHHHSCCSCHHHHHHHT
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEECC-CCCCHHHHcCCCCCCCHHHHHhhhhcccccccccHHHH
Confidence            46789999999999999999999999999999999999999 677888888876441  00   0 0        01112


Q ss_pred             eeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc
Q 016622          237 IIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK  316 (386)
Q Consensus       237 i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~  316 (386)
                      + .....|++++|++........+........++.+..   ++.||||||||||+.+.....+  +..+|.+++|++|+.
T Consensus       220 i-~~~~~~l~~l~~~~~~~~~~~~~~~~~~~ll~~l~~---~~~yD~VIID~p~~~~~~~~~~--l~~aD~vivv~~~~~  293 (373)
T 3fkq_A          220 I-KQSQEGVSYFSSTKVALDILEISYADIDTLIGNIQG---MDNYDEIIVDLPFSLEIEKLKL--LSKAWRIIVVNDGSQ  293 (373)
T ss_dssp             C-EECTTSCEECCCCSSGGGGGGCCHHHHHHHHHHHHH---TSCCSEEEEECCCCCCHHHHHH--HTTCSEEEEEECCCH
T ss_pred             h-hcCCCCEEEecCCCChHhHHhCCHHHHHHHHHHHHh---cCCCCEEEEeCCCCCCHHHHHH--HHHCCEEEEEecCCc
Confidence            2 223479999998765544444444444445555442   3689999999999998665554  567799999999999


Q ss_pred             ch---HHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhh
Q 016622          317 LA---FIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVS  383 (386)
Q Consensus       317 ~s---~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~  383 (386)
                      .+   +.++.+.++.++.. . .+++|.|++.....      +. ...+++.+..+++++|.||+|+...
T Consensus       294 ~s~~~l~~~~~~l~~l~~~-~-~~~vv~N~~~v~~~------~~-~~~~~fl~~~~l~~lG~IP~D~~~~  354 (373)
T 3fkq_A          294 LSNYKFMRAYESVVLLEQN-D-DINIIRNMNMIYNK------FS-NKNSEMLSNISIKTIGGAPRYEHAT  354 (373)
T ss_dssp             HHHHHHHHHHHHHHHHTTS-T-TCCCGGGEEEEECS------CC-TTTCCCCCSCSCEEEEECCCCTTCC
T ss_pred             hHHHHHHHHHHHHHHhccc-C-CcEEEehhHHHHHH------HH-HHHHHHhhcCCccceeecCCCCCcC
Confidence            88   55666666666552 2 25666666432110      00 1122223346899999999998754

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=99.91  E-value=3.2e-24  Score=207.40  Aligned_cols=202  Identities=20%  Similarity=0.218  Sum_probs=136.3

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEec
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSF  250 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~  250 (386)
                      +.+++|+|+|+|||+||||+|+|||..||++|+||++||+|+ +++++.+|+........       .....++++....
T Consensus        23 ~~~~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlvD~D~-~~~l~~~l~~~~~~~~~-------~v~g~~~l~~~~i   94 (349)
T 3ug7_A           23 KDGTKYIMFGGKGGVGKTTMSAATGVYLAEKGLKVVIVSTDP-AHSLRDIFEQEFGHEPT-------KVKGYDNLYVVEI   94 (349)
T ss_dssp             SCSCEEEEEECSSSTTHHHHHHHHHHHHHHSSCCEEEEECCT-TCHHHHHHCSCCCSSCE-------ECTTCSSEEEEEC
T ss_pred             cCCCEEEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEEeCCC-CCCHHHHhCCCCCcCcc-------ccccccceeeecc
Confidence            456899999999999999999999999999999999999999 56888887764221000       0000122222211


Q ss_pred             CCC-----------------------CC----cccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHH-hhh--
Q 016622          251 GFS-----------------------GQ----GRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL-TLC--  300 (386)
Q Consensus       251 ~~~-----------------------~~----~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~-~~~--  300 (386)
                      ...                       ..    ......+......+.++.+.+.+.+||||||||||+.+...+ .+.  
T Consensus        95 d~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~pg~~e~~~~~~l~~~~~~~~yD~VIiDtpPt~~tlrlL~~p~~  174 (349)
T 3ug7_A           95 DPQKAMEEYKEKLKAQIEENPFLGEMLEDQLEMAALSPGTDESAAFDVFLKYMDSNEFDVVIFDTAPTGHTLRFLGMPEV  174 (349)
T ss_dssp             CHHHHHHHHHHHHHHHGGGCHHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHHCCSCSEEEECSCCCTTGGGGGGHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHhcccchhhHHHHHHhccCCCHHHHHHHHHHHHHHHhCCCCEEEECCCCChHHHHHHhhHHH
Confidence            100                       00    000112222223344444444447999999999996532100 000  


Q ss_pred             --------------------------------------------------------hhc--CCCeEEEEeCCCcchHHHH
Q 016622          301 --------------------------------------------------------QVV--PLTAAVIVTTPQKLAFIDV  322 (386)
Q Consensus       301 --------------------------------------------------------~~~--~~d~vviV~~~~~~s~~~~  322 (386)
                                                                              .+.  ..+.+++|++|+..++.++
T Consensus       175 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~L~d~~~~~~vlV~~p~~~~~~e~  254 (349)
T 3ug7_A          175 MDKYMTKLIKLRKQMSGFMKMMKKLLPFGGKDEDIDYDKMLEELEKMKERIVRARNILSDPERTAFRLVVIPEEMSILES  254 (349)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSCC-------CHHHHHHHHHHHHHHHHHHHHHHTCTTTEEEEEEECSSHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhccccccccccCCchHHHHHHHHHHHHHHHHHHHHhCCCCceEEEEECCCccHHHHH
Confidence                                                                    011  1378999999999999999


Q ss_pred             HHHHHHHHcCCCCeEEEEEcCCcCCCC-----CceecccCCChHHHHHHHhCCCeEEecCCChh
Q 016622          323 AKGVRMFSKLKVPCIAVVENMCHFDAD-----GKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPT  381 (386)
Q Consensus       323 ~~~~~~l~~~~~~i~gvVlN~~~~~~~-----~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~  381 (386)
                      .+.++.+++.|+++.|+|+||+.+...     +..+..+ +...+++++.++.+.++.||+++.
T Consensus       255 ~r~~~~l~~~~i~v~gvV~N~~~~~~~~~~~~~~~~~~~-~~~l~~i~~~~~~~~l~~iPl~~~  317 (349)
T 3ug7_A          255 ERAMKALQKYGIPIDAVIVNQLIPEDVQCDFCRARRELQ-LKRLEMIKEKFGDKVIAYVPLLRT  317 (349)
T ss_dssp             HHHHHHHHHTTCCEEEEEEEEECCSCCCSHHHHHHHHHH-HHHHHHHHHHSTTSEEEEEECCSS
T ss_pred             HHHHHHHHHCCCCeeEEEEcCCccccCCCchHHHHHHHH-HHHHHHHHHHcCCCcEEEecCCCC
Confidence            999999999999999999999887632     1111223 457899999999999999999864

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=99.90  E-value=4.1e-24  Score=204.67  Aligned_cols=206  Identities=17%  Similarity=0.214  Sum_probs=131.3

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCc----eee---------
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRT----IIP---------  239 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~----i~~---------  239 (386)
                      +++|+|+|+|||+||||+|+|||.++|++|+||++||+|+ +++++.+|+..............    +.+         
T Consensus        13 m~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlvD~D~-~~~l~~~l~~~~~~~~~~v~~~l~~~~~d~~~~~~~~~~   91 (324)
T 3zq6_A           13 KTTFVFIGGKGGVGKTTISAATALWMARSGKKTLVISTDP-AHSLSDSLEREIGHTPTKITENLYAVEIDPEVAMEEYQA   91 (324)
T ss_dssp             BCEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEECCS-SCCHHHHHTSCCCSSCEEEETTEEEEECCHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEeCCC-CcCHHHHhCCcCCCCCccCCCCceeeccChHHHHHHHHH
Confidence            4799999999999999999999999999999999999999 67888888764210000000000    000         


Q ss_pred             -eccCCceEEecCCCCC-----cccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHH-Hhhh------------
Q 016622          240 -TEYLGVKLVSFGFSGQ-----GRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQ-LTLC------------  300 (386)
Q Consensus       240 -~~~~~l~vl~~~~~~~-----~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~-~~~~------------  300 (386)
                       .......+++.+....     ....+.+......+.++.+.+.+.+||+|||||||+.+... +.+.            
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~l~~~~~~pg~~e~~~~~~~~~~~~~~~yD~VIiDtpPt~~~l~lL~~p~~~~~~~~~l~~  171 (324)
T 3zq6_A           92 KLQEQAAMNPGMGLDMLQDQMDMASMSPGIDEAAAFDQFLRYMTTDEYDIVIFDTAPTGHTLRLLSFPEIMDSWVGKMIK  171 (324)
T ss_dssp             HC---------------------CTTSTTHHHHHHHHHHHHHHHHCCCSEEEEECCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccchhhhHHHHHHhccCCChHHHHHHHHHHHHHHhCCCCEEEECCCCCHHHHHHHHhHHHHHHHHHHHHH
Confidence             0000011222221100     00112233333344444444334799999999999432100 0000            


Q ss_pred             --------------------------------------------hhcC--CCeEEEEeCCCcchHHHHHHHHHHHHcCCC
Q 016622          301 --------------------------------------------QVVP--LTAAVIVTTPQKLAFIDVAKGVRMFSKLKV  334 (386)
Q Consensus       301 --------------------------------------------~~~~--~d~vviV~~~~~~s~~~~~~~~~~l~~~~~  334 (386)
                                                                  .+..  .+.+++|++|+..++.++.+.++.+++.|+
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~d~~~~~~vlV~~p~~~~~~~~~~~~~~l~~~gi  251 (324)
T 3zq6_A          172 IRRQIGSMAKAFKNILPFMGDEEEEDRALQDMEATKKQINAAREVMSDPERTSFKMVVIPEEMSIYESERAMKALEKYSI  251 (324)
T ss_dssp             HHHHHHHHHTTTTTTSCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTCTTTEEEEEEECSSHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhhhccccCCcccchHHHHHHHHHHHHHHHHHHHhcCCCCCeEEEEeCCcccHHHHHHHHHHHHHHCCC
Confidence                                                        0111  258999999999999999999999999999


Q ss_pred             CeEEEEEcCCcCCCCC-----ceecccCCChHHHHHHHhCCCeEEecCCCh
Q 016622          335 PCIAVVENMCHFDADG-----KRYYPFGRGSGSQVVQQFGIPHLFDLPIRP  380 (386)
Q Consensus       335 ~i~gvVlN~~~~~~~~-----~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~  380 (386)
                      ++.|+|+||+.+....     ..+..+ ...++++.+.++.+.++.||+.+
T Consensus       252 ~v~gvV~N~~~~~~~~~~~~~~~~~~~-~~~l~~i~~~~~~~~~~~iPl~~  301 (324)
T 3zq6_A          252 HADGVIVNQVLPEESDCEFCNARRKLQ-QERLKQIREKFSDKVVAEVPLLK  301 (324)
T ss_dssp             CEEEEEEEEECCSCCCSHHHHHHHHHH-HHHHHHHHHHTTTSEEEEEECCS
T ss_pred             CccEEEEcCCccccCCChHHHHHHHHH-HHHHHHHHHHcCCCcEEEecCCC
Confidence            9999999998875321     111222 35788999999999999999865

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=99.90  E-value=2.8e-25  Score=209.08  Aligned_cols=197  Identities=18%  Similarity=0.138  Sum_probs=130.5

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCc-eEEec
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGV-KLVSF  250 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l-~vl~~  250 (386)
                      |+++|+|+|+|||+||||+|+|||..|+++|+||++||+|+.++++..+++....+....  .    .....++ +++|.
T Consensus         3 M~kvI~v~s~KGGvGKTT~a~nLA~~La~~G~~VlliD~D~~q~~l~~~l~~~~~~~~~~--~----~~~~~~l~~vl~~   76 (286)
T 2xj4_A            3 ETRVIVVGNEKGGAGKSTIAVHLVTALLYGGAKVAVIDLDLRQRTSARFFENRRAWLDNK--K----IELPEPLALNLSD   76 (286)
T ss_dssp             -CEEEEECCSSSCTTHHHHHHHHHHHHHHTTCCEEEEECCTTTCHHHHHHHHHHHHHHHH--T----CCCCCCEEECSSS
T ss_pred             CCeEEEEEcCCCCCCHHHHHHHHHHHHHHCCCcEEEEECCCCCCCHHHHhCCChhHhHhc--c----ccCCCchheEeeC
Confidence            678999999999999999999999999999999999999996677777776443211100  0    0012366 66764


Q ss_pred             CC--CCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHH
Q 016622          251 GF--SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRM  328 (386)
Q Consensus       251 ~~--~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~  328 (386)
                      +.  ......    ......+.++++.+. +.||||||||||+.+.....  .+..+|.+++|+.++..++..+.++++.
T Consensus        77 ~~~~~~~~~~----~~~~~~l~~~l~~l~-~~yD~viiD~p~~~~~~~~~--~l~~aD~viiv~~~~~~~~~~~~~~~~~  149 (286)
T 2xj4_A           77 NDVALAERPE----EEQVAGFEAAFARAM-AECDFILIDTPGGDSAITRM--AHGRADLVVTPMNDSFVDFDMLGTVDPV  149 (286)
T ss_dssp             CHHHHTTSCH----HHHHHHHHHHHHHHH-HHCSEEEEECCSSCCHHHHH--HHHTCSEEEEEEESSHHHHTTTEEECTT
T ss_pred             CCCCCcChhh----hhhHHHHHHHHHHHH-hcCCEEEEcCCCCccHHHHH--HHHHCCEEEEEEcCCccHHHHHHHHHHH
Confidence            21  111111    112335556666555 78999999999998754443  3667899999999999887765544443


Q ss_pred             -------------H---Hc-------CC-CCeEEEEEcCCcCCC-CCceecccCCChHHHHHHHhCCCeEEecCCChhhh
Q 016622          329 -------------F---SK-------LK-VPCIAVVENMCHFDA-DGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVS  383 (386)
Q Consensus       329 -------------l---~~-------~~-~~i~gvVlN~~~~~~-~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~  383 (386)
                                   +   ++       .+ .+ +++|+||++... .....   -...++++++.+|.++.+.||++..+.
T Consensus       150 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~-~~vV~N~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~~~Ip~~~~~~  225 (286)
T 2xj4_A          150 TLELTKPSLYSLTVWEGRKQRALSGQRQAMD-WVVLRNRLATTEARNRKR---LEDRLNALAKRVGFRIGPGLRDRVIYR  225 (286)
T ss_dssp             TCCEEEECHHHHHHHHHHHHHHHHCSSCCCE-EEEEEECCTTCCGGGHHH---HHHHHHHHHHHHCCEEEECCCCCHHHH
T ss_pred             hhhccccchhhhhhhcchhhhhhccCCcccc-EEEEEeeecCCCcchhHH---HHHHHHHHHHHcCCccCCCCCchHHHH
Confidence                         3   21       13 33 679999987643 11000   001223333348988889999999887


Q ss_pred             hc
Q 016622          384 YM  385 (386)
Q Consensus       384 ~a  385 (386)
                      ++
T Consensus       226 ~a  227 (286)
T 2xj4_A          226 EL  227 (286)
T ss_dssp             HH
T ss_pred             HH
Confidence            75

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=99.89  E-value=2e-23  Score=187.47  Aligned_cols=162  Identities=22%  Similarity=0.241  Sum_probs=121.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFS  253 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~  253 (386)
                      ++|+|+|+|||+||||+|+|||..|+++| ||++||+|++++ +..+++. .         +  .     ..++++..  
T Consensus         1 kvI~v~s~KGGvGKTT~a~~LA~~la~~g-~VlliD~D~q~~-~~~~~~~-~---------~--l-----~~~vi~~~--   59 (209)
T 3cwq_A            1 MIITVASFKGGVGKTTTAVHLSAYLALQG-ETLLIDGDPNRS-ATGWGKR-G---------S--L-----PFKVVDER--   59 (209)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHHHHTTS-CEEEEEECTTCH-HHHHHHH-S---------C--C-----SSEEEEGG--
T ss_pred             CEEEEEcCCCCCcHHHHHHHHHHHHHhcC-CEEEEECCCCCC-HHHHhcC-C---------C--C-----CcceeCHH--
Confidence            48999999999999999999999999999 999999999863 3333332 0         0  0     11445421  


Q ss_pred             CCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCC-CChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcC
Q 016622          254 GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPG-TGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKL  332 (386)
Q Consensus       254 ~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~-~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~  332 (386)
                                    .++.+    . +.||||||||||+ .+......  +..+|.+++|+.++..++..+.++++.+++.
T Consensus        60 --------------~l~~l----~-~~yD~viiD~p~~~~~~~~~~~--l~~aD~viiv~~~~~~~~~~~~~~~~~l~~~  118 (209)
T 3cwq_A           60 --------------QAAKY----A-PKYQNIVIDTQARPEDEDLEAL--ADGCDLLVIPSTPDALALDALMLTIETLQKL  118 (209)
T ss_dssp             --------------GHHHH----G-GGCSEEEEEEECCCSSSHHHHH--HHTSSEEEEEECSSHHHHHHHHHHHHHHHHT
T ss_pred             --------------HHHHh----h-hcCCEEEEeCCCCcCcHHHHHH--HHHCCEEEEEecCCchhHHHHHHHHHHHHhc
Confidence                          33333    2 7899999999999 66544433  5567999999999999999999999999885


Q ss_pred             -CCCeEEEEEcCCcCCC-CCceecccCCChHHHHHHHhCCCeE-EecCCChhhhhc
Q 016622          333 -KVPCIAVVENMCHFDA-DGKRYYPFGRGSGSQVVQQFGIPHL-FDLPIRPTVSYM  385 (386)
Q Consensus       333 -~~~i~gvVlN~~~~~~-~~~~~~~~~~~~~~~i~~~~g~pvl-~~IP~d~~i~~a  385 (386)
                       +.+ +++|+||++... ..      . ....+..+.+|.+++ +.||+++.+.++
T Consensus       119 ~~~~-~~vv~N~~~~~~~~~------~-~~~~~~l~~~g~~v~~~~Ip~~~~~~~a  166 (209)
T 3cwq_A          119 GNNR-FRILLTIIPPYPSKD------G-DEARQLLTTAGLPLFKRGIKRYSAFQKA  166 (209)
T ss_dssp             CSSS-EEEEECSBCCTTSCH------H-HHHHHHHHHTTCCBCSSCCBCCTHHHHH
T ss_pred             cCCC-EEEEEEecCCccchH------H-HHHHHHHHHcCCchhhccCCCcHHHHHH
Confidence             555 889999987643 11      0 123344445899988 789999988765

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A*

Probab=99.87  E-value=3.6e-23  Score=200.20  Aligned_cols=175  Identities=15%  Similarity=0.139  Sum_probs=114.3

Q ss_pred             cCCceEEEEEeCcCCCCHHHHHHHHHHHHH--HCCCcEEEEEcCCCCCCCCccCCCccccc--ccCCCCCc----eeee-
Q 016622          170 QKISNIVAVSSCKGGVGKSTVAVNLAYTLA--GMGARVGIFDADVYGPSLPTMVSPENRLL--EMNPEKRT----IIPT-  240 (386)
Q Consensus       170 ~~~~kvI~v~s~kGGvGKTTla~~LA~~La--~~G~rVllID~D~~~~sl~~~lg~~~~~~--~~~~~~~~----i~~~-  240 (386)
                      ....++|+|+|+|||+||||+|+|||..||  ++|+||++||+|++ ++++.+||.+....  ........    +.+. 
T Consensus        14 ~~~~~~i~v~sgKGGvGKTTvaanLA~~lA~~~~G~rVLLvD~D~~-~~l~~~lg~~~~~~~~~v~gl~~l~~~~id~~~   92 (354)
T 2woj_A           14 TSTTHKWIFVGGKGGVGKTTSSCSIAIQMALSQPNKQFLLISTDPA-HNLSDAFGEKFGKDARKVTGMNNLSCMEIDPSA   92 (354)
T ss_dssp             TCSSCCEEEEEESTTSSHHHHHHHHHHHHHHHCTTSCEEEEECCSS-CCHHHHHTSCCCSSCEECTTCSSEEEEECCHHH
T ss_pred             cCCCcEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEECCCC-CCHHHHhCCCCCCCceeecCCCceEEEecCHHH
Confidence            345579999999999999999999999999  99999999999995 89888888653200  00000000    0000 


Q ss_pred             ---------c-----------cCCceEEecCCCCCc-ccccCCchHHHHHHHHHHhcCCC------CCcEEEEcCCC-CC
Q 016622          241 ---------E-----------YLGVKLVSFGFSGQG-RAIMRGPMVSGVINQLLTTTEWG------ELDYLVIDMPP-GT  292 (386)
Q Consensus       241 ---------~-----------~~~l~vl~~~~~~~~-~~~~~~~~~~~~l~~ll~~~~~~------~yD~VIIDtpp-~~  292 (386)
                               .           ..++++++.+..... ...+.+......+.++++.+.+.      +|||||||||| |.
T Consensus        93 ~l~~~~~~~~~~~~~~~~~~~g~~l~~l~~~~~~~el~~~~pg~~e~~~l~~l~~~l~~~~~~~~~~yD~IIiDtpPtG~  172 (354)
T 2woj_A           93 ALKDMNDMAVSRANNNGSDGQGDDLGSLLQGGALADLTGSIPGIDEALSFMEVMKHIKRQEQGEGETFDTVIFDTAPTGH  172 (354)
T ss_dssp             HHHHHHTC--------------------CCSSHHHHHHTTSTTHHHHHHHHHHHHHHHHHHHTSCCSCSEEEEECCCHHH
T ss_pred             HHHHHHHHHHhhcccccccchhhhhhhccchhHHHHHhcCCCChHHHHHHHHHHHHHhcccccccCCCCEEEECCCCchH
Confidence                     0           003555542211000 01233333335666666665532      79999999999 42


Q ss_pred             C-------hH--------------HHhhh---------------------------hhc--CCCeEEEEeCCCcchHHHH
Q 016622          293 G-------DI--------------QLTLC---------------------------QVV--PLTAAVIVTTPQKLAFIDV  322 (386)
Q Consensus       293 ~-------~~--------------~~~~~---------------------------~~~--~~d~vviV~~~~~~s~~~~  322 (386)
                      .       +.              ...+.                           .+.  .+|.+++|++|+..++.++
T Consensus       173 tLrlL~~p~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~L~d~~~~~~vlV~~pe~~si~ea  252 (354)
T 2woj_A          173 TLRFLQLPNTLSKLLEKFGEITNKLGPMLNSFMGAGNVDISGKLNELKANVETIRQQFTDPDLTTFVCVCISEFLSLYET  252 (354)
T ss_dssp             HHHHHTHHHHHHHHHHCC---------------------CHHHHHHHHHHHHHHHHHHTCTTTEEEEEEEESSHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHhcCCCCcEEEEEeCCCcchHHHH
Confidence            0       00              00000                           000  4688999999999999999


Q ss_pred             HHHHHHHHcCCCCeEEEEEcCCc
Q 016622          323 AKGVRMFSKLKVPCIAVVENMCH  345 (386)
Q Consensus       323 ~~~~~~l~~~~~~i~gvVlN~~~  345 (386)
                      .++++.+++.++++.|+|+|++.
T Consensus       253 ~r~~~~L~~~g~~~~gvVvN~v~  275 (354)
T 2woj_A          253 ERLIQELISYDMDVNSIIVNQLL  275 (354)
T ss_dssp             HHHHHHHHHTTCCEEEEEEEEEC
T ss_pred             HHHHHHHHHcCCCCCEEEEecCC
Confidence            99999999999999999999998

>1byi_A Dethiobiotin synthase; biotin synthesis, cyclo-ligase, ligase; 0.97A {Escherichia coli} SCOP: c.37.1.10 PDB: 1bs1_A* 1a82_A 1dad_A* 1dae_A* 1daf_A* 1dag_A* 1dah_A* 1dai_A* 1dak_A* 1dam_A* 1dbs_A 1dts_A

Probab=99.86  E-value=1.4e-21  Score=176.71  Aligned_cols=195  Identities=13%  Similarity=0.048  Sum_probs=120.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCcc-CCCcc---c-ccccCCCCCceeeeccCCceEE
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTM-VSPEN---R-LLEMNPEKRTIIPTEYLGVKLV  248 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~-lg~~~---~-~~~~~~~~~~i~~~~~~~l~vl  248 (386)
                      |+|+|+|.|||+||||+|+|||.+|+++|+||+++|.  +....... .+...   . .........   .....+..++
T Consensus         2 k~I~v~s~kgGvGKTt~a~nLa~~la~~G~rVll~dp--~~~~~~~~~~~~~~~d~~~~~~~~~~~~---~~~~~~~~~~   76 (224)
T 1byi_A            2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYKP--VASGSEKTPEGLRNSDALALQRNSSLQL---DYATVNPYTF   76 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEECS--EEESCBCCTTSCBCHHHHHHHHTCSSCC---CHHHHCSEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcc--eecCCccCCCCcChHHHHHHHHHhCCCC---ChhhcccEEe
Confidence            6999999999999999999999999999999999863  33221110 01000   0 000000000   0000011222


Q ss_pred             ecCCCCCccccc-CCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHH---HhhhhhcC--CCeEEEEeCCCcchHHHH
Q 016622          249 SFGFSGQGRAIM-RGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQ---LTLCQVVP--LTAAVIVTTPQKLAFIDV  322 (386)
Q Consensus       249 ~~~~~~~~~~~~-~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~---~~~~~~~~--~d~vviV~~~~~~s~~~~  322 (386)
                      ..+........+ ........+.+.++.+. ++||||||||||+++...   .....+..  .+.+++|+.++..++.++
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~-~~yD~viID~p~~l~~p~~~~~~~~~l~~~~~~~vi~v~~~~~~~~~~~  155 (224)
T 1byi_A           77 AEPTSPHIISAQEGRPIESLVMSAGLRALE-QQADWVLVEGAGGWFTPLSDTFTFADWVTQEQLPVILVVGVKLGCINHA  155 (224)
T ss_dssp             SSCSCHHHHHHHHTCCCCHHHHHHHHHHHH-TTCSEEEEECSSSTTCEEETTEEHHHHHHHHTCCEEEEEECSTTHHHHH
T ss_pred             CCCCCHHHHHHHcCCCCCHHHHHHHHHHHH-HhCCEEEEEcCCccccCCCcchhHHHHHHHhCCCEEEEecCCCCcHHHH
Confidence            211110000000 00112345555555554 789999999999886311   11111111  135889999999999999


Q ss_pred             HHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCCh
Q 016622          323 AKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRP  380 (386)
Q Consensus       323 ~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~  380 (386)
                      .+.++.+++.+.++.|+|+||++....      ..+...+.+.+.+|.|+++.||+++
T Consensus       156 ~~~i~~l~~~~~~i~gvvlN~~~~~~~------~~~~~~~~l~~~~~~~vl~~Ip~~~  207 (224)
T 1byi_A          156 MLTAQVIQHAGLTLAGWVANDVTPPGK------RHAEYMTTLTRMIPAPLLGEIPWLA  207 (224)
T ss_dssp             HHHHHHHHHTTCCEEEEEEECCSSCCT------THHHHHHHHHHHSSSCEEEEECCCT
T ss_pred             HHHHHHHHHCCCcEEEEEEeCCCCchh------hHHHHHHHHHHHcCCCEEEECCCCc
Confidence            999999988899999999999876431      1123567788889999999999998

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=99.86  E-value=2.3e-22  Score=192.80  Aligned_cols=207  Identities=16%  Similarity=0.132  Sum_probs=129.7

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccccc--ccCCCCCce----eee----
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLL--EMNPEKRTI----IPT----  240 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~--~~~~~~~~i----~~~----  240 (386)
                      +..++|+|+|+|||+||||+|+|||..||++|+||++||+|++ ++++.+|+......  .........    .+.    
T Consensus        16 ~~~~~i~v~sgkGGvGKTTva~~LA~~lA~~G~rVllvD~D~~-~~l~~~l~~~~~~~~~~~~g~~~l~~~~~~~~~~~~   94 (329)
T 2woo_A           16 QTSLKWIFVGGKGGVGKTTTSCSLAIQMSKVRSSVLLISTDPA-HNLSDAFGTKFGKDARKVPGFDNLSAMEIDPNLSIQ   94 (329)
T ss_dssp             CTTCCEEEEECSSSSSHHHHHHHHHHHHHTSSSCEEEEECCTT-CHHHHHHSSCCCSSCEECTTCSSEEEEECCHHHHHH
T ss_pred             CCCCEEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEEEEECCCC-cCHHHHhCCcCCCCCeeccCCCCeeEEecCHHHHHH
Confidence            3457899999999999999999999999999999999999998 78888777642100  000000000    000    


Q ss_pred             -ccCC-----ce-EEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCC-CCC------hHH----------
Q 016622          241 -EYLG-----VK-LVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPP-GTG------DIQ----------  296 (386)
Q Consensus       241 -~~~~-----l~-vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp-~~~------~~~----------  296 (386)
                       ...+     ++ +++... ..-...+.++.....++++.+.+.|++|||||||||| |..      ...          
T Consensus        95 ~~~~~~~~~~l~~~l~~~l-~~l~~~~pg~~e~~~~~~~~~~l~~~~yD~ViiDtpPtg~~l~lL~~p~~~~~~l~~l~~  173 (329)
T 2woo_A           95 EMTEQADQQNPNNPLSGMM-QDLAFTIPGIDEALAFAEILKQIKSMEFDCVIFDTAPTGHTLRFLNFPTVLEKALGKLGG  173 (329)
T ss_dssp             HHHHTC--------CCHHH-HHHHTTSTTHHHHHHHHHHHHHHHHTCCSEEEEECCSSSCTTTGGGHHHHHHHHHHHHHT
T ss_pred             HHHHHHhhhhHHHHhhHHH-HHHhcCCCCHHHHHHHHHHHHHHHhCCCCEEEECCCCchHHHHHHHHHHHHHHHHHHHHH
Confidence             0000     11 111000 0001123444444566677776666799999999999 321      000          


Q ss_pred             ---------Hhhh----------------------------hhc--CCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeE
Q 016622          297 ---------LTLC----------------------------QVV--PLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCI  337 (386)
Q Consensus       297 ---------~~~~----------------------------~~~--~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~  337 (386)
                               ..+.                            .+.  ..+.+++|++|+..++.++.+.++.+++.|+++.
T Consensus       174 ~~~~~~~~~~~l~~~~g~~~~~d~~~~~l~~~~~~~~~~~~~l~d~~~t~~vlV~~pe~~~i~ea~~~~~~L~~~gi~v~  253 (329)
T 2woo_A          174 LSSRFGPMINQMGSIMGVNANEQDLFGKMESMRANISEVNKQFKNPDLTTFVCVCISEFLSLYETERMIQELTSYEIDTH  253 (329)
T ss_dssp             SCSSCHHHHHHHHHHHC-----CCTTHHHHHHHHHHHHHHHHHTCTTTEEEEEEEESSHHHHHHHHHHHHHHHHHTCEEE
T ss_pred             HHHHHHHHHHHHHhhcCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEEeCCCcchHHHHHHHHHHHHHCCCCCC
Confidence                     0000                            000  1247999999999999999999999999999999


Q ss_pred             EEEEcCCcCCCC-Ccee----cccCCChHHHHHHHhCCCeEEecCCC
Q 016622          338 AVVENMCHFDAD-GKRY----YPFGRGSGSQVVQQFGIPHLFDLPIR  379 (386)
Q Consensus       338 gvVlN~~~~~~~-~~~~----~~~~~~~~~~i~~~~g~pvl~~IP~d  379 (386)
                      |+|+||+.+... ...+    +.......+++.+.++-..++.||+.
T Consensus       254 gvVvN~~~~p~~~~~~~~~~~~~~q~~~l~~i~~~~~~~~~~~vP~~  300 (329)
T 2woo_A          254 NIVVNQLLLDPNTTCPQCMARRKMQQKYLAQIEELYEDFHVVKVPQV  300 (329)
T ss_dssp             EEEEEEECCCSSCCCHHHHHHHHHHHHHHHHHHHHTTTSEEEEEECC
T ss_pred             EEEEeCCcCcccccCHHHHHHHHHHHHHHHHHHHhcCCCCEEEecCC
Confidence            999999884211 1000    01123456778888854344778864

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=99.86  E-value=1.1e-21  Score=187.89  Aligned_cols=202  Identities=16%  Similarity=0.161  Sum_probs=125.4

Q ss_pred             cCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEe
Q 016622          170 QKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVS  249 (386)
Q Consensus       170 ~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~  249 (386)
                      .+.+++|.|+|+|||+||||+|+|||..||++|+||++||+|++. +++.+|+.........       ....++++.+.
T Consensus        12 ~~~~~~i~~~sgkGGvGKTt~a~~lA~~la~~g~~vllid~D~~~-~l~~~l~~~~~~~~~~-------v~~~~~L~~~~   83 (334)
T 3iqw_A           12 DQRSLRWIFVGGKGGVGKTTTSCSLAIQLAKVRRSVLLLSTDPAH-NLSDAFSQKFGKEARL-------VEGFDNLYAME   83 (334)
T ss_dssp             HCTTCCEEEEECSTTSSHHHHHHHHHHHHTTSSSCEEEEECCSSC-HHHHHHTSCCCSSCEE-------CTTCSSEEEEE
T ss_pred             cCCCeEEEEEeCCCCccHHHHHHHHHHHHHhCCCcEEEEECCCCC-ChhHHhccccCCCcee-------ecCCCCceeee
Confidence            344567889999999999999999999999999999999999754 6766666432100000       00001111111


Q ss_pred             cC------------------------CCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHH-hhh----
Q 016622          250 FG------------------------FSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL-TLC----  300 (386)
Q Consensus       250 ~~------------------------~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~-~~~----  300 (386)
                      ..                        ........+.+......+.++.+.+.+.+||||||||||......+ .+.    
T Consensus        84 id~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~Pg~~e~~~~~~~~~~~~~~~yD~VIiDtpPtg~tLrlL~lp~~l~  163 (334)
T 3iqw_A           84 IDPNGSMQDLLAGQTGDGDAGMGGVGVMQDLAYAIPGIDEAMSFAEVLKQVNSLSYETIVFDTAPTGHTLRFLQFPTVLE  163 (334)
T ss_dssp             CCC--------------------------------CCHHHHHHHHHHHHHHHTSSCSEEEEECCCHHHHHHHHTHHHHC-
T ss_pred             cCHHHHHHHHHHHhhcccccccccchhhHHhhcCCCCHHHHHHHHHHHHHHHhCCCCEEEEeCCCCHHHHHHHHHHHHHH
Confidence            00                        0001001123333334455555555558999999999993211000 000    


Q ss_pred             ----------------------------------------------------hhc--CCCeEEEEeCCCcchHHHHHHHH
Q 016622          301 ----------------------------------------------------QVV--PLTAAVIVTTPQKLAFIDVAKGV  326 (386)
Q Consensus       301 ----------------------------------------------------~~~--~~d~vviV~~~~~~s~~~~~~~~  326 (386)
                                                                          .+.  ..+.+++|++|+..++.++.+.+
T Consensus       164 ~~l~~~~~~~~~~~~~~~~~~~~~g~~p~~~~~~~~~~~l~~~~~~~~~~~~~L~dp~~t~~vlVt~pe~~~~~ea~r~~  243 (334)
T 3iqw_A          164 KALAKVSQLSGQYGSLLNGILGGSGTLPNGQTLSDVMEKLDSLRVTISEVNAQFKDERLTTFVCVCIPEFLSLYETERMI  243 (334)
T ss_dssp             ----------------------------------CCHHHHHHHHHHHHHHHHHHTCTTTEEEEEEECSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHHHHHHhhCCCCeeEEEEECCCccHHHHHHHHH
Confidence                                                                011  13579999999999999999999


Q ss_pred             HHHHcCCCCeEEEEEcCCcCCC-CCc-----eecccCCChHHHHHHHhCC-CeEEecCCC
Q 016622          327 RMFSKLKVPCIAVVENMCHFDA-DGK-----RYYPFGRGSGSQVVQQFGI-PHLFDLPIR  379 (386)
Q Consensus       327 ~~l~~~~~~i~gvVlN~~~~~~-~~~-----~~~~~~~~~~~~i~~~~g~-pvl~~IP~d  379 (386)
                      +.|++.|+++.|+|+|++.+.. ...     ..+..+...++++.+.++- .-+..||+.
T Consensus       244 ~~L~~~gi~v~gvVvN~~~~p~~~~~~~~~~~r~~~q~~~l~~i~~~~~~~~~~~~~pl~  303 (334)
T 3iqw_A          244 QELANYGIDTHCIVVNQLLFPKPGSDCEQCTARRRMQKKYLDQIEELYDEEFNVVKMPLL  303 (334)
T ss_dssp             HHHHHTTCCEEEEEEEEECCCCTTCCCHHHHHHHHHHHHHHHHHHHHHTTTSEEEEEECC
T ss_pred             HHHHHCCCCccEEEECCCcCcccCCcCHHHHHHHHHHHHHHHHHHHhccCCCCEEEecCC
Confidence            9999999999999999987432 111     1111234567888888864 334456654

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=99.83  E-value=1.7e-21  Score=187.54  Aligned_cols=206  Identities=17%  Similarity=0.170  Sum_probs=115.1

Q ss_pred             cCCceEEEEEeCcCCCCHHHHHHHHHHHHH--HCCCcEEEEEcCCCCCCCCccCCCccc-----------ccccC-CCCC
Q 016622          170 QKISNIVAVSSCKGGVGKSTVAVNLAYTLA--GMGARVGIFDADVYGPSLPTMVSPENR-----------LLEMN-PEKR  235 (386)
Q Consensus       170 ~~~~kvI~v~s~kGGvGKTTla~~LA~~La--~~G~rVllID~D~~~~sl~~~lg~~~~-----------~~~~~-~~~~  235 (386)
                      ....+.|+|+|+|||+||||+|+|||..+|  +.|+||++||+|+ +++++.+||....           +.... ....
T Consensus        14 ~~~~~~i~~~~gkGGvGKTt~a~~lA~~la~~~~g~~vllid~D~-~~~l~~~~~~~~~~~~~~v~~~~~L~~~~id~~~   92 (348)
T 3io3_A           14 QHDSLKWIFVGGKGGVGKTTTSSSVAVQLALAQPNEQFLLISTDP-AHNLSDAFCQKFGKDARKVEGLPNLSCMEIDPEA   92 (348)
T ss_dssp             TCTTCSEEEEECSTTSSHHHHHHHHHHHHHHHCTTSCEEEEECCS-SCHHHHHHTSCCCSSCEEETTEEEEEEEECCC--
T ss_pred             cCCCcEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEECCC-CCChHHHhccccCCCceeccCCCCceEEeeCHHH
Confidence            344557778889999999999999999999  8999999999996 5577777774311           00000 0000


Q ss_pred             ce---eee-------ccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCC------------CCcEEEEcCCCCCC
Q 016622          236 TI---IPT-------EYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWG------------ELDYLVIDMPPGTG  293 (386)
Q Consensus       236 ~i---~~~-------~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~------------~yD~VIIDtpp~~~  293 (386)
                      .+   ...       ...++..+.    ......+.+......+.++++.+.+.            +||+|||||||...
T Consensus        93 ~~~~~~~~~~~~~~~~~~~l~~~~----~~~~~~~Pg~~e~~~~~~~~~~l~~~~~~~~~~~~~~~~yD~VIiDtpPtg~  168 (348)
T 3io3_A           93 AMSDLQQQASQYNNDPNDPLKSMM----SDMTGSIPGIDEALSFMEVLKHIKNQKVLEGEDNSNAISYKTIIFDTAPTGH  168 (348)
T ss_dssp             -------------------------------------------------------------------CCEEEEECSSHHH
T ss_pred             HHHHHHHHHHhhcccccccHhHHh----HHhhcCCCCHHHHHHHHHHHHHHHhccccccccccccCCCCEEEEcCCCchH
Confidence            00   000       000011000    00001112222223455555555433            89999999999321


Q ss_pred             hHHHh-h------------------------------------------------hhhc--CCCeEEEEeCCCcchHHHH
Q 016622          294 DIQLT-L------------------------------------------------CQVV--PLTAAVIVTTPQKLAFIDV  322 (386)
Q Consensus       294 ~~~~~-~------------------------------------------------~~~~--~~d~vviV~~~~~~s~~~~  322 (386)
                      ...+. +                                                ..+.  ..+.+++|++|+..++.++
T Consensus       169 tLrlL~lP~~~~~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~L~dp~~t~~vlVt~pe~~~~~ea  248 (348)
T 3io3_A          169 TLRFLQLPSTLEKLLSKFKDLSGKLGPMLSMMGGGQQQDIFEKLNEVQKNVSEVNEQFTNPELTTFICVCISEFLSLYET  248 (348)
T ss_dssp             HHHHTC---------------------------------------------CHHHHHHTCTTTEEEEEEEESSHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHhhhHHHHhcccCchHHHHHHHHHHHHHHHHHHHHHhCcCceEEEEEecCCccHHHHH
Confidence            10000 0                                                0000  1357999999999999999


Q ss_pred             HHHHHHHHcCCCCeEEEEEcCCcCCC-C--Cc----eecccCCChHHHHHHHhCCCeEEecCCCh
Q 016622          323 AKGVRMFSKLKVPCIAVVENMCHFDA-D--GK----RYYPFGRGSGSQVVQQFGIPHLFDLPIRP  380 (386)
Q Consensus       323 ~~~~~~l~~~~~~i~gvVlN~~~~~~-~--~~----~~~~~~~~~~~~i~~~~g~pvl~~IP~d~  380 (386)
                      .++++.+++.|+++.|+|+||+.+.. .  ..    ..+..+...++++.+.++-..+..||+.+
T Consensus       249 ~r~~~~L~~~gi~v~gvVvN~~~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~~~~~~~~~~pl~~  313 (348)
T 3io3_A          249 ERMIQELMSYNMDVNSIVVNQLLFAEGDDHSCKRCESRWKMQKKYLDQMGELYEDYHLVKMPLLG  313 (348)
T ss_dssp             HHHHHHHHHTTCCCCEEEEEEECCCC-----CHHHHHHHHHHHHHHHHHHHHTTTSEEEEEECCS
T ss_pred             HHHHHHHHHCCCCccEEEEcCCccccccCccCHHHHHHHHHHHHHHHHHHHHccCCCEEEecCCC
Confidence            99999999999999999999988643 1  11    01112345677888888654556677653

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=99.77  E-value=3.2e-20  Score=183.65  Aligned_cols=242  Identities=19%  Similarity=0.224  Sum_probs=150.4

Q ss_pred             CcccHHHHHHHhccCCCCCCCCCc---cccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeE
Q 016622           73 TGTAENDVLKALSQIIDPDFGTDI---VSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVN  149 (386)
Q Consensus        73 ~~~~~~~i~~~L~~V~dPe~~~di---v~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~  149 (386)
                      ..++|+++.+.|++++...+..||   +...|++.++....+.++  .-.+ .+    .+.+.+.+++.+..+.+.....
T Consensus        20 ~~~~e~~~~~~l~e~~~~Ll~adv~~~~~~~~~~~~~~~~~~~~~--~~~~-~~----~~~~~~~~~~~l~~~l~~~~~~   92 (433)
T 2xxa_A           20 GRLTEDNVKDTLREVRMALLEADVALPVVREFINRVKEKAVGHEV--NKSL-TP----GQEFVKIVRNELVAAMGEENQT   92 (433)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHSSSCC--CSSS-CT----TTTTHHHHHHHHHHHHCSSSCC
T ss_pred             CCCCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcccc--cccC-Ch----HHHHHHHHHHHHHHHhcccccc
Confidence            457999999999999999888887   546677766443211111  0011 11    3344455555555443321110


Q ss_pred             EEEEeCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHC-CCcEEEEEcCCCCCCCCccCCCccccc
Q 016622          150 VTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFDADVYGPSLPTMVSPENRLL  228 (386)
Q Consensus       150 v~l~~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~-G~rVllID~D~~~~sl~~~lg~~~~~~  228 (386)
                      +       .         .-.+.+++|+|+ ++||+||||++.+||.+|+++ |+||+++|+|++++.....+.      
T Consensus        93 ~-------~---------~~~~~~~vI~iv-G~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~~r~~a~~ql~------  149 (433)
T 2xxa_A           93 L-------N---------LAAQPPAVVLMA-GLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRPAAIKQLE------  149 (433)
T ss_dssp             C-------C---------CCSSSSEEEEEE-CSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCCSSTTHHHHHH------
T ss_pred             c-------c---------ccCCCCeEEEEE-CCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCCCCccHHHHHH------
Confidence            0       0         011345799998 799999999999999999998 999999999999876422110      


Q ss_pred             ccCCCCCceeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh--HHHh----hhhh
Q 016622          229 EMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD--IQLT----LCQV  302 (386)
Q Consensus       229 ~~~~~~~~i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~--~~~~----~~~~  302 (386)
                               ......|+++++.+....         ....+.+.++.+.+..||||||||||..+.  ....    +...
T Consensus       150 ---------~~~~~~~l~v~~~~~~~d---------p~~i~~~~l~~~~~~~~D~VIIDTpG~l~~~~~l~~~L~~~~~~  211 (433)
T 2xxa_A          150 ---------TLAEQVGVDFFPSDVGQK---------PVDIVNAALKEAKLKFYDVLLVDTAGRLHVDEAMMDEIKQVHAS  211 (433)
T ss_dssp             ---------HHHHHHTCEECCCCSSSC---------HHHHHHHHHHHHHHTTCSEEEEECCCCCTTCHHHHHHHHHHHHH
T ss_pred             ---------hhcccCCeeEEeCCCCCC---------HHHHHHHHHHHHHhCCCCEEEEECCCcccccHHHHHHHHHHHHh
Confidence                     011234788887654211         122334445444436899999999986642  1111    1123


Q ss_pred             cCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeE
Q 016622          303 VPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       303 ~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl  373 (386)
                      ...+.+++|+.+...  .++....+.+.. ++++.|+|+|+++....+        +....+.+.+|.|+.
T Consensus       212 ~~p~~vllVvda~~g--~~~~~~~~~f~~-~l~i~gvVlnK~D~~~~~--------g~~l~i~~~~~~Pi~  271 (433)
T 2xxa_A          212 INPVETLFVVDAMTG--QDAANTAKAFNE-ALPLTGVVLTKVDGDARG--------GAALSIRHITGKPIK  271 (433)
T ss_dssp             SCCSEEEEEEETTBC--TTHHHHHHHHHH-HSCCCCEEEECTTSSSCC--------THHHHHHHHHCCCEE
T ss_pred             hcCcceeEEeecchh--HHHHHHHHHHhc-cCCCeEEEEecCCCCccH--------HHHHHHHHHHCCCeE
Confidence            356888998887643  344444455543 467789999999875422        345678888887754

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=99.76  E-value=1.7e-19  Score=185.97  Aligned_cols=205  Identities=19%  Similarity=0.176  Sum_probs=123.3

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccc-cc--ccCCC------CCceeeec
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR-LL--EMNPE------KRTIIPTE  241 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~-~~--~~~~~------~~~i~~~~  241 (386)
                      .+.++|.|+++|||+||||+|+|||..++++|+||+++|+|++ +++...|+.... ..  .....      ...+....
T Consensus       324 ~~~~~~~~~~~~~g~Gktt~a~~lA~~l~~~g~~vllvD~Dp~-~~l~~~l~~~~~~l~~~~~~~~~~~~~~~~~v~~~~  402 (589)
T 1ihu_A          324 RNEHGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSDPA-AHLSMTLNGSLNNLQVSRIDPHEETERYRQHVLETK  402 (589)
T ss_dssp             TTSCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESCCC------------CCEEEEECCHHHHHHHHHHHHHHHH
T ss_pred             ccCCeEEEEecCCCCChhhHHHHHHHHHHHCCCcEEEEeCCCc-ccHhHHhcccCCCceeeecchHHHHHHHHHHHHHhh
Confidence            4568999999999999999999999999999999999999998 567777765311 10  00000      00000100


Q ss_pred             cCCceEEecCCCCCcccccCCch--HHHHHHHHHHhcCCCCCcEEEEcCCCCCC--------------------hHH--H
Q 016622          242 YLGVKLVSFGFSGQGRAIMRGPM--VSGVINQLLTTTEWGELDYLVIDMPPGTG--------------------DIQ--L  297 (386)
Q Consensus       242 ~~~l~vl~~~~~~~~~~~~~~~~--~~~~l~~ll~~~~~~~yD~VIIDtpp~~~--------------------~~~--~  297 (386)
                      ..++..  .+. ......+..+.  ....++++.+.+.+.+||||||||||+..                    +..  .
T Consensus       403 ~~~l~~--~~~-~~~~~~~~~p~~~e~~~~~~l~~~~~~~~~D~vviD~~p~~~tl~ll~~p~~~~~~~~~~~~~~~~~~  479 (589)
T 1ihu_A          403 GKELDE--AGK-RLLEEDLRSPCTEEIAVFQAFSRVIREAGKRFVVMDTAPTGHTLLLLDATGAYHREIAKKMGEKGHFT  479 (589)
T ss_dssp             HTTCCH--HHH-HHHHHHTTSHHHHHHHHHHHHTTTGGGGGTSEEEESCCCCHHHHHHHHHC------------------
T ss_pred             hccCCh--hhH-HHHHHHhcCCChHHHHHHHHHHHHHhccCCCEEEEcCCCCccHHHHHHhHHHHHHHHHHhcccchHHH
Confidence            011110  000 00001122222  12355666655545679999999999732                    100  0


Q ss_pred             h-hhhhc--CCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceec-----ccCCChHHHHHHHhC
Q 016622          298 T-LCQVV--PLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYY-----PFGRGSGSQVVQQFG  369 (386)
Q Consensus       298 ~-~~~~~--~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~-----~~~~~~~~~i~~~~g  369 (386)
                      . ...+.  .+|.+++|++|+..++.++.++++.+++.|+++.|+|+|++.........+     ......++++.+.++
T Consensus       480 ~~~~~l~d~~~~~vvlV~~p~~~~~~~a~~~~~~l~~~g~~~~gvVvN~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~  559 (589)
T 1ihu_A          480 TPMMLLQDPERTKVLLVTLPETTPVLEAANLQADLERAGIHPWGWIINNSLSIADTRSPLLRMRAQQELPQIESVKRQHA  559 (589)
T ss_dssp             CCHHHHHCTTTEEEEEEECSSHHHHHHHHHHHHHHHHTTCCCCEEEEEEESTTSCCCCHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHhcCCCCCEEEEEeCCCccHHHHHHHHHHHHHHCCCCCCEEEEeCCcCCCCCcCHHHHHHHHHHHHHHHHHHHhcC
Confidence            0 00111  358899999999999999999999999999999999999988753211110     011234667778888


Q ss_pred             CCeEEecCCCh
Q 016622          370 IPHLFDLPIRP  380 (386)
Q Consensus       370 ~pvl~~IP~d~  380 (386)
                      .++ +.||+.+
T Consensus       560 ~~v-~~iP~~~  569 (589)
T 1ihu_A          560 SRV-ALVPVLA  569 (589)
T ss_dssp             SSE-EEEECCS
T ss_pred             CcE-EEccCCC
Confidence            777 8888764

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=99.74  E-value=5.7e-19  Score=182.08  Aligned_cols=166  Identities=20%  Similarity=0.175  Sum_probs=107.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFS  253 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~  253 (386)
                      +.|.|+|+|||+||||+|+|||..+|++|+||++||+|+ +++++..|+.+.....       ......+++........
T Consensus         8 ~~i~~~sgkGGvGKTT~a~~lA~~lA~~G~rVLlvd~D~-~~~l~~~l~~~~~~~~-------~~v~~~~~l~~~~~d~~   79 (589)
T 1ihu_A            8 PPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTDP-ASNVGQVFSQTIGNTI-------QAIASVPGLSALEIDPQ   79 (589)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECCT-TCCHHHHTTSCCCSSC-------EECTTSTTEEEEECCHH
T ss_pred             CEEEEEeCCCcCHHHHHHHHHHHHHHHCCCcEEEEECCC-CcCHHHHhCCcccCCC-------ceeccchhhhhccCCHH
Confidence            345578899999999999999999999999999999999 4898888886532100       00001122322211100


Q ss_pred             ----------------CCc-------ccccCCc-----hHHHHHHHHHH--hcCCCCCcEEEEcCCCCCChHHHh-----
Q 016622          254 ----------------GQG-------RAIMRGP-----MVSGVINQLLT--TTEWGELDYLVIDMPPGTGDIQLT-----  298 (386)
Q Consensus       254 ----------------~~~-------~~~~~~~-----~~~~~l~~ll~--~~~~~~yD~VIIDtpp~~~~~~~~-----  298 (386)
                                      ...       ...+.++     .....+.++++  .+. ++||+|||||||......+.     
T Consensus        80 ~~~~~~~~~~~~~~~~~lp~~~~~~~~~~l~~~~~~e~~~~~~~~~ll~~~~l~-~~yD~VIiDt~P~~~~lrll~lP~~  158 (589)
T 1ihu_A           80 AAAQQYRARIVDPIKGVLPDDVVSSINEQLSGACTTEIAAFDEFTGLLTDASLL-TRFDHIIFDTAPTGHTIRLLQLPGA  158 (589)
T ss_dssp             HHHHHHHHHHHGGGTTTSCHHHHHHHHHHTSSHHHHHHHHHHHHHHHHHCTTHH-HHCSEEEESSCCCHHHHHHHHCGGG
T ss_pred             HHHHHHHHHHHHHHHHhcchhhHHHHHHHhcccchHHHHHHHHHHHHHhchhhc-ccCCEEEECCCCchhHHHHHHhHHH
Confidence                            000       0001111     11234555555  322 67999999999853211000     


Q ss_pred             -------------------------------hhhhc--CCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCc
Q 016622          299 -------------------------------LCQVV--PLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCH  345 (386)
Q Consensus       299 -------------------------------~~~~~--~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~  345 (386)
                                                     ...+.  ..+.+++|++++..++.++.+.++.+++.|+++.|+|+|++.
T Consensus       159 ~~~~l~~~~~~~~~l~~~~~l~~~~~~~~~~~~~l~d~~~t~vvlV~~~~~~~~~~~~~~~~~L~~~g~~~~gvVlN~v~  238 (589)
T 1ihu_A          159 WSSFIDSNPEGASCLGPMAGLEKQREQYAYAVEALSDPKRTRLVLVARLQKSTLQEVARTHLELAAIGLKNQYLVINGVL  238 (589)
T ss_dssp             GTCCC------CCCCGGGGGCCSCHHHHHHHHHHHHCTTTEEEEEEEESCHHHHHHHHHHHHHHHHHTCCCEEEEEEEEC
T ss_pred             HHHHHHHhhccccccchhhhhhHHHHHHHHHHHHhcCCCCcEEEEEeCCCccHHHHHHHHHHHHHhCCCCCCEEEEcCCc
Confidence                                           00011  123699999999999999999999999999999999999987


Q ss_pred             CCC
Q 016622          346 FDA  348 (386)
Q Consensus       346 ~~~  348 (386)
                      ...
T Consensus       239 ~~~  241 (589)
T 1ihu_A          239 PKT  241 (589)
T ss_dssp             CGG
T ss_pred             Ccc
Confidence            653

>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal alpha-beta the C-terminal all beta domain., structural genomics; 2.00A {Nostoc SP}

Probab=99.73  E-value=7.2e-18  Score=163.37  Aligned_cols=159  Identities=19%  Similarity=0.199  Sum_probs=104.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEe----
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVS----  249 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~----  249 (386)
                      +.|.|+++|||+||||+|++||..+|++|+||++||+ + +++++.+||......     ...+    .++++.+.    
T Consensus         2 ~~i~~~~gkGG~GKTt~a~~la~~la~~g~~vllvd~-~-~~~l~~~~~~~~~~~-----~~~v----~~~L~~~eid~~   70 (374)
T 3igf_A            2 ALILTFLGKSGVARTKIAIAAAKLLASQGKRVLLAGL-A-EPVLPLLLEQTLTPD-----PQQI----APNLEVVQFQSS   70 (374)
T ss_dssp             CEEEEEECSBHHHHHHHHHHHHHHHHHTTCCEEEEEC-S-CSHHHHHHTSCCCSS-----CEEE----ETTEEEEECCHH
T ss_pred             cEEEEEeCCCCCcHHHHHHHHHHHHHHCCCCeEEEeC-C-CCChHHhhCCCCCCC-----cccc----cccccccccCHH
Confidence            3567778999999999999999999999999999999 5 667877777542100     0000    11222221    


Q ss_pred             -------------------cC-CC---CCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHH----------
Q 016622          250 -------------------FG-FS---GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQ----------  296 (386)
Q Consensus       250 -------------------~~-~~---~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~----------  296 (386)
                                         .. ..   ......+.+......+.++.+...+.+||||||||||......          
T Consensus        71 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~el~~~Pg~~E~~~l~~~~~~~~~~~yD~VIvDtpPtg~tLrlL~lP~~l~~  150 (374)
T 3igf_A           71 VLLERNWEEVKKLEAQYLRTPIIKEVYGQELVVLPGMDSALALNAIREYDASGKYDTIVYDGTGDAFTLRMLGLPESLSW  150 (374)
T ss_dssp             HHHHHHHHHHHHHHHHHCSSCSSSSSCGGGCCCCTTHHHHHHHHHHHHHHHTTCCSEEEEECCCSHHHHHHHTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhcccccccccchhhhccCCCHHHHHHHHHHHHHHhccCCCEEEEeCCCChHHhhhhhhhHHHHH
Confidence                               00 00   0111112333333345555544445789999999999421000          


Q ss_pred             -----------------H------------------------------------hhhhhcC--CCeEEEEeCCCcchHHH
Q 016622          297 -----------------L------------------------------------TLCQVVP--LTAAVIVTTPQKLAFID  321 (386)
Q Consensus       297 -----------------~------------------------------------~~~~~~~--~d~vviV~~~~~~s~~~  321 (386)
                                       .                                    ....+..  ...+++|++|+..++.+
T Consensus       151 ~l~~l~~~~~~~~~g~~~~~~~~~~p~~~~~~~~~~~~d~~~~~l~~~~~~~~~~~~~L~dp~~t~~vlVt~pe~~sl~e  230 (374)
T 3igf_A          151 YVRRFRQLFVNSDLGKTIAESPLIQPLISSFFNVNWTADNFAQPTNQVNNFLDKGKEALADPKRVAAFLVTTADPLEVVS  230 (374)
T ss_dssp             HHHHTTSCC-----------------------------------CHHHHHHHHHHHHHHHCTTTEEEEEEECSCHHHHHH
T ss_pred             HHHHHHHHHhhhccccccccchhhhhhhhhhccCCCchHHHHHHHHHHHHHHHHHHHHHhccCCeEEEEEECCCccHHHH
Confidence                             0                                    0000111  24799999999999999


Q ss_pred             HHHHHHHHHcCCCCeEEEEEcC
Q 016622          322 VAKGVRMFSKLKVPCIAVVENM  343 (386)
Q Consensus       322 ~~~~~~~l~~~~~~i~gvVlN~  343 (386)
                      +.+.++.+++.|+++.|+|+||
T Consensus       231 a~r~~~~L~~~gi~v~gvVvN~  252 (374)
T 3igf_A          231 VRYLWGSAQQIGLTIGGVIQVS  252 (374)
T ss_dssp             HHHHHHHHHHHTCCEEEEEECC
T ss_pred             HHHHHHHHHHcCCCccEEEEcC
Confidence            9999999999999999999999

>1uwd_A Hypothetical protein TM0487; similar to PAAD protein, alpha/beta fold,structural genomics joint center for structural genomics, JCSG; NMR {Thermotoga maritima} SCOP: d.52.8.2 PDB: 1wcj_A

Probab=99.70  E-value=6e-17  Score=128.38  Aligned_cols=86  Identities=36%  Similarity=0.596  Sum_probs=81.3

Q ss_pred             cccHHHHHHHhccCCCCCCCCCccccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeEEEEE
Q 016622           74 GTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMS  153 (386)
Q Consensus        74 ~~~~~~i~~~L~~V~dPe~~~div~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~v~l~  153 (386)
                      |.++++|+++|++|+||+++.|||++|+|++|.++++ +.+.|.|++|+++||..+.+.+++++++.+++|+++++|+++
T Consensus         5 m~~~~~V~~aL~~V~DPel~~~iv~lG~V~~v~v~~~-~~V~v~l~lt~~~cp~~~~l~~~i~~al~~l~gv~~v~V~l~   83 (103)
T 1uwd_A            5 KVTKEDVLNALKNVIDFELGLDVVSLGLVYDIQIDDQ-NNVKVLMTMTTPMCPLAGMILSDAEEAIKKIEGVNNVEVELT   83 (103)
T ss_dssp             CCCHHHHHHHHTTCBCTTTSSBTTTTTCCCCEEECTT-CEEEEEECCSSSCCSSHHHHHHHHHHHHHTSSSCCEEEEEEC
T ss_pred             cchHHHHHHHHcCCCCCCCCcChhhcCCeeEEEEcCC-CEEEEEEEECCCCCcHHHHHHHHHHHHHHhCCCcceEEEEEe
Confidence            4689999999999999999999999999999999854 689999999999999999999999999999999999999999


Q ss_pred             eCCCCch
Q 016622          154 AQPARPI  160 (386)
Q Consensus       154 ~~p~~~~  160 (386)
                      ++|+|..
T Consensus        84 ~~p~W~~   90 (103)
T 1uwd_A           84 FDPPWTP   90 (103)
T ss_dssp             CSSCCCG
T ss_pred             cCCCCCh
Confidence            9999954

>3lno_A Putative uncharacterized protein; alpha-beta fold, structural genomics, center for structural genomics of infectious diseases, csgid; 2.10A {Bacillus anthracis} SCOP: d.52.8.0

Probab=99.69  E-value=2.9e-17  Score=131.16  Aligned_cols=87  Identities=26%  Similarity=0.507  Sum_probs=81.8

Q ss_pred             CcccHHHHHHHhccCCCCCCCCCccccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHh-hcCCCcceeEEE
Q 016622           73 TGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVV-LAIPWVNKVNVT  151 (386)
Q Consensus        73 ~~~~~~~i~~~L~~V~dPe~~~div~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l-~~l~gv~~v~v~  151 (386)
                      .+.++++|+++|++|+||+++.|||++|+|++|.++++ +.+.|.|++|+++||..+.+.+++++++ .+++|+++++|+
T Consensus         6 ~~~~~~~V~~aL~~V~DPe~~~~Iv~lG~V~~I~v~~~-~~V~V~ltlt~p~cp~~~~i~~~i~~al~~~l~Gv~~V~V~   84 (108)
T 3lno_A            6 QEAFENKLYANLEAVIDPELGVDIVNLGLVYDVTADEN-NNAVITMTMTSIGCPMAGQIVSDVKKVLSTNVPEVNEIEVN   84 (108)
T ss_dssp             HHHHHHHHHHHGGGCEETTTTEEHHHHTCEEEEEECTT-CCEEEEECCSCTTCTTHHHHHHHHHHHHHHHCTTCCCEEEE
T ss_pred             hhhhHHHHHHHHcCCCCCCCCCCHHHcCCceEEEECCC-CeEEEEEEECCCCCcHHHHHHHHHHHHHHHhCCCCceEEEE
Confidence            35689999999999999999999999999999999854 6899999999999999999999999999 999999999999


Q ss_pred             EEeCCCCch
Q 016622          152 MSAQPARPI  160 (386)
Q Consensus       152 l~~~p~~~~  160 (386)
                      ++++|+|..
T Consensus        85 l~~~p~W~~   93 (108)
T 3lno_A           85 VVWNPPWSK   93 (108)
T ss_dssp             ECCSSCCCG
T ss_pred             EEecCCCCh
Confidence            999999954

>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=99.69  E-value=1.5e-18  Score=163.65  Aligned_cols=243  Identities=16%  Similarity=0.182  Sum_probs=152.2

Q ss_pred             CcccHHHHHHHhccCCCCCCCCCc---cccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeE
Q 016622           73 TGTAENDVLKALSQIIDPDFGTDI---VSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVN  149 (386)
Q Consensus        73 ~~~~~~~i~~~L~~V~dPe~~~di---v~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~  149 (386)
                      ..++++++.+.|++++...+..||   +...++++++....+.++       .++....+.+.+.+.+.+....+.... 
T Consensus        18 ~~~~~~~~~~~~~~~~~~L~~~dv~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~l~~~~~~~~~-   89 (297)
T 1j8m_F           18 SSSYDKAVEDFIKELQKSLISADVNVKLVFSLTNKIKERLKNEKP-------PTYIERREWFIKIVYDELSNLFGGDKE-   89 (297)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCCC-------CTTCCHHHHHHHHHHHHHHHHTTCSCC-
T ss_pred             CCCCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhhccc-------cccCChHHHHHHHHHHHHHHHhccccc-
Confidence            456888999999999998888887   446667665432110111       112222566667777777655442210 


Q ss_pred             EEEEeCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccc
Q 016622          150 VTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLE  229 (386)
Q Consensus       150 v~l~~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~  229 (386)
                            +..         .+...+++|+++ +++|+||||++.+||..++.+|++|+++|+|++++.....+..      
T Consensus        90 ------~~i---------~~~~~~~vi~i~-G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D~~r~~a~~ql~~------  147 (297)
T 1j8m_F           90 ------PKV---------IPDKIPYVIMLV-GVQGTGKTTTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQ------  147 (297)
T ss_dssp             ------CCC---------SCSSSSEEEEEE-CSSCSSTTHHHHHHHHHHHHTTCCEEEEECCCSSSHHHHHHHH------
T ss_pred             ------ccc---------ccCCCCeEEEEE-CCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCHHHHHHHHH------
Confidence                  000         011125688887 7999999999999999999999999999999998754321110      


Q ss_pred             cCCCCCceeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC--hH-HHh-----hhh
Q 016622          230 MNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG--DI-QLT-----LCQ  301 (386)
Q Consensus       230 ~~~~~~~i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~--~~-~~~-----~~~  301 (386)
                               .....|+.+++....         ......+.+.++.+.++.||||||||||...  .. .+.     +..
T Consensus       148 ---------~~~~~~v~v~~~~~~---------~~p~~~~~~~l~~~~~~~~D~ViIDTpg~~~~~~~~~l~~el~~i~~  209 (297)
T 1j8m_F          148 ---------LGQQIGVPVYGEPGE---------KDVVGIAKRGVEKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYE  209 (297)
T ss_dssp             ---------HHHHHTCCEECCTTC---------CCHHHHHHHHHHHHHHTTCSEEEEECCCSCCTTCHHHHHHHHHHHHH
T ss_pred             ---------HhccCCeEEEecCCC---------CCHHHHHHHHHHHHHhCCCCEEEEeCCCCcccccHHHHHHHHHHHHH
Confidence                     011236777764321         1122334455555444789999999998776  21 111     123


Q ss_pred             hcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          302 VVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       302 ~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ...+|.+++|+.+...  .++.+..+.+.+ ..++.|+|+|+++....+        +....+.+.+++|+..
T Consensus       210 ~~~~d~vllVvda~~g--~~~~~~~~~~~~-~~~i~gvVlnk~D~~~~~--------g~~~~~~~~~~~pi~~  271 (297)
T 1j8m_F          210 AIKPDEVTLVIDASIG--QKAYDLASKFNQ-ASKIGTIIITKMDGTAKG--------GGALSAVAATGATIKF  271 (297)
T ss_dssp             HHCCSEEEEEEEGGGG--GGHHHHHHHHHH-TCTTEEEEEECGGGCTTH--------HHHHHHHHTTTCCEEE
T ss_pred             HhcCCEEEEEeeCCch--HHHHHHHHHHHh-hCCCCEEEEeCCCCCcch--------HHHHHHHHHHCcCEEE
Confidence            4467999999887642  344444455554 477899999998865421        2355678888888764

>3cq1_A Putative uncharacterized protein TTHB138; DTDP-4-keto-L-rhamnose reductase, plasmid, oxidoreductase, structural genomics, NPPSFA; 1.90A {Thermus thermophilus} PDB: 2cu6_A 3cq2_A 3cq3_A*

Probab=99.67  E-value=1.5e-16  Score=125.97  Aligned_cols=84  Identities=26%  Similarity=0.562  Sum_probs=80.2

Q ss_pred             ccHHHHHHHhccCCCCCCCCCccccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeEEEEEe
Q 016622           75 TAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSA  154 (386)
Q Consensus        75 ~~~~~i~~~L~~V~dPe~~~div~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~v~l~~  154 (386)
                      .++++|+++|++|+||+++.|++++|+|++|.+++  +.+.|.|++|+++||..+.+.+++++++.+++|+++++|++++
T Consensus         6 ~~~~~V~~aL~~V~DPel~~~iv~lG~V~~v~v~~--~~V~v~l~lt~~~cp~~~~l~~~i~~al~~l~gv~~V~V~l~~   83 (103)
T 3cq1_A            6 PLEAQAWALLEAVYDPELGLDVVNLGLIYDLVVEP--PRAYVRMTLTTPGCPLHDSLGEAVRQALSRLPGVEEVEVEVTF   83 (103)
T ss_dssp             HHHHHHHHHHTTCBCTTTCSBTTTTTCEEEEEEET--TEEEEEECCSSSSCCSSCHHHHHHHHHHHTSTTCCEEEEEECC
T ss_pred             hHHHHHHHHHhCCCCCCCCcCchhcCceEEEEEEC--CEEEEEEEECCCCCcHHHHHHHHHHHHHHhCCCceeEEEEEec
Confidence            36889999999999999999999999999999988  7899999999999999999999999999999999999999999


Q ss_pred             CCCCch
Q 016622          155 QPARPI  160 (386)
Q Consensus       155 ~p~~~~  160 (386)
                      +|+|..
T Consensus        84 ~p~W~~   89 (103)
T 3cq1_A           84 EPPWTL   89 (103)
T ss_dssp             SSCCCG
T ss_pred             CCCCCh
Confidence            999954

>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=99.67  E-value=5.4e-18  Score=166.66  Aligned_cols=241  Identities=19%  Similarity=0.172  Sum_probs=153.1

Q ss_pred             CcccHHHHHHHhccCCCCCCCCCc---cccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeE
Q 016622           73 TGTAENDVLKALSQIIDPDFGTDI---VSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVN  149 (386)
Q Consensus        73 ~~~~~~~i~~~L~~V~dPe~~~di---v~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~  149 (386)
                      ..++++++.+.|++++...+..||   +...|++.+.....+..+      .. +....+.+.+.+.+.+...-+.....
T Consensus        20 ~~~~e~~~~~~l~e~~~~Ll~adv~~~~~~~~~~~v~~~~~~~~~------~~-~~~~~~~~~~~v~~~L~~~~~~~~~~   92 (425)
T 2ffh_A           20 GRITEEDLKATLREIRRALMDADVNLEVTRDFVERVREEALGKQV------LE-SLTPAEVILATVYEALKEALGGEARL   92 (425)
T ss_dssp             CSCCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHTTTG------GG-CSCHHHHHHHHHHHHHHHHTTSSCCC
T ss_pred             CCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHccccc------cc-cCCcHHHHHHHHHHHHHHHhCCCccc
Confidence            457899999999999999888888   556677766542211111      11 11225677777887776554422111


Q ss_pred             EEEEeCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccc
Q 016622          150 VTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLE  229 (386)
Q Consensus       150 v~l~~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~  229 (386)
                      ++                 +. .+++|+|+ +++|+||||++.+||..++..|++|+++|+|++++.....+..      
T Consensus        93 i~-----------------l~-~~~vi~i~-G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~D~~r~aa~~qL~~------  147 (425)
T 2ffh_A           93 PV-----------------LK-DRNLWFLV-GLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRL------  147 (425)
T ss_dssp             CC-----------------CC-SSEEEEEE-CCTTSSHHHHHHHHHHHHHTTTCCEEEEECCSSCHHHHHHHHH------
T ss_pred             cc-----------------CC-CCeEEEEE-CCCCCCHHHHHHHHHHHHHHcCCeEEEeeccccCchhHHHHHH------
Confidence            11                 11 34689998 7899999999999999999999999999999988765322110      


Q ss_pred             cCCCCCceeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh-HHH-----hhhhhc
Q 016622          230 MNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD-IQL-----TLCQVV  303 (386)
Q Consensus       230 ~~~~~~~i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~-~~~-----~~~~~~  303 (386)
                               .....|+++++.+....         ....+.+.++.+++..||+|||||||..+. ..+     .+....
T Consensus       148 ---------~~~~~gv~v~~~~~~~~---------p~~i~~~~l~~~~~~~~DvVIIDTaG~l~~d~~l~~el~~i~~~~  209 (425)
T 2ffh_A          148 ---------LGEKVGVPVLEVMDGES---------PESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELARLKEVL  209 (425)
T ss_dssp             ---------HHHHHTCCEEECCTTCC---------HHHHHHHHHHHHHHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHH
T ss_pred             ---------hcccCCccEEecCCCCC---------HHHHHHHHHHHHHHCCCCEEEEcCCCcccccHHHHHHHHHhhhcc
Confidence                     01223778887654211         112234444443227899999999987642 111     112233


Q ss_pred             CCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          304 PLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       304 ~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ..|.+++|+.+...  .++....+.+.. .+++.|+|+|+++....+        +....+.+.+|+|+.+
T Consensus       210 ~pd~vlLVvDa~tg--q~av~~a~~f~~-~l~i~GVIlTKlD~~~~~--------g~alsi~~~~g~PI~f  269 (425)
T 2ffh_A          210 GPDEVLLVLDAMTG--QEALSVARAFDE-KVGVTGLVLTKLDGDARG--------GAALSARHVTGKPIYF  269 (425)
T ss_dssp             CCSEEEEEEEGGGT--THHHHHHHHHHH-HTCCCEEEEESGGGCSSC--------HHHHHHHHHHCCCEEE
T ss_pred             CCceEEEEEeccch--HHHHHHHHHHHh-cCCceEEEEeCcCCcccH--------HHHHHHHHHHCCCEEE
Confidence            56889999876532  444444455543 366789999998765421        2455678888998543

>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=99.65  E-value=4.1e-17  Score=160.65  Aligned_cols=241  Identities=12%  Similarity=0.124  Sum_probs=148.7

Q ss_pred             CcccHHHHHHHhccCCCCCCCCCc---cccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeE
Q 016622           73 TGTAENDVLKALSQIIDPDFGTDI---VSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVN  149 (386)
Q Consensus        73 ~~~~~~~i~~~L~~V~dPe~~~di---v~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~  149 (386)
                      ..++|+++.+.|+++++..+..||   +...|+++++....+.++       ..+-...+.+.+.+++.+..+.+.... 
T Consensus        21 ~~l~e~~~~~~l~ei~~~Ll~adv~~~~~~~~~~~v~~~~~~~~v-------~~~~~~~~~v~~~l~~eL~~~L~~~~~-   92 (443)
T 3dm5_A           21 SSVDEALIKELVRDIQRALIQADVNVRLVLQLTREIQRRALEEKP-------PAGISKKEHIIKIVYEELTKFLGTEAK-   92 (443)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCCC-------CTTCCHHHHHHHHHHHHHHHHTTSSCC-
T ss_pred             CCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhhccc-------cccCCcHHHHHHHHHHHHHHHhcCccc-
Confidence            356899999999999999888887   445566654432110101       112223677888888888776543210 


Q ss_pred             EEEEeCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccc
Q 016622          150 VTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLE  229 (386)
Q Consensus       150 v~l~~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~  229 (386)
                              .        ....+.+++|+|+ |.+|+||||++.+||.+|+++|+||+++|+|++++.....+.       
T Consensus        93 --------~--------~~~~~~p~vIliv-G~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~-------  148 (443)
T 3dm5_A           93 --------P--------IEIKEKPTILLMV-GIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQLR-------  148 (443)
T ss_dssp             --------C--------CCCCSSSEEEEEE-CCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHHHHHHH-------
T ss_pred             --------c--------cccCCCCeEEEEE-CcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHH-------
Confidence                    0        0111235688888 459999999999999999999999999999998875321110       


Q ss_pred             cCCCCCceeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh-HH-----Hhhhhhc
Q 016622          230 MNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD-IQ-----LTLCQVV  303 (386)
Q Consensus       230 ~~~~~~~i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~-~~-----~~~~~~~  303 (386)
                              ......++.+.......         .....+.+.++.+..+.||+|||||++.... ..     ..+....
T Consensus       149 --------~~~~~~gvpv~~~~~~~---------dp~~i~~~al~~a~~~~~DvVIIDTaGrl~~d~~lm~el~~i~~~~  211 (443)
T 3dm5_A          149 --------QLLDRYHIEVFGNPQEK---------DAIKLAKEGVDYFKSKGVDIIIVDTAGRHKEDKALIEEMKQISNVI  211 (443)
T ss_dssp             --------HHHGGGTCEEECCTTCC---------CHHHHHHHHHHHHHHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHH
T ss_pred             --------HHHHhcCCcEEecCCCC---------CHHHHHHHHHHHHHhCCCCEEEEECCCcccchHHHHHHHHHHHHhh
Confidence                    01112245554432211         1223334444444336799999999975531 11     1112234


Q ss_pred             CCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeE
Q 016622          304 PLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       304 ~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl  373 (386)
                      ..|.+++|+.+...  .++....+.+.+ ..++.|+|+|+++....+        +....+...+|+|+.
T Consensus       212 ~pd~vlLVvDA~~g--q~a~~~a~~f~~-~~~i~gVIlTKlD~~~~g--------G~~ls~~~~~g~PI~  270 (443)
T 3dm5_A          212 HPHEVILVIDGTIG--QQAYNQALAFKE-ATPIGSIIVTKLDGSAKG--------GGALSAVAATGAPIK  270 (443)
T ss_dssp             CCSEEEEEEEGGGG--GGHHHHHHHHHH-SCTTEEEEEECCSSCSSH--------HHHHHHHHTTCCCEE
T ss_pred             cCceEEEEEeCCCc--hhHHHHHHHHHh-hCCCeEEEEECCCCcccc--------cHHHHHHHHHCCCEE
Confidence            56889999887653  334444455554 356789999999875421        235566777888875

>3of5_A Dethiobiotin synthetase; structural genomics, center for structural genomics of infec diseases, csgid, ligase; 1.52A {Francisella tularensis subsp}

Probab=99.64  E-value=3.9e-16  Score=141.66  Aligned_cols=195  Identities=11%  Similarity=0.036  Sum_probs=121.4

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCc-cc-ccccCCCCCceeeeccCCceEEe
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPE-NR-LLEMNPEKRTIIPTEYLGVKLVS  249 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~-~~-~~~~~~~~~~i~~~~~~~l~vl~  249 (386)
                      .++.|.|+|...|+|||+++++|+..|+++|+||..+..=..++... --+.. .+ ........   .+....+...+.
T Consensus         3 ~mk~i~Itgt~t~vGKT~vt~~L~~~l~~~G~~V~~~KPv~~g~~~~-~~~~~~~D~~~~~~~~~---~~~~~~~~~~~~   78 (228)
T 3of5_A            3 AMKKFFIIGTDTEVGKTYISTKLIEVCEHQNIKSLCLKPVASGQSQF-SELCEDVESILNAYKHK---FTAAEINLISFN   78 (228)
T ss_dssp             TCEEEEEEESSSSSCHHHHHHHHHHHHHHTTCCEEEECSEEESBCSS-SSSBHHHHHHHHHTTTS---SCHHHHCSEEES
T ss_pred             CCcEEEEEeCCCCCCHHHHHHHHHHHHHHCCCeeEEecceeecCccC-CCCCChHHHHHHhcCCC---CChhhEEEEEEC
Confidence            46899999999999999999999999999999999976211111000 00000 00 00000000   000111333443


Q ss_pred             cCCCCCcccccC-CchHHHHHHHHHHh-cCCCCCcEEEEcCCCCCChH------HHhhhhhcCCCeEEEEeCCCcchHHH
Q 016622          250 FGFSGQGRAIMR-GPMVSGVINQLLTT-TEWGELDYLVIDMPPGTGDI------QLTLCQVVPLTAAVIVTTPQKLAFID  321 (386)
Q Consensus       250 ~~~~~~~~~~~~-~~~~~~~l~~ll~~-~~~~~yD~VIIDtpp~~~~~------~~~~~~~~~~d~vviV~~~~~~s~~~  321 (386)
                      ............ .....+.+.+.++. +. ++||+||||+++|+...      ...++... ...+++|+.+...++.+
T Consensus        79 ~p~sp~~aa~~~~~~i~~~~i~~~~~~~l~-~~~D~vlIEgaggl~~p~~~~~~~adla~~l-~~pviLV~~~~~~~i~~  156 (228)
T 3of5_A           79 QAVAPHIIAAKTKVDISIENLKQFIEDKYN-QDLDILFIEGAGGLLTPYSDHTTQLDLIKAL-QIPVLLVSAIKVGCINH  156 (228)
T ss_dssp             SSSCHHHHHHHTTCCCCHHHHHHHHHGGGG-SSCSEEEEEEEEETTCBSSSSCBHHHHHHHH-TCCEEEEEECSTTHHHH
T ss_pred             CCCCHHHHHHHcCCCCCHHHHHHHHHHHHH-ccCCEEEEECCCccccccccchhHHHHHHHc-CCCEEEEEcCCcchHHH
Confidence            222111111111 11223456666665 54 79999999999876421      11121121 24589999999999999


Q ss_pred             HHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCC
Q 016622          322 VAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPI  378 (386)
Q Consensus       322 ~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~  378 (386)
                      +...++.+++.+.++.|+|+|+++.+...      .....+.+++.+|+|++|.||.
T Consensus       157 ~~~~~~~l~~~~~~i~GvIlN~~~~~~~~------~~~~~~~l~~~~g~pvLG~iP~  207 (228)
T 3of5_A          157 TLLTINELNRHNIKLAGWIANCNDSNIKY------IDEQINTIEELSGYKCSAKISR  207 (228)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEECCTTCSC------HHHHHHHHHHHHSCCCSEEEES
T ss_pred             HHHHHHHHHhCCCcEEEEEEECcCCcchh------hHHHHHHHHHhhCCCEEEECCC
Confidence            99999999999999999999998754311      1235677888899999999993

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=99.63  E-value=1.6e-15  Score=144.39  Aligned_cols=171  Identities=19%  Similarity=0.229  Sum_probs=106.9

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFG  251 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~  251 (386)
                      .+++|+|+|. +|+||||++.+||..++..|++|+++|+|++++.....+.   .+..         .....++.++|.+
T Consensus       104 ~~~vI~ivG~-~G~GKTT~~~~LA~~l~~~g~kVllid~D~~r~~a~~ql~---~~~~---------~~~~~~l~vip~~  170 (320)
T 1zu4_A          104 RLNIFMLVGV-NGTGKTTSLAKMANYYAELGYKVLIAAADTFRAGATQQLE---EWIK---------TRLNNKVDLVKAN  170 (320)
T ss_dssp             SCEEEEEESS-TTSSHHHHHHHHHHHHHHTTCCEEEEECCCSCHHHHHHHH---HHHT---------TTSCTTEEEECCS
T ss_pred             CCeEEEEECC-CCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHH---HHHh---------ccccCCceEEeCC
Confidence            3579999965 9999999999999999999999999999997754211000   0000         0013578888644


Q ss_pred             CCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhh------hh------cCCCeEEEEeCCCcchH
Q 016622          252 FSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLC------QV------VPLTAAVIVTTPQKLAF  319 (386)
Q Consensus       252 ~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~------~~------~~~d~vviV~~~~~~s~  319 (386)
                      ......       .....+.+..... +.||||||||||........+.      ..      ..+|.+++|+.+.. ..
T Consensus       171 ~~~~~p-------~~~~~~~l~~~~~-~~yD~VIIDTpg~l~~~~~l~~eL~~~~~vi~~~~p~~~d~vllVl~a~~-~~  241 (320)
T 1zu4_A          171 KLNADP-------ASVVFDAIKKAKE-QNYDLLLIDTAGRLQNKTNLMAELEKMNKIIQQVEKSAPHEVLLVIDATT-GQ  241 (320)
T ss_dssp             STTCCH-------HHHHHHHHHHHHH-TTCSEEEEECCCCGGGHHHHHHHHHHHHHHHHTTCTTCCSEEEEEEEGGG-TH
T ss_pred             CCCCCH-------HHHHHHHHHHHHh-cCCCEEEEcCCCcccccHHHHHHHHHHHHHHhcccCCCCceEEEEEECCC-cH
Confidence            322111       1112233332222 7899999999997753211110      01      12688889887763 33


Q ss_pred             HHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          320 IDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       320 ~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ..+.+. +.+.+ ..++.|+|+|+++....+        +....+...+|+|+..
T Consensus       242 ~~l~~~-~~~~~-~~~i~GvVltk~d~~~~~--------g~~~~~~~~~~~Pi~~  286 (320)
T 1zu4_A          242 NGVIQA-EEFSK-VADVSGIILTKMDSTSKG--------GIGLAIKELLNIPIKM  286 (320)
T ss_dssp             HHHHHH-HHHTT-TSCCCEEEEECGGGCSCT--------THHHHHHHHHCCCEEE
T ss_pred             HHHHHH-HHHhh-cCCCcEEEEeCCCCCCch--------hHHHHHHHHHCcCEEE
Confidence            334333 33332 367899999998865432        3567888899999754

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=99.60  E-value=1.8e-16  Score=159.02  Aligned_cols=242  Identities=12%  Similarity=0.111  Sum_probs=145.1

Q ss_pred             CcccHHHHHHHhccCCCCCCCCCc---cccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeE
Q 016622           73 TGTAENDVLKALSQIIDPDFGTDI---VSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVN  149 (386)
Q Consensus        73 ~~~~~~~i~~~L~~V~dPe~~~di---v~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~  149 (386)
                      ..++|+++.++|++++...+..||   +...|++.++....+..+       ..+....+.+.+.+++.|..+.+.... 
T Consensus        21 ~~~~e~~~~~~l~el~~~Ll~adv~~~~~~~~~~~v~~~~~~~~~-------~~~~~~~~~~~~~v~~eL~~ll~~~~~-   92 (504)
T 2j37_W           21 TIINEEVLNAMLKEVCTALLEADVNIKLVKQLRENVKSAIDLEEM-------ASGLNKRKMIQHAVFKELVKLVDPGVK-   92 (504)
T ss_dssp             SSCCHHHHHHHHHHHHHHHCCTTTSSSTTHHHHHHHHHHHTTCCC-------CSSSCHHHHHHHHHHHHHHHHHCCCCC-
T ss_pred             CCCCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCcc-------cccCChHHHHHHHHHHHHHHHhccccc-
Confidence            457899999999999888888777   445666665422210111       111222567888888888776543211 


Q ss_pred             EEEEeCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccc
Q 016622          150 VTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLE  229 (386)
Q Consensus       150 v~l~~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~  229 (386)
                             .+.        ......++|+|+ +.+|+||||++.+||.+++++|++|++||+|++++.....+...     
T Consensus        93 -------~~~--------~~~~~~~vI~iv-G~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~-----  151 (504)
T 2j37_W           93 -------AWT--------PTKGKQNVIMFV-GLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQN-----  151 (504)
T ss_dssp             -------CCC--------CCSS--EEEEEE-CSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHH-----
T ss_pred             -------hhc--------cccCCCeEEEEE-CCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHH-----
Confidence                   010        001235689998 66999999999999999999999999999999887542211100     


Q ss_pred             cCCCCCceeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh--HHH----hhhhhc
Q 016622          230 MNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD--IQL----TLCQVV  303 (386)
Q Consensus       230 ~~~~~~~i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~--~~~----~~~~~~  303 (386)
                                ....++.+++.+...+         ....+.+.++.+.+..||+||||||+....  ...    ......
T Consensus       152 ----------~~~~~i~v~~~~~~~d---------p~~i~~~al~~~~~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i  212 (504)
T 2j37_W          152 ----------ATKARIPFYGSYTEMD---------PVIIASEGVEKFKNENFEIIIVDTSGRHKQEDSLFEEMLQVANAI  212 (504)
T ss_dssp             ----------HHHHTCCEEECCCCSC---------HHHHHHHHHHHHHHTTCCEEEEEECCCCTTCHHHHHHHHHHHHHH
T ss_pred             ----------hhccCceEEccCCCCC---------HHHHHHHHHHHHHHCCCcEEEEeCCCCcccchhHHHHHHHHHhhh
Confidence                      0112455554322111         112223333333347899999999987642  111    111123


Q ss_pred             CCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeE
Q 016622          304 PLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       304 ~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl  373 (386)
                      .+|.+++|+.+....  +.....+.+.+. .++.++|+|+++.....        +..-.+.+.+|+|+.
T Consensus       213 ~pd~vllVvDa~~g~--~~~~~a~~~~~~-~~i~gvVlNK~D~~~~~--------g~~l~~~~~~g~PI~  271 (504)
T 2j37_W          213 QPDNIVYVMDASIGQ--ACEAQAKAFKDK-VDVASVIVTKLDGHAKG--------GGALSAVAATKSPII  271 (504)
T ss_dssp             CCSEEEEEEETTCCT--THHHHHHHHHHH-HCCCCEEEECTTSCCCC--------THHHHHHHHHCCCEE
T ss_pred             cCceEEEEEeccccc--cHHHHHHHHHhh-cCceEEEEeCCccccch--------HHHHHHHHHhCCCeE
Confidence            578899998876531  123334444432 56678999999865421        234457788898874

>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=99.58  E-value=1.3e-16  Score=157.04  Aligned_cols=242  Identities=16%  Similarity=0.159  Sum_probs=150.4

Q ss_pred             CcccHHHHHHHhccCCCCCCCCCc---cccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeE
Q 016622           73 TGTAENDVLKALSQIIDPDFGTDI---VSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVN  149 (386)
Q Consensus        73 ~~~~~~~i~~~L~~V~dPe~~~di---v~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~  149 (386)
                      ..++|+++.++|++|++..+..||   +...|+++++....+..+       ..+....+.+.+.+.+.+..+.+.... 
T Consensus        17 ~~l~e~~~~~~l~el~~~Ll~aDv~~~~~~~~~~~v~~~~~~~~~-------~~~~~~~~~v~~~v~~eL~~~L~~~~~-   88 (433)
T 3kl4_A           17 STPYEKAVDEFIKDLQKSLISSDVNVKLVFSLTAKIKERLNKEKP-------PSVLERKEWFISIVYDELSKLFGGDKE-   88 (433)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHSCC-------CTTCCHHHHHHHHHHHHHHHHHCSSSC-
T ss_pred             CCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhcccc-------cccCChHHHHHHHHHHHHHHhcCcccc-
Confidence            457999999999999999998888   556677666532210111       122233677888888888765442210 


Q ss_pred             EEEEeCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccc
Q 016622          150 VTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLE  229 (386)
Q Consensus       150 v~l~~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~  229 (386)
                             ..        ......+++|+++ |.+|+||||++.+||.+++.+|++|+++|+|.+++.....+.       
T Consensus        89 -------~~--------~~~~~~~~vI~lv-G~~GsGKTTt~~kLA~~l~~~G~kVllv~~D~~r~~a~eqL~-------  145 (433)
T 3kl4_A           89 -------PN--------VNPTKLPFIIMLV-GVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPAAYDQLL-------  145 (433)
T ss_dssp             -------CC--------CSCCSSSEEEEEC-CCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCSCHHHHHHHH-------
T ss_pred             -------cc--------ccccCCCeEEEEE-CCCCCCHHHHHHHHHHHHHHcCCeEEEEecCccchhHHHHHH-------
Confidence                   00        1112235688887 789999999999999999999999999999987754211100       


Q ss_pred             cCCCCCceeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC---hH-----HHhhhh
Q 016622          230 MNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG---DI-----QLTLCQ  301 (386)
Q Consensus       230 ~~~~~~~i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~---~~-----~~~~~~  301 (386)
                              ......++.+......         ..........++.+.+..||+||||||+...   +.     ...+..
T Consensus       146 --------~~~~~~gv~~~~~~~~---------~dp~~i~~~al~~a~~~~~DvvIIDTaGr~~~~~d~~lm~el~~i~~  208 (433)
T 3kl4_A          146 --------QLGNQIGVQVYGEPNN---------QNPIEIAKKGVDIFVKNKMDIIIVDTAGRHGYGEETKLLEEMKEMYD  208 (433)
T ss_dssp             --------HHHHTTTCCEECCTTC---------SCHHHHHHHHHHHTTTTTCSEEEEEECCCSSSCCTTHHHHHHHHHHH
T ss_pred             --------HHHHhcCCceeecccc---------CCHHHHHHHHHHHHHhcCCCEEEEECCCCccccCCHHHHHHHHHHHH
Confidence                    0001123333332211         1122344555666656799999999997543   11     111222


Q ss_pred             hcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeE
Q 016622          302 VVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       302 ~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl  373 (386)
                      ....+.+++|+.+...  .++....+.+.+ ..++.|+|+|+++....+        +..-.+...+|+|+.
T Consensus       209 ~~~pd~vlLVlDa~~g--q~a~~~a~~f~~-~~~~~gVIlTKlD~~a~~--------G~als~~~~~g~Pi~  269 (433)
T 3kl4_A          209 VLKPDDVILVIDASIG--QKAYDLASRFHQ-ASPIGSVIITKMDGTAKG--------GGALSAVVATGATIK  269 (433)
T ss_dssp             HHCCSEEEEEEEGGGG--GGGHHHHHHHHH-HCSSEEEEEECGGGCSCH--------HHHHHHHHHHTCEEE
T ss_pred             hhCCcceEEEEeCccc--hHHHHHHHHHhc-ccCCcEEEEecccccccc--------hHHHHHHHHHCCCEE
Confidence            3345888888777653  334444455553 245689999999875421        345667777898874

>3fgn_A Dethiobiotin synthetase; biotin biosynthesis, BIOD, ATP-BIND ligase, magnesium, nucleotide-binding; 1.85A {Mycobacterium tuberculosis} PDB: 3fmf_A* 3fmi_A* 3fpa_A*

Probab=99.58  E-value=9.8e-15  Score=133.97  Aligned_cols=194  Identities=15%  Similarity=0.098  Sum_probs=118.6

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEec
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSF  250 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~  250 (386)
                      +.++.|.|++...|+|||++++.|+.+|+++|+||..+..=..+.. ..  +.+....... ..  +...  .+...+..
T Consensus        24 ~~m~~i~Itgt~t~vGKT~vt~gL~~~l~~~G~~V~~fKPv~~g~~-~~--~~D~~~~~~~-~g--~~~~--~~~~~~~~   95 (251)
T 3fgn_A           24 SHMTILVVTGTGTGVGKTVVCAALASAARQAGIDVAVCKPVQTGTA-RG--DDDLAEVGRL-AG--VTQL--AGLARYPQ   95 (251)
T ss_dssp             SSCEEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEEEEEECCGG-GT--CCHHHHHHHH-HC--CCEE--EEEEECSS
T ss_pred             cCCCEEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEEEEeeeecCCC-CC--CHHHHHHHHH-cC--CCCC--CCCeeECC
Confidence            4568999999999999999999999999999999999973111100 00  0000000000 00  0000  11222211


Q ss_pred             CCCCCcccccCC--chHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh-------HHHhhhhhcCCCeEEEEeCCCcchHHH
Q 016622          251 GFSGQGRAIMRG--PMVSGVINQLLTTTEWGELDYLVIDMPPGTGD-------IQLTLCQVVPLTAAVIVTTPQKLAFID  321 (386)
Q Consensus       251 ~~~~~~~~~~~~--~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~-------~~~~~~~~~~~d~vviV~~~~~~s~~~  321 (386)
                      ...........+  ....+.+.+.++.+. ++||+||||+++|+.+       ....++... ...+++|+.++..++..
T Consensus        96 p~sP~~aa~~~~~~~~~~~~i~~~~~~l~-~~~D~vlIEGagGl~~pl~~~~~~~adla~~l-~~pVILV~~~~~g~i~~  173 (251)
T 3fgn_A           96 PMAPAAAAEHAGMALPARDQIVRLIADLD-RPGRLTLVEGAGGLLVELAEPGVTLRDVAVDV-AAAALVVVTADLGTLNH  173 (251)
T ss_dssp             SSCHHHHHHHTTCCCCCHHHHHHHHHTTC-CTTCEEEEECSSSTTCEEETTTEEHHHHHHHT-TCEEEEEECSSTTHHHH
T ss_pred             CCChHHHHHHcCCCCCCHHHHHHHHHHHH-hcCCEEEEECCCCCcCCcCcccchHHHHHHHc-CCCEEEEEcCCCccHHH
Confidence            111001111111  122345666666665 7999999999988742       111122122 36799999999999999


Q ss_pred             HHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChh
Q 016622          322 VAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPT  381 (386)
Q Consensus       322 ~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~  381 (386)
                      +...++.+++.+.++.|+|+|++..+..- ..    +...+.++ ++ +|++|.||+++.
T Consensus       174 ~~lt~~~l~~~g~~i~GvIlN~v~~~~~~-~~----~~~~~~le-~~-vpvLG~iP~~~~  226 (251)
T 3fgn_A          174 TKLTLEALAAQQVSCAGLVIGSWPDPPGL-VA----ASNRSALA-RI-AMVRAALPAGAA  226 (251)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEEECSSCCH-HH----HHHHHHHH-HH-SCEEEEEETTGG
T ss_pred             HHHHHHHHHhCCCCEEEEEEECCCCchhh-hh----hhHHHHHH-Hh-CCEEEEeeCCCC
Confidence            99999999999999999999998643210 00    12234444 44 999999999863

>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=99.57  E-value=8.7e-15  Score=137.88  Aligned_cols=241  Identities=18%  Similarity=0.180  Sum_probs=139.0

Q ss_pred             CcccHHHHHHHhccCCCCCCCCCc---cccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeE
Q 016622           73 TGTAENDVLKALSQIIDPDFGTDI---VSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVN  149 (386)
Q Consensus        73 ~~~~~~~i~~~L~~V~dPe~~~di---v~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~  149 (386)
                      ..++++++.+.|++++...+..|+   +...+++++..... |+.      ...+....+.+.....+.+...-+-..  
T Consensus        20 ~~~~~~~l~~~l~~l~~~Ll~ad~~~~~~~~l~d~v~~~~~-g~~------~~~~~~~~~~~~~~~~~~l~~~~~~~~--   90 (295)
T 1ls1_A           20 GRITEEDLKATLREIRRALMDADVNLEVARDFVERVREEAL-GKQ------VLESLTPAEVILATVYEALKEALGGEA--   90 (295)
T ss_dssp             CSCCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH-HTT------TTTCSCHHHHHHHHHHHHHHHHTTSSC--
T ss_pred             CCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHc-ccc------ccccCCcHHHHHHHHHHHHHHHHCCCC--
Confidence            456888888888888765555454   33455555543221 110      000111123444444444432211110  


Q ss_pred             EEEEeCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccc
Q 016622          150 VTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLE  229 (386)
Q Consensus       150 v~l~~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~  229 (386)
                           .+          -.+. .+++|+++ +++|+||||++.+||..++..|.+|+++|+|++++.....+..      
T Consensus        91 -----~~----------i~~~-~~~~i~i~-g~~G~GKTT~~~~la~~~~~~~~~v~l~~~d~~~~~~~~ql~~------  147 (295)
T 1ls1_A           91 -----RL----------PVLK-DRNLWFLV-GLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRL------  147 (295)
T ss_dssp             -----CC----------CCCC-SSEEEEEE-CCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHH------
T ss_pred             -----ce----------eecC-CCeEEEEE-CCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcccHhHHHHHHH------
Confidence                 00          0112 45799999 8999999999999999999999999999999987644321110      


Q ss_pred             cCCCCCceeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhh------hhhc
Q 016622          230 MNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTL------CQVV  303 (386)
Q Consensus       230 ~~~~~~~i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~------~~~~  303 (386)
                               .....|+++++.+.....         ....+..++.+...+||+|||||||..+.....+      ....
T Consensus       148 ---------~~~~~~l~~~~~~~~~~p---------~~l~~~~l~~~~~~~~D~viiDtpp~~~~d~~~~~~l~~~~~~~  209 (295)
T 1ls1_A          148 ---------LGEKVGVPVLEVMDGESP---------ESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELARLKEVL  209 (295)
T ss_dssp             ---------HHHHHTCCEEECCTTCCH---------HHHHHHHHHHHHHHTCCEEEEECCCCSSCCHHHHHHHHHHHHHH
T ss_pred             ---------hcccCCeEEEEcCCCCCH---------HHHHHHHHHHHHhCCCCEEEEeCCCCccccHHHHHHHHHHhhhc
Confidence                     012247788875542111         1122333333322689999999998764211111      1123


Q ss_pred             CCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          304 PLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       304 ~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ..|.+++|+.+.. . .++.+..+.+.. ..++.|+|+|+++.....        +..-.+.+.+|+|+..
T Consensus       210 ~~~~~~lv~~~~~-~-~~~~~~~~~~~~-~~~i~givlnk~d~~~~~--------g~~~~~~~~~~~pi~~  269 (295)
T 1ls1_A          210 GPDEVLLVLDAMT-G-QEALSVARAFDE-KVGVTGLVLTKLDGDARG--------GAALSARHVTGKPIYF  269 (295)
T ss_dssp             CCSEEEEEEEGGG-T-HHHHHHHHHHHH-HTCCCEEEEECGGGCSSC--------HHHHHHHHHHCCCEEE
T ss_pred             CCCEEEEEEeCCC-c-HHHHHHHHHHhh-cCCCCEEEEECCCCCccH--------HHHHHHHHHHCcCEEE
Confidence            4688888887664 2 333344444443 366789999998865421        3456778888999864

>3qxc_A Dethiobiotin synthetase; DTBS, structural genomics, ATP BIND biology, protein structure initiative, midwest center for S genomics, MCSG; HET: ATP; 1.34A {Helicobacter pylori} PDB: 3mle_A* 3qxh_A* 3qxj_A* 3qxs_A* 3qxx_A* 3qy0_A* 2qmo_A

Probab=99.50  E-value=1.1e-13  Score=126.40  Aligned_cols=210  Identities=10%  Similarity=0.030  Sum_probs=118.5

Q ss_pred             cccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccccccc----CCCCCceeeec
Q 016622          166 PEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEM----NPEKRTIIPTE  241 (386)
Q Consensus       166 ~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~----~~~~~~i~~~~  241 (386)
                      .+++..|++.|.|++..+|+|||++++.|+.+|+++|++|..+..=..+..  ..-+...+....    ......+....
T Consensus        14 ~~~~~~m~k~i~ItgT~t~vGKT~vs~gL~~~L~~~G~~V~~fKPv~~g~~--~~~~~~~D~~~~~~~~~~~~~g~~~~~   91 (242)
T 3qxc_A           14 RENLYFQGHMLFISATNTNAGKTTCARLLAQYCNACGVKTILLKPIETGVN--DAINHSSDAHLFLQDNRLLDRSLTLKD   91 (242)
T ss_dssp             -----CCCEEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEECCEECSCC--TTTCCCSHHHHHHHHHHTTCTTCCHHH
T ss_pred             hhHHhhcCcEEEEEeCCCCCcHHHHHHHHHHHHHhCCCceEEEeeeecCCc--ccCCCCchHHHHHHHHHHHhCCCChHH
Confidence            457788999999999999999999999999999999999999963111111  000011110000    00000000000


Q ss_pred             cCCceEEecCCCCCcccccCC---chHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH------HHhhhhhcCCCeEEEEe
Q 016622          242 YLGVKLVSFGFSGQGRAIMRG---PMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI------QLTLCQVVPLTAAVIVT  312 (386)
Q Consensus       242 ~~~l~vl~~~~~~~~~~~~~~---~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~------~~~~~~~~~~d~vviV~  312 (386)
                       -+...+.............+   ....+.+.+.++.+. ..||+||||+++|+.+.      ...++... ...+++|+
T Consensus        92 -~~p~~~~~p~sp~~aa~~~g~~~~i~~~~I~~~~~~l~-~~~D~vlIEGagGl~~pl~~~~~~adlA~~l-~~pVILV~  168 (242)
T 3qxc_A           92 -ISFYRYHKVSAPLIAQQEEDPNAPIDTDNLTQRLHNFT-KTYDLVIVEGAGGLCVPITLEENMLDFALKL-KAKMLLIS  168 (242)
T ss_dssp             -HCCEECSSSSCHHHHHHHHCTTCCCCHHHHHHHHHHGG-GTCSEEEEECCSCTTCBSSSSCBHHHHHHHH-TCEEEEEE
T ss_pred             -eeeEEECCCCChHHHHHHcCCCCcCCHHHHHHHHHHHH-hcCCEEEEECCCCccccccccchHHHHHHHc-CCCEEEEE
Confidence             01122211111000000011   122344556666555 79999999999887431      11122222 24689999


Q ss_pred             CCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhh
Q 016622          313 TPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSY  384 (386)
Q Consensus       313 ~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~  384 (386)
                      .++..++..+...++.+++.+++ .|+|+|+++.+..   .+...+..+++.-.....+++..+|.-+.+.+
T Consensus       169 ~~~lg~i~~~~lt~~~l~~~g~~-~GvIlN~v~~~~~---~~~~~~p~le~~~~~~~~~~~~~~~~~~~l~~  236 (242)
T 3qxc_A          169 HDNLGLINDCLLNDFLLKSHQLD-YKIAINLKGNNTA---FHSISLPYIELFNTRSNNPIVIFQQSLKVLMS  236 (242)
T ss_dssp             CCSTTHHHHHHHHHHHHHTSSSC-EEEEECCCTTCCH---HHHHTHHHHHHHHHHCSSCCEEGGGCHHHHHH
T ss_pred             cCCCcHHHHHHHHHHHHHhCCCC-EEEEEeCCCCccc---hhhhhHHHHHHhcCcccCCceeccccHHHHHH
Confidence            99999999999999999999999 9999999876531   11111112233333334677777766665543

>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=99.50  E-value=3e-13  Score=133.63  Aligned_cols=240  Identities=15%  Similarity=0.178  Sum_probs=138.5

Q ss_pred             ccHHHHHHHhccCCCCCCCCCc---cccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeEEE
Q 016622           75 TAENDVLKALSQIIDPDFGTDI---VSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVT  151 (386)
Q Consensus        75 ~~~~~i~~~L~~V~dPe~~~di---v~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~v~  151 (386)
                      ++++++.+.++++....+..||   +...+++.++...- +. .     +..+....+.+.+.+++.+..+.+....   
T Consensus        21 ~~e~~~~~~~~e~~~~Ll~adv~~~~~~~~~~~vk~~~~-~~-~-----~~~~~~~~~~~~~~~~~~l~~ll~~~~~---   90 (432)
T 2v3c_C           21 VDKKLIKEVIKDIQRALIQADVNVKLVLKMSKEIERRAL-EE-K-----TPKGLSKKEHIIKIVYEELVKLLGEEAK---   90 (432)
T ss_dssp             CCSSTTHHHHHHHHHHHHHTCCCHHHHHHHTHHHHHHHS-SS-C-----SSCSSCHHHHHHHHHHHHHHHHHCCSCC---
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhc-cc-c-----ccccCChHHHHHHHHHHHHHHHhCCCCc---
Confidence            3454555555555555555555   33556665543221 10 0     1112222555777777777766443211   


Q ss_pred             EEeCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccC
Q 016622          152 MSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMN  231 (386)
Q Consensus       152 l~~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~  231 (386)
                           .|..        -++.+++|+|+| .+|+||||++.+||..++++|+||+++|+|++++.....+..        
T Consensus        91 -----~~~~--------~~~~~~vI~ivG-~~GvGKTTla~~La~~l~~~G~kVllv~~D~~r~~a~~qL~~--------  148 (432)
T 2v3c_C           91 -----KLEL--------NPKKQNVILLVG-IQGSGKTTTAAKLARYIQKRGLKPALIAADTYRPAAYEQLKQ--------  148 (432)
T ss_dssp             -----CCCC--------CSSSCCCEEEEC-CSSSSTTHHHHHHHHHHHHHHCCEEEECCSCCCTTGGGSSHH--------
T ss_pred             -----Cccc--------cCCCCeEEEEEC-CCCCCHHHHHHHHHHHHHHcCCeEEEEeccccCchHHHHHHH--------
Confidence                 1100        012345899985 699999999999999999999999999999998765322110        


Q ss_pred             CCCCceeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHH-H-----hhhhhcCC
Q 016622          232 PEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQ-L-----TLCQVVPL  305 (386)
Q Consensus       232 ~~~~~i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~-~-----~~~~~~~~  305 (386)
                             .....|+.+++.+....+.    ..    .+.+.+..+  ..||+||||||+...... +     .+..+..+
T Consensus       149 -------~~~~~gv~v~~~~~~~~dp----~~----i~~~~l~~~--~~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~  211 (432)
T 2v3c_C          149 -------LAEKIHVPIYGDETRTKSP----VD----IVKEGMEKF--KKADVLIIDTAGRHKEEKGLLEEMKQIKEITNP  211 (432)
T ss_dssp             -------HHHHSSCCEECCSSSCCSS----ST----THHHHHHTT--SSCSEEEEECCCSCSSHHHHHHHHHHTTSSSCC
T ss_pred             -------hhhccCcceEecCCCCCCH----HH----HHHHHHHHh--hCCCEEEEcCCCCccccHHHHHHHHHHHHHhcC
Confidence                   0122467777654111110    01    123344443  689999999998765211 1     11122357


Q ss_pred             CeEEEEeCCCcchHHHHHHHHHHHHcCCC-CeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          306 TAAVIVTTPQKLAFIDVAKGVRMFSKLKV-PCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       306 d~vviV~~~~~~s~~~~~~~~~~l~~~~~-~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      |.+++|+.+....  ++....+.+.. +. ++.|+|+|+++....+        +....+.+.+|.|+..
T Consensus       212 d~vllVvda~~g~--~~~~~~~~~~~-~~~~i~gvVlnK~D~~~~~--------g~~l~~~~~~~~pi~~  270 (432)
T 2v3c_C          212 DEIILVIDGTIGQ--QAGIQAKAFKE-AVGEIGSIIVTKLDGSAKG--------GGALSAVAETKAPIKF  270 (432)
T ss_dssp             SEEEEEEEGGGGG--GHHHHHHHHHT-TSCSCEEEEEECSSSCSTT--------HHHHHHHHHSSCCEEE
T ss_pred             cceeEEeeccccH--HHHHHHHHHhh-cccCCeEEEEeCCCCccch--------HHHHHHHHHHCCCEEE
Confidence            8888888765432  33344444543 35 7799999999865321        2244578888988754

>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=99.42  E-value=1.3e-12  Score=123.30  Aligned_cols=167  Identities=19%  Similarity=0.249  Sum_probs=102.6

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFG  251 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~  251 (386)
                      .+++|+|+|. +|+||||++.+||..++..|++|+++|+|.+++.....      +.         ......++.+++..
T Consensus       103 ~~~vi~ivG~-~GsGKTTl~~~LA~~l~~~g~kV~lv~~D~~r~~a~eq------L~---------~~~~~~gl~~~~~~  166 (306)
T 1vma_A          103 PPFVIMVVGV-NGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQ------LK---------IWGERVGATVISHS  166 (306)
T ss_dssp             SCEEEEEECC-TTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHH------HH---------HHHHHHTCEEECCS
T ss_pred             CCeEEEEEcC-CCChHHHHHHHHHHHHHhcCCEEEEEccccccHHHHHH------HH---------HHHHHcCCcEEecC
Confidence            4579999965 99999999999999999999999999999877532100      00         00011256666533


Q ss_pred             CCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHH-H-----hhhhh------cCCCeEEEEeCCCcchH
Q 016622          252 FSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQ-L-----TLCQV------VPLTAAVIVTTPQKLAF  319 (386)
Q Consensus       252 ~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~-~-----~~~~~------~~~d~vviV~~~~~~s~  319 (386)
                      ...+..     ......+...   .. .+||+||+|+|+...... +     .+...      ...+.+++|+... ...
T Consensus       167 s~~~~~-----~v~~~al~~a---~~-~~~dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~-t~~  236 (306)
T 1vma_A          167 EGADPA-----AVAFDAVAHA---LA-RNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDAT-TGQ  236 (306)
T ss_dssp             TTCCHH-----HHHHHHHHHH---HH-TTCSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGG-GHH
T ss_pred             CccCHH-----HHHHHHHHHH---Hh-cCCCEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECC-CCH
Confidence            211110     0011122222   22 789999999998643211 1     00111      1257888888765 333


Q ss_pred             HHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          320 IDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       320 ~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ..+... +.+.+ ..++.|+|+|+++....+        +..-.+...+|+|+..
T Consensus       237 ~~l~~a-~~~~~-~~~i~gvVlTk~D~~~~g--------G~~l~~~~~~~~Pi~~  281 (306)
T 1vma_A          237 NGLVQA-KIFKE-AVNVTGIILTKLDGTAKG--------GITLAIARELGIPIKF  281 (306)
T ss_dssp             HHHHHH-HHHHH-HSCCCEEEEECGGGCSCT--------THHHHHHHHHCCCEEE
T ss_pred             HHHHHH-HHHHh-cCCCCEEEEeCCCCccch--------HHHHHHHHHHCCCEEE
Confidence            333333 33433 266789999999865432        4578889999999875

>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=99.38  E-value=3.8e-13  Score=123.87  Aligned_cols=46  Identities=22%  Similarity=0.302  Sum_probs=41.7

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLP  218 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~  218 (386)
                      +...+.+.++|||+||||++.+||..++ .|+||++||+|++...+.
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~~l~-~g~~v~vvd~D~~~~~~~   57 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGRYLE-DNYKVAYVNLDTGVKELP   57 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHT-TTSCEEEEECCSSCSCCS
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHHHHH-CCCeEEEEeCCCCccccC
Confidence            4568888999999999999999999999 999999999999887653

>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=99.23  E-value=3.9e-11  Score=112.83  Aligned_cols=160  Identities=18%  Similarity=0.149  Sum_probs=96.8

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHH-CCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAG-MGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFG  251 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~-~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~  251 (386)
                      +++|+|++ .+|+||||++.+||..++. +|++|+++|+|++++.....+..      .         ....++.+... 
T Consensus       105 g~vi~lvG-~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~~r~~a~eqL~~------~---------~~~~gl~~~~~-  167 (296)
T 2px0_A          105 SKYIVLFG-STGAGKTTTLAKLAAISMLEKHKKIAFITTDTYRIAAVEQLKT------Y---------AELLQAPLEVC-  167 (296)
T ss_dssp             SSEEEEEE-STTSSHHHHHHHHHHHHHHTTCCCEEEEECCCSSTTHHHHHHH------H---------HTTTTCCCCBC-
T ss_pred             CcEEEEEC-CCCCCHHHHHHHHHHHHHHhcCCEEEEEecCcccchHHHHHHH------H---------HHhcCCCeEec-
Confidence            46999985 5899999999999999995 89999999999976543211100      0         00012211110 


Q ss_pred             CCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHH---hhhhhc---CCCeEEEEeCCCcchHHHHHHH
Q 016622          252 FSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL---TLCQVV---PLTAAVIVTTPQKLAFIDVAKG  325 (386)
Q Consensus       252 ~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~---~~~~~~---~~d~vviV~~~~~~s~~~~~~~  325 (386)
                               ..+   ..+...+..+  .+||+||+||++.......   .+..+.   ..+.+++|+.... ...++.+.
T Consensus       168 ---------~~~---~~l~~al~~~--~~~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at~-~~~~~~~~  232 (296)
T 2px0_A          168 ---------YTK---EEFQQAKELF--SEYDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATA-KYEDMKHI  232 (296)
T ss_dssp             ---------SSH---HHHHHHHHHG--GGSSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETTB-CHHHHHHH
T ss_pred             ---------CCH---HHHHHHHHHh--cCCCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECCC-CHHHHHHH
Confidence                     001   1233444433  6899999999875542111   111122   2466677764443 34555555


Q ss_pred             HHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          326 VRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       326 ~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      .+.+..  +++.|+|+|+++.....        +....+...+|+|+..
T Consensus       233 ~~~~~~--l~~~giVltk~D~~~~~--------g~~~~~~~~~~~pi~~  271 (296)
T 2px0_A          233 VKRFSS--VPVNQYIFTKIDETTSL--------GSVFNILAESKIGVGF  271 (296)
T ss_dssp             TTTTSS--SCCCEEEEECTTTCSCC--------HHHHHHHHTCSCCCSE
T ss_pred             HHHHhc--CCCCEEEEeCCCcccch--------hHHHHHHHHHCcCEEE
Confidence            555543  45689999998865421        3566777888988754

>3ux2_A MIP18 family protein FAM96A; immune system, DUF59, 3D domain swapping, protein-protein interaction, alpha and beta protein (A+B); HET: MSE; 1.80A {Homo sapiens} PDB: 3ux3_A

Probab=99.16  E-value=6.1e-12  Score=101.65  Aligned_cols=78  Identities=17%  Similarity=0.275  Sum_probs=64.7

Q ss_pred             ccHHHHHHHhccCCCCCCCCCccccCCeeEEEEe-----cCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhc-CCCccee
Q 016622           75 TAENDVLKALSQIIDPDFGTDIVSCGFVKDMQIN-----EALGEVSFRLELTTPACPIKDMFEQRANEVVLA-IPWVNKV  148 (386)
Q Consensus        75 ~~~~~i~~~L~~V~dPe~~~div~lg~V~~v~~~-----~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~-l~gv~~v  148 (386)
                      ..+++|+++|++|+|||++.++++||+|+++.+.     ++++.+.|.|++|.++||++..|...++.+|.. +++.-++
T Consensus         8 ~~~~eI~d~L~~I~DPEiPvtl~dLGvV~~v~I~v~~~~~~~~~V~V~~TPT~p~Cp~a~~I~l~Ir~kL~~~lp~~~kV   87 (130)
T 3ux2_A            8 EKALEVYDLIRTIRDPEKPNTLEELEVVSESCVEVQEINEEEYLVIIRFTPTVPHCSLATLIGLCLRVKLQRCLPFKHKL   87 (130)
T ss_dssp             HHHHHHHHHHTTCBCSSSSSBTTTTTSCCGGGEEEEEEETTEEEEEECCCCCCCSSCHHHHHHHHHHHHHHHHCSSCCCC
T ss_pred             ccHHHHHHHHhcCCCCCCCCCHHHCCeeeecceEeecccCCCCeEEEEEEeCCCCCCchHHHHHHHHHHHHHhCCCceEE
Confidence            3588999999999999999999999999997653     222569999999999999999999999999965 6664444


Q ss_pred             EEEE
Q 016622          149 NVTM  152 (386)
Q Consensus       149 ~v~l  152 (386)
                      ++.+
T Consensus        88 ~v~I   91 (130)
T 3ux2_A           88 EIYI   91 (130)
T ss_dssp             CCCC
T ss_pred             EEEE
Confidence            4333

>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=99.03  E-value=5.1e-10  Score=107.97  Aligned_cols=152  Identities=18%  Similarity=0.142  Sum_probs=82.3

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCc-cCCCcccccccCCCCCceeeeccCCceEEec
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPT-MVSPENRLLEMNPEKRTIIPTEYLGVKLVSF  250 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~-~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~  250 (386)
                      ...+|+|+ |++|+||||++.+|+..++..|++|+++|+|++.+.... +++....         .......+++++.+.
T Consensus        78 ~~~~I~i~-G~~G~GKSTl~~~L~~~l~~~g~kV~vi~~Dp~~~~~~g~~l~d~~~---------~~~~~~~~~~~i~~~  147 (355)
T 3p32_A           78 NAHRVGIT-GVPGVGKSTAIEALGMHLIERGHRVAVLAVDPSSTRTGGSILGDKTR---------MARLAVHPNAYIRPS  147 (355)
T ss_dssp             CSEEEEEE-CCTTSSHHHHHHHHHHHHHTTTCCEEEEEEC-------------------------CHHHHTCTTEEEECC
T ss_pred             CceEEEEE-CCCCCCHHHHHHHHHHHHHhCCCceEEEecCCCCCcccchhccchhh---------HHhhccCCCeeEEEC
Confidence            34578776 789999999999999999999999999999997764221 1110000         000112346666654


Q ss_pred             CCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHH
Q 016622          251 GFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFS  330 (386)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~  330 (386)
                      +.....      ..........+..+.+..||++|||||+ .......+  ...+|.+++|+.++.....  ..+...+ 
T Consensus       148 ~~~~~~------~~~~~~t~d~i~~~~~~~~~~iiiDTpG-i~~~~~~~--~~~aD~vl~V~d~~~~~~~--~~l~~~~-  215 (355)
T 3p32_A          148 PTSGTL------GGVTRATRETVVLLEAAGFDVILIETVG-VGQSEVAV--ANMVDTFVLLTLARTGDQL--QGIKKGV-  215 (355)
T ss_dssp             C--CCH------HHHHHHHHHHHHHHHHTTCCEEEEEECS-CSSHHHHH--HTTCSEEEEEEESSTTCTT--TTCCTTS-
T ss_pred             CCCccc------cchhHHHHHHHHHHhhCCCCEEEEeCCC-CCcHHHHH--HHhCCEEEEEECCCCCccH--HHHHHhH-
Confidence            432111      0111222222223333789999999985 55433333  3457999999887653211  1100111 


Q ss_pred             cCCCCeEEEEEcCCcCC
Q 016622          331 KLKVPCIAVVENMCHFD  347 (386)
Q Consensus       331 ~~~~~i~gvVlN~~~~~  347 (386)
                       .+.+ ..+|+||++..
T Consensus       216 -~~~p-~ivVlNK~Dl~  230 (355)
T 3p32_A          216 -LELA-DIVVVNKADGE  230 (355)
T ss_dssp             -GGGC-SEEEEECCCGG
T ss_pred             -hhcC-CEEEEECCCCc
Confidence             1223 45888999854

>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=98.99  E-value=2e-10  Score=109.42  Aligned_cols=248  Identities=17%  Similarity=0.190  Sum_probs=144.4

Q ss_pred             CCcccHHHHHHHhccCCCCCCCCCc---cccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCccee
Q 016622           72 STGTAENDVLKALSQIIDPDFGTDI---VSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKV  148 (386)
Q Consensus        72 ~~~~~~~~i~~~L~~V~dPe~~~di---v~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v  148 (386)
                      ....+++++.+.|+++++..+..||   +...++++++.+..+.++.  -.     ....+.+.+.+++.+..+.+... 
T Consensus        44 ~~~~~~~~~~~~~~~~~~~Ll~adv~~~~~~~~~~~~~~~~~~~~~~--~~-----~~~~~~~~~~l~~~l~~~l~~~~-  115 (328)
T 3e70_C           44 TVEIKEKDVDKALDELEIDLLEADVALEVVDALREKIKQKLVGKKVR--IG-----TDKGKIIEEAVKEAVSEILETSR-  115 (328)
T ss_dssp             EEECCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHTTCEEE--CC--------CHHHHHHHHHHHHHHSCCSS-
T ss_pred             hccCCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhhcccC--Cc-----cCHHHHHHHHHHHHHHHHhCCcc-
Confidence            3567999999999999999888888   4566777766443212221  11     11256777777877776544211 


Q ss_pred             EEEEEeCCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccccc
Q 016622          149 NVTMSAQPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLL  228 (386)
Q Consensus       149 ~v~l~~~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~  228 (386)
                      .+++.      ..     ......+.+|+++ |..|+||||+...||..+...|.+|++++.|.++......+       
T Consensus       116 ~~~~~------~~-----~~~~~~g~vi~lv-G~nGaGKTTll~~Lag~l~~~~g~V~l~g~D~~r~~a~eql-------  176 (328)
T 3e70_C          116 RIDLI------EE-----IRKAEKPYVIMFV-GFNGSGKTTTIAKLANWLKNHGFSVVIAASDTFRAGAIEQL-------  176 (328)
T ss_dssp             CCCHH------HH-----HHSSCSSEEEEEE-CCTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSTTHHHHH-------
T ss_pred             ccchh------hh-----cccCCCCeEEEEE-CCCCCCHHHHHHHHHHHHHhcCCEEEEEeecccccchHHHH-------
Confidence            00000      00     0011245689988 66999999999999999999999999999998764321100       


Q ss_pred             ccCCCCCceeeeccCCceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh--H----HHhhhhh
Q 016622          229 EMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD--I----QLTLCQV  302 (386)
Q Consensus       229 ~~~~~~~~i~~~~~~~l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~--~----~~~~~~~  302 (386)
                              ......-++.+++........     ....+.+....    ...||++++|+++....  .    ...+...
T Consensus       177 --------~~~~~~~gv~~v~q~~~~~p~-----~~v~e~l~~~~----~~~~d~vliDtaG~~~~~~~l~~eL~~i~ra  239 (328)
T 3e70_C          177 --------EEHAKRIGVKVIKHSYGADPA-----AVAYDAIQHAK----ARGIDVVLIDTAGRSETNRNLMDEMKKIARV  239 (328)
T ss_dssp             --------HHHHHHTTCEEECCCTTCCHH-----HHHHHHHHHHH----HHTCSEEEEEECCSCCTTTCHHHHHHHHHHH
T ss_pred             --------HHHHHHcCceEEeccccCCHH-----HHHHHHHHHHH----hccchhhHHhhccchhHHHHHHHHHHHHHHH
Confidence                    000011244444322211110     11112222222    15799999999976431  1    1112223


Q ss_pred             cCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          303 VPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       303 ~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ...|..++|..+...  .++...++.+.+ ...+.++|+|+.+....+        +..-.+...+|.|+..
T Consensus       240 l~~de~llvLDa~t~--~~~~~~~~~~~~-~~~it~iilTKlD~~a~~--------G~~l~~~~~~~~pi~~  300 (328)
T 3e70_C          240 TKPNLVIFVGDALAG--NAIVEQARQFNE-AVKIDGIILTKLDADARG--------GAALSISYVIDAPILF  300 (328)
T ss_dssp             HCCSEEEEEEEGGGT--THHHHHHHHHHH-HSCCCEEEEECGGGCSCC--------HHHHHHHHHHTCCEEE
T ss_pred             hcCCCCEEEEecHHH--HHHHHHHHHHHH-hcCCCEEEEeCcCCccch--------hHHHHHHHHHCCCEEE
Confidence            346888888775443  345555555543 234568999998864321        3456778888988764

>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=98.76  E-value=2.5e-08  Score=99.16  Aligned_cols=167  Identities=17%  Similarity=0.208  Sum_probs=96.1

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFG  251 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~  251 (386)
                      .+.+|+|+ |.+|+||||+...||..+...|.+|++.+.|.++.....      .+..         .....++.+++..
T Consensus       292 ~GeVI~LV-GpNGSGKTTLl~~LAgll~~~~G~V~l~g~D~~r~aa~e------QL~~---------~~~r~~I~vV~Q~  355 (503)
T 2yhs_A          292 APFVILMV-GVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVE------QLQV---------WGQRNNIPVIAQH  355 (503)
T ss_dssp             TTEEEEEE-CCTTSSHHHHHHHHHHHHHHTTCCEEEECCCTTCHHHHH------HHHH---------HHHHHTCCEECCS
T ss_pred             CCeEEEEE-CCCcccHHHHHHHHHHHhhhcCCeEEEecCcccchhhHH------HHHH---------HHHhcCceEEecc
Confidence            35689998 779999999999999999988899999999876521000      0000         0001134444322


Q ss_pred             CCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh-HHHh-----hhhh------cCCCeEEEEeCCCcchH
Q 016622          252 FSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD-IQLT-----LCQV------VPLTAAVIVTTPQKLAF  319 (386)
Q Consensus       252 ~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~-~~~~-----~~~~------~~~d~vviV~~~~~~s~  319 (386)
                      ....     ........+....    ...||+|||||++.... ..+.     +...      ...+.+++|..+...  
T Consensus       356 ~~~~-----p~~tV~e~l~~a~----~~~~DvVLIDTaGrl~~~~~lm~EL~kiv~iar~l~~~~P~evLLvLDattG--  424 (503)
T 2yhs_A          356 TGAD-----SASVIFDAIQAAK----ARNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTG--  424 (503)
T ss_dssp             TTCC-----HHHHHHHHHHHHH----HTTCSEEEECCCCSCCCHHHHHHHHHHHHHHHHTTCTTCSSEEEEEEEGGGT--
T ss_pred             cCcC-----HHHHHHHHHHHHH----hcCCCEEEEeCCCccchhhhHHHHHHHHHHHHHHhccCCCCeeEEEecCccc--
Confidence            1110     0011122222222    26899999999976532 1110     1111      123567888776543  


Q ss_pred             HHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          320 IDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       320 ~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      .++...++.|.+ ...+.|+|+|+.+....+        +..-.+...+|+|+.+
T Consensus       425 q~al~~ak~f~~-~~~itgvIlTKLD~takg--------G~~lsi~~~~~~PI~f  470 (503)
T 2yhs_A          425 QNAVSQAKLFHE-AVGLTGITLTKLDGTAKG--------GVIFSVADQFGIPIRY  470 (503)
T ss_dssp             HHHHHHHHHHHH-HTCCSEEEEECGGGCSCC--------THHHHHHHHHCCCEEE
T ss_pred             HHHHHHHHHHHh-hcCCCEEEEEcCCCcccc--------cHHHHHHHHHCCCEEE
Confidence            333334444443 234578999998864321        4677888888988865

>4a0g_A Adenosylmethionine-8-amino-7-oxononanoate aminotransferase; BIO3-BIO1, biotin synthesis; HET: PLP; 2.50A {Arabidopsis thaliana} PDB: 4a0h_A* 4a0r_A* 4a0f_A*

Probab=98.64  E-value=2.1e-07  Score=99.15  Aligned_cols=89  Identities=11%  Similarity=0.064  Sum_probs=62.3

Q ss_pred             CCcEEEEcCCCCCCh------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCcee
Q 016622          280 ELDYLVIDMPPGTGD------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      .+|++||.+..|+..      ....++.... --+|+|+.....++..+.-.++.++..++++.|+|+|++...      
T Consensus       201 ~~D~vvVEGaGGl~~p~~~~~~~adla~~l~-~PVILV~d~~lG~i~~~~lt~~~l~~~g~~v~GvI~N~~~~~------  273 (831)
T 4a0g_A          201 SDLLCLVETAGGVASPGPSGTLQCDLYRPFR-LPGILVGDGRLGGISGTIAAYESLKLRGYDIAAVVFEDHGLV------  273 (831)
T ss_dssp             -CEEEEEECCSSTTCBCTTSCBHHHHTGGGC-CCEEEECCCSTTHHHHHHHHHHHHHTTTCCEEEEEEECCSSC------
T ss_pred             cCCEEEEECCCCccCCCCCCccHHHHHHHcC-CCEEEEECCCCcHHHHHHHHHHHHHHCCCcEEEEEEeCCchh------
Confidence            799999999876531      1222222222 348889998888999999999999888999999999976521      


Q ss_pred             cccCCChHHHHHH----HhCCCeEEecCCChh
Q 016622          354 YPFGRGSGSQVVQ----QFGIPHLFDLPIRPT  381 (386)
Q Consensus       354 ~~~~~~~~~~i~~----~~g~pvl~~IP~d~~  381 (386)
                            ..+.+.+    ..++++++.+|+.+.
T Consensus       274 ------~~~~l~~~l~~~~~v~vLg~lP~~~~  299 (831)
T 4a0g_A          274 ------NEVPLTSYLRNKVPVLVLPPVPKDPS  299 (831)
T ss_dssp             ------THHHHHHHTTTSSCEEEECCCCCCTT
T ss_pred             ------HHHHHHHHHHhCCCceeeCCCCCCCH
Confidence                  2333343    345667889998754

>2obn_A Hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2, unknown function; HET: PG4; 2.30A {Anabaena variabilis}

Probab=98.60  E-value=2.2e-07  Score=88.35  Aligned_cols=164  Identities=17%  Similarity=0.207  Sum_probs=111.7

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF  252 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~  252 (386)
                      .+.|.++++-.++||||++..|..+|.++|+++..+-....+    .+.       .    .. ..+     +       
T Consensus       152 ~k~i~v~GTD~~VGK~~ts~~L~~~l~~~G~~a~~~~tgqtg----~~~-------~----~~-gi~-----~-------  203 (349)
T 2obn_A          152 CRRVLTVGTDMAIGKMSTSLELHWAAKLRGWRSKFLATGQTG----VML-------E----GD-GVA-----L-------  203 (349)
T ss_dssp             SEEEEEEESSSSSSHHHHHHHHHHHHHHTTCCEEEECCSHHH----HHH-------H----SC-SCC-----G-------
T ss_pred             ceEEEEcCCCccccceeHHHHHHHHHHhcCCcEEEEeccchh----hhh-------h----cC-Ccc-----h-------
Confidence            689999999999999999999999999999999885321110    000       0    00 000     0       


Q ss_pred             CCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh----HHHhhhhhcCCCeEEEEeCCCcchH---------
Q 016622          253 SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD----IQLTLCQVVPLTAAVIVTTPQKLAF---------  319 (386)
Q Consensus       253 ~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~----~~~~~~~~~~~d~vviV~~~~~~s~---------  319 (386)
                         +  ..........++++...+. ++||++||...+++..    ..+.+..-...|.+|+|..++...+         
T Consensus       204 ---D--av~~df~aG~ve~~~~~~~-~~~d~vlVEGqGgl~~P~~~~t~~ll~g~~p~~vILv~~~~~g~i~~~~~~~~p  277 (349)
T 2obn_A          204 ---D--AVRVDFAAGAVEQMVMRYG-KNYDILHIEGQGSLLHPGSTATLPLIRGSQPTQLVLVHRAGQTHNGNNPHVPIP  277 (349)
T ss_dssp             ---G--GSBHHHHHHHHHHHHHHHT-TTCSEEEECCCCCTTSTTCCTHHHHHHHHCCSEEEEEEETTCCBCSSCTTSBCC
T ss_pred             ---h--HHHHHHHhhhHHHHHHHhc-cCCCEEEEeCCCcccCcChHhHHHHHHHcCCCeEEEEECCCCceECCCCccCCC
Confidence               0  0011222345555555554 6899999999887642    2233333445688999999887766         


Q ss_pred             --HHHHHHHHHHHc-----CCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEec
Q 016622          320 --IDVAKGVRMFSK-----LKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDL  376 (386)
Q Consensus       320 --~~~~~~~~~l~~-----~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~I  376 (386)
                        .++..+++.+.+     .+.++.|+++|........      .+...+.+++.+|+|+++.+
T Consensus       278 ~l~~~i~t~e~l~~~~~~~~~~~V~Gi~lN~~~~~~~~------~~~~~~~ie~~~glPv~d~~  335 (349)
T 2obn_A          278 PLPEVIRLYETVASGGGAFGTVPVVGIALNTAHLDEYA------AKEAIAHTIAETGLPCTDVV  335 (349)
T ss_dssp             CHHHHHHHHHHHHHTTTTSCCCCEEEEEEECTTSCHHH------HHHHHHHHHHHHCSCEECHH
T ss_pred             CHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCCHHH------HHHHHHHHHHHHCCCEEEEe
Confidence              778888888765     6789999999987654321      12468999999999998754

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=98.58  E-value=7.3e-08  Score=86.18  Aligned_cols=44  Identities=20%  Similarity=0.189  Sum_probs=39.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPS  216 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~s  216 (386)
                      ++...|.++|||+||||++.++|..++++|++|+++|+|+++..
T Consensus         5 g~l~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~D~q~~~   48 (228)
T 2r8r_A            5 GRLKVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVVETHGRA   48 (228)
T ss_dssp             CCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCTTCH
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEeCCCCCh
Confidence            45778888999999999999999999999999999999997643

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=98.51  E-value=7.9e-07  Score=85.04  Aligned_cols=152  Identities=16%  Similarity=0.167  Sum_probs=78.0

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCc-cCCCcccccccCCCCCceeeeccCCceEEec
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPT-MVSPENRLLEMNPEKRTIIPTEYLGVKLVSF  250 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~-~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~  250 (386)
                      ...+|+++ |++|+||||+..+|+..++..|.+|.++|.|++.+.... +++........         ...++..+.+.
T Consensus        55 ~~~~i~i~-G~~g~GKSTl~~~l~~~~~~~~~~v~v~~~d~~~~~~~~~il~d~~~~~~~---------~~~~~~~i~~~  124 (341)
T 2p67_A           55 NTLRLGVT-GTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGDKTRMNDL---------ARAEAAFIRPV  124 (341)
T ss_dssp             CSEEEEEE-ECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC---------------CTT---------TTCTTEEEEEE
T ss_pred             CCEEEEEE-cCCCCCHHHHHHHHHHHHHhcCCeEEEEeecCCcCCCCcceecccchHHhh---------ccCCCceeecC
Confidence            45688887 699999999999999999999999999999997754321 22211110000         00112222221


Q ss_pred             CCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHH
Q 016622          251 GFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFS  330 (386)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~  330 (386)
                      ....     ..+......++.+. ...+..|+++|+|||+ ..+....+  ...+|.+++|+.+....  .... ++. .
T Consensus       125 ~~~~-----~l~g~~~~~~~~~~-~~~~~~~~i~liDTpG-~~~~~~~~--~~~aD~vl~Vvd~~~~~--~~~~-l~~-~  191 (341)
T 2p67_A          125 PSSG-----HLGGASQRARELML-LCEAAGYDVVIVETVG-VGQSETEV--ARMVDCFISLQIAGGGD--DLQG-IKK-G  191 (341)
T ss_dssp             CC----------CHHHHHHHHHH-HHHHTTCSEEEEEEEC-CTTHHHHH--HTTCSEEEEEECC--------CC-CCH-H
T ss_pred             cccc-----ccchhHHHHHHHHH-HhhccCCCEEEEeCCC-ccchHHHH--HHhCCEEEEEEeCCccH--HHHH-HHH-h
Confidence            1100     11112222333322 2223789999999985 43332222  45679999999875431  1110 000 0


Q ss_pred             cCCCCeEEEEEcCCcCC
Q 016622          331 KLKVPCIAVVENMCHFD  347 (386)
Q Consensus       331 ~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+. .+|+||++..
T Consensus       192 ~~~~p~-ivv~NK~Dl~  207 (341)
T 2p67_A          192 LMEVAD-LIVINKDDGD  207 (341)
T ss_dssp             HHHHCS-EEEECCCCTT
T ss_pred             hhcccC-EEEEECCCCC
Confidence            012333 4888999864

>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=98.37  E-value=4.8e-06  Score=78.25  Aligned_cols=166  Identities=16%  Similarity=0.174  Sum_probs=94.0

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFG  251 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~  251 (386)
                      .+.+|+++ |.+|+||||+...||..+...|.+|.+.+.|.++......      +..         .....++.+++..
T Consensus       101 ~g~vi~lv-G~nGsGKTTll~~Lagll~~~~g~V~l~g~D~~r~~a~~q------l~~---------~~~~~~i~~v~q~  164 (304)
T 1rj9_A          101 KGRVVLVV-GVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQ------LSE---------WGKRLSIPVIQGP  164 (304)
T ss_dssp             SSSEEEEE-CSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSSTTTTHH------HHH---------HHHHHTCCEECCC
T ss_pred             CCeEEEEE-CCCCCcHHHHHHHHHHHHHhcCCEEEEEeecCCChhHHHH------HHH---------HHHhcCceEEEeC
Confidence            45699999 6799999999999999999888999999999876431100      000         0000133344322


Q ss_pred             CCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHH--H--------hhh--hhcCCCeEEEEeCCCcchH
Q 016622          252 FSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQ--L--------TLC--QVVPLTAAVIVTTPQKLAF  319 (386)
Q Consensus       252 ~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~--~--------~~~--~~~~~d~vviV~~~~~~s~  319 (386)
                      ......     ....+.+....    ...+|++++|+++......  .        .++  .....+.++++..+...  
T Consensus       165 ~~~~p~-----~~v~~~v~~~~----~~~~d~~llDt~G~~~~~~~~~~eLs~~r~~iaRal~~~P~~~lLvLDa~t~--  233 (304)
T 1rj9_A          165 EGTDSA-----ALAYDAVQAMK----ARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTG--  233 (304)
T ss_dssp             TTCCHH-----HHHHHHHHHHH----HHTCSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBC--
T ss_pred             CCCCHH-----HHHHHHHHHHH----hCCCCEEEecCCCCCCchHHHHHHHHHHHHHHHHhhcCCCCeEEEEEcHHHH--
Confidence            111110     01112222221    1468999999987543111  0        000  01124667778776543  


Q ss_pred             HHHHHHHHHHH-cCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          320 IDVAKGVRMFS-KLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       320 ~~~~~~~~~l~-~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      .++...++.+. ..+  +.++|+|+.+....+        +..-.+...++.|+..
T Consensus       234 ~~~~~~~~~~~~~~~--~t~iivTh~d~~a~g--------g~~l~i~~~~~~pi~~  279 (304)
T 1rj9_A          234 QNGLEQAKKFHEAVG--LTGVIVTKLDGTAKG--------GVLIPIVRTLKVPIKF  279 (304)
T ss_dssp             THHHHHHHHHHHHHC--CSEEEEECTTSSCCC--------TTHHHHHHHHCCCEEE
T ss_pred             HHHHHHHHHHHHHcC--CcEEEEECCcccccc--------cHHHHHHHHHCCCeEE
Confidence            23333344443 234  367899997654321        4567888889988764

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=98.21  E-value=9.5e-06  Score=77.89  Aligned_cols=231  Identities=16%  Similarity=0.208  Sum_probs=122.7

Q ss_pred             HHHHhccCCCCCCCCCc---cccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcce--eEEEEEe
Q 016622           80 VLKALSQIIDPDFGTDI---VSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNK--VNVTMSA  154 (386)
Q Consensus        80 i~~~L~~V~dPe~~~di---v~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~--v~v~l~~  154 (386)
                      |.+.|+++++..+..||   +...++++++.+..+.++           ...+.+.+.+++.+..+.+...  ..+++. 
T Consensus        86 ~~~~~~~l~~~Ll~adv~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~l~~~l~~~l~~~~~~~~l~l~-  153 (359)
T 2og2_A           86 TDRVLDELEEALLVSDFGPKITVRIVERLREDIMSGKL-----------KSGSEIKDALKESVLEMLAKKNSKTELQLG-  153 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHTTSC-----------CSHHHHHHHHHHHHHHHHCCC---CSCCCC-
T ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHhhcCC-----------CCHHHHHHHHHHHHHHHhCCcccCCCccee-
Confidence            45555566566566665   335566665432211111           1256777777777766544321  011111 


Q ss_pred             CCCCchhcccccccccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCC
Q 016622          155 QPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEK  234 (386)
Q Consensus       155 ~p~~~~~~~~~~~~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~  234 (386)
                                     -..+.+|+++ |.+|+||||+...||..+...+.+|++.+.|.++.....      .+.      
T Consensus       154 ---------------~~~g~vi~lv-G~nGsGKTTll~~Lag~l~~~~G~V~l~g~D~~r~~a~e------ql~------  205 (359)
T 2og2_A          154 ---------------FRKPAVIMIV-GVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDTFRAAASD------QLE------  205 (359)
T ss_dssp             ---------------SSSSEEEEEE-CCTTSCHHHHHHHHHHHHHHTTCCEEEECCCCSCHHHHH------HHH------
T ss_pred             ---------------cCCCeEEEEE-cCCCChHHHHHHHHHhhccccCCEEEEecccccccchhH------HHH------
Confidence                           1234699999 679999999999999999988899999999976532100      000      


Q ss_pred             CceeeeccCCceEEecCCC-CCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH----------HHhhhh--
Q 016622          235 RTIIPTEYLGVKLVSFGFS-GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI----------QLTLCQ--  301 (386)
Q Consensus       235 ~~i~~~~~~~l~vl~~~~~-~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~----------~~~~~~--  301 (386)
                         ......++.+++.... ...     .....+.+....   . ..+|.+++|+.+.....          ...++.  
T Consensus       206 ---~~~~r~~i~~v~q~~~~~~p-----~~tv~e~l~~~~---~-~~~d~~lldt~Gl~~~~~~~~~eLSkqr~~iaral  273 (359)
T 2og2_A          206 ---IWAERTGCEIVVAEGDKAKA-----ATVLSKAVKRGK---E-EGYDVVLCDTSGRLHTNYSLMEELIACKKAVGKIV  273 (359)
T ss_dssp             ---HHHHHHTCEEECCSSSSCCH-----HHHHHHHHHHHH---H-TTCSEEEEECCCCSSCCHHHHHHHHHHHHHHHHHS
T ss_pred             ---HHHHhcCeEEEEecccccCh-----hhhHHHHHHHHH---h-CCCHHHHHHhcCCChhhhhHHHHHHHHHHHHHHHH
Confidence               0000124555543221 110     001112222221   1 46899999998643310          011111  


Q ss_pred             hcCCCeEEEEeCCCcchHHHHHHHHHHHH-cCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          302 VVPLTAAVIVTTPQKLAFIDVAKGVRMFS-KLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       302 ~~~~d~vviV~~~~~~s~~~~~~~~~~l~-~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ....+.+++|..|. .+++.... .+.+. ..+  +.++|+++.+....+        +..-.+...++.|+..
T Consensus       274 ~~~P~e~lLvLDpt-tglD~~~~-~~~~~~~~g--~t~iiiThlD~~~~g--------G~~lsi~~~~~~pI~~  335 (359)
T 2og2_A          274 SGAPNEILLVLDGN-TGLNMLPQ-AREFNEVVG--ITGLILTKLDGSARG--------GCVVSVVEELGIPVKF  335 (359)
T ss_dssp             TTCCSEEEEEEEGG-GGGGGHHH-HHHHHHHTC--CCEEEEESCTTCSCT--------HHHHHHHHHHCCCEEE
T ss_pred             hcCCCceEEEEcCC-CCCCHHHH-HHHHHHhcC--CeEEEEecCcccccc--------cHHHHHHHHhCCCEEE
Confidence            11245678888743 23333333 33343 334  467899997643321        3456777888988763

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=98.09  E-value=2.2e-05  Score=73.69  Aligned_cols=165  Identities=18%  Similarity=0.204  Sum_probs=89.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF  252 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~  252 (386)
                      +.+|++. |.+|+||||+...||..+...+.+|.+.+.|.++.....      .+.         ......++.+++...
T Consensus       100 g~vi~lv-G~nGsGKTTll~~Lag~l~~~~g~V~l~g~d~~r~~a~~------ql~---------~~~~~~~i~~v~q~~  163 (302)
T 3b9q_A          100 PAVIMIV-GVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDTFRAAASD------QLE---------IWAERTGCEIVVAEG  163 (302)
T ss_dssp             CEEEEEE-CCTTSCHHHHHHHHHHHHHHTTCCEEEECCCCSCHHHHH------HHH---------HHHHHHTCEEECCC-
T ss_pred             CcEEEEE-cCCCCCHHHHHHHHHHHHHHcCCeEEEEeecccchhHHH------HHH---------HHHHhcCceEEEecC
Confidence            4699999 679999999999999999988899999998876532100      000         000011444554221


Q ss_pred             C-CCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH----------HHhhhh--hcCCCeEEEEeCCCcchH
Q 016622          253 S-GQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI----------QLTLCQ--VVPLTAAVIVTTPQKLAF  319 (386)
Q Consensus       253 ~-~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~----------~~~~~~--~~~~d~vviV~~~~~~s~  319 (386)
                      . ..     ......+.+....   . ..+|.+++|+.+.....          ...++.  ....+.+++|.+|. .++
T Consensus       164 ~~~~-----~~~~v~e~l~~~~---~-~~~d~~lldt~gl~~~~~~~~~eLSkqr~~iaral~~~P~e~lLvLDpt-sgl  233 (302)
T 3b9q_A          164 DKAK-----AATVLSKAVKRGK---E-EGYDVVLCDTSGRLHTNYSLMEELIACKKAVGKIVSGAPNEILLVLDGN-TGL  233 (302)
T ss_dssp             -CCC-----HHHHHHHHHHHHH---H-TTCSEEEECCCCCSSCCHHHHHHHHHHHHHHHTTSTTCCSEEEEEEEGG-GGG
T ss_pred             CccC-----HHHHHHHHHHHHH---H-cCCcchHHhcCCCCcchhHHHHHHHHHHHHHHHhhccCCCeeEEEEeCC-CCc
Confidence            1 00     0001112222211   1 46889999998643311          001110  11245668887743 233


Q ss_pred             HHHHHHHHHHH-cCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          320 IDVAKGVRMFS-KLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       320 ~~~~~~~~~l~-~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      +.... ++.+. ..+  +.++++++.+....        .+..-.+...++.|+..
T Consensus       234 D~~~~-~~~~~~~~g--~t~iiiThlD~~~~--------~g~~l~~~~~~~~pi~~  278 (302)
T 3b9q_A          234 NMLPQ-AREFNEVVG--ITGLILTKLDGSAR--------GGCVVSVVEELGIPVKF  278 (302)
T ss_dssp             GGHHH-HHHHHHHTC--CCEEEEECCSSCSC--------THHHHHHHHHHCCCEEE
T ss_pred             CHHHH-HHHHHHhcC--CCEEEEeCCCCCCc--------cChheehHHHHCCCEEE
Confidence            33333 33343 344  45788898664321        13456777888888763

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=97.83  E-value=0.00051  Score=65.63  Aligned_cols=43  Identities=23%  Similarity=0.264  Sum_probs=36.0

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPS  216 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~s  216 (386)
                      ..+|+++ |.+|+||||+.-.|+..+...|.+|.++..|++...
T Consensus        74 ~~~v~lv-G~pgaGKSTLln~L~~~~~~~~~~v~V~~~dp~~~~  116 (349)
T 2www_A           74 AFRVGLS-GPPGAGKSTFIEYFGKMLTERGHKLSVLAVDPSSCT  116 (349)
T ss_dssp             CEEEEEE-CCTTSSHHHHHHHHHHHHHHTTCCEEEEECCC----
T ss_pred             ceEEEEE-cCCCCCHHHHHHHHHHHhhhcCCeEEEEeecCCCCC
Confidence            4678888 999999999999999999888999999999997654

>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=97.74  E-value=0.00013  Score=73.65  Aligned_cols=88  Identities=13%  Similarity=-0.006  Sum_probs=59.1

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGR  358 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~  358 (386)
                      ..+.+.|+|||+-..-.......+..+|.+++|+.+...........++.+...++++ -+++||++......      .
T Consensus        80 ~~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t~~~~~~~~~~~ipi-ivviNK~Dl~~~~~------~  152 (529)
T 2h5e_A           80 HDCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTRLRDTPI-LTFMNKLDRDIRDP------M  152 (529)
T ss_dssp             TTEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHTTTTCCE-EEEEECTTSCCSCH------H
T ss_pred             CCeEEEEEECCCChhHHHHHHHHHHHCCEEEEEEeCCccchHHHHHHHHHHHHcCCCE-EEEEcCcCCccccH------H
Confidence            5788999999964321122223355689999999887654455677777777778885 58889998644211      1


Q ss_pred             ChHHHHHHHhCCCeE
Q 016622          359 GSGSQVVQQFGIPHL  373 (386)
Q Consensus       359 ~~~~~i~~~~g~pvl  373 (386)
                      ...+++.+.++.+..
T Consensus       153 ~~~~~i~~~l~~~~~  167 (529)
T 2h5e_A          153 ELLDEVENELKIGCA  167 (529)
T ss_dssp             HHHHHHHHHHCCEEE
T ss_pred             HHHHHHHHHhCCCcc
Confidence            246788888886543

>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=97.60  E-value=0.00033  Score=73.19  Aligned_cols=86  Identities=19%  Similarity=0.021  Sum_probs=58.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGR  358 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~  358 (386)
                      ..|++.|||||+-..-.......+..+|.+++|+.+.......+...++.+...+++++ +|+||++.....      ..
T Consensus        80 ~~~~i~liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~~~~~~ip~i-lviNKiD~~~~~------~~  152 (704)
T 2rdo_7           80 EPHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQANKYKVPRI-AFVNKMDRMGAN------FL  152 (704)
T ss_pred             CceeEEEEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHHHHHcCCCEE-EEEeCCCccccc------HH
Confidence            56999999999643312222333556799999999877655566677777777788866 778999865421      11


Q ss_pred             ChHHHHHHHhCCC
Q 016622          359 GSGSQVVQQFGIP  371 (386)
Q Consensus       359 ~~~~~i~~~~g~p  371 (386)
                      ...+++.+.++..
T Consensus       153 ~~~~~l~~~l~~~  165 (704)
T 2rdo_7          153 KVVNQIKTRLGAN  165 (704)
T ss_pred             HHHHHHHHHhCCC
Confidence            3567777777754

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.51  E-value=0.00042  Score=60.39  Aligned_cols=93  Identities=24%  Similarity=0.159  Sum_probs=55.7

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGFSG  254 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~~~  254 (386)
                      .|.|+.++| .||||.|..+|..++.+|+||+++=+.-.....    |.. .+...           . ++.+...+..-
T Consensus        30 ~i~v~tG~G-kGKTTaA~GlalRA~g~G~rV~~vQF~Kg~~~~----gE~-~~l~~-----------L-~v~~~~~g~gf   91 (196)
T 1g5t_A           30 IIIVFTGNG-KGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPN----GER-NLLEP-----------H-GVEFQVMATGF   91 (196)
T ss_dssp             CEEEEESSS-SCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCC----HHH-HHHGG-----------G-TCEEEECCTTC
T ss_pred             eEEEECCCC-CCHHHHHHHHHHHHHHCCCeEEEEEeeCCCCCc----cHH-HHHHh-----------C-CcEEEEccccc
Confidence            344444776 999999999999999999999999766521000    100 00000           0 13333333210


Q ss_pred             CcccccCC-------chHHHHHHHHHHhcCCCCCcEEEEcCC
Q 016622          255 QGRAIMRG-------PMVSGVINQLLTTTEWGELDYLVIDMP  289 (386)
Q Consensus       255 ~~~~~~~~-------~~~~~~l~~ll~~~~~~~yD~VIIDtp  289 (386)
                          .|..       ......+..+.+.+..+.||+||+|--
T Consensus        92 ----~~~~~~~~~~~~~a~~~l~~a~~~l~~~~yDlvILDEi  129 (196)
T 1g5t_A           92 ----TWETQNREADTAACMAVWQHGKRMLADPLLDMVVLDEL  129 (196)
T ss_dssp             ----CCCGGGHHHHHHHHHHHHHHHHHHTTCTTCSEEEEETH
T ss_pred             ----ccCCCCcHHHHHHHHHHHHHHHHHHhcCCCCEEEEeCC
Confidence                0111       123456667777776688999999975

>2g0t_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; 2.67A {Thermotoga maritima} SCOP: c.37.1.10

Probab=97.42  E-value=0.0012  Score=62.86  Aligned_cols=137  Identities=20%  Similarity=0.211  Sum_probs=84.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF  252 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~  252 (386)
                      .+.|.+++.-.++||||++..|...+.++|+++..+-....+.    +.+..           .          -++.. 
T Consensus       169 ~~ri~v~GTDt~vGKt~t~~~L~~~l~~~G~~v~~v~tgqtg~----li~~~-----------~----------gv~~D-  222 (350)
T 2g0t_A          169 IKVVGVFGTDCVVGKRTTAVQLWERALEKGIKAGFLATGQTGI----LIGAD-----------A----------GYVID-  222 (350)
T ss_dssp             SEEEEEEESSSSSSHHHHHHHHHHHHHHTTCCEEEEECSHHHH----HTTCS-----------E----------ECCGG-
T ss_pred             ceEEEEecCCCCccCccHHHHHHHHHHhcCCeEEEEccCceee----eeccC-----------C----------CCCCC-
Confidence            6799999999999999999999999999999998865332210    11000           0          00000 


Q ss_pred             CCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh-----HHHhhhhhcCCCeEEEEeCCC-----------c
Q 016622          253 SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD-----IQLTLCQVVPLTAAVIVTTPQ-----------K  316 (386)
Q Consensus       253 ~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~-----~~~~~~~~~~~d~vviV~~~~-----------~  316 (386)
                            ....+.....++.+......++||++|+...+++..     ..+.+..-...|.+|+.-.|.           .
T Consensus       223 ------~~~~~~~ag~~e~~i~~~~~~~~D~ivVEGqGgl~~P~~~~v~~~ll~g~~p~~vIl~h~~~r~~~~~~~~~~~  296 (350)
T 2g0t_A          223 ------AVPADFVSGVVEKAVLKLEKTGKEIVFVEGQGALRHPAYGQVTLGLLYGSNPDVVFLVHDPSRDHFESFPEIPK  296 (350)
T ss_dssp             ------GSBGGGHHHHHHHHHHHHHHTTCSEEEEECCSCTTCTTTHHHHHHHHHHHCCSEEEEECCTTCSSCTTCTTSSC
T ss_pred             ------ceecchhhHHHHhhHHHhhhcCCCEEEEccCeeccccCchHHHHHHHcCCCCCEEEEEeCCCCccccCCCcccC
Confidence                  001111122222222222127999999999987642     122233333568888877654           2


Q ss_pred             -chHHHHHHHHHHHHcCCCCeEEEE-EcC
Q 016622          317 -LAFIDVAKGVRMFSKLKVPCIAVV-ENM  343 (386)
Q Consensus       317 -~s~~~~~~~~~~l~~~~~~i~gvV-lN~  343 (386)
                       .+++....+++.+.  +.+++|++ +|.
T Consensus       297 ~~~i~~~i~~ie~l~--~~~V~gi~~lN~  323 (350)
T 2g0t_A          297 KPDFEEERRLIETLS--NAKVIGGVSLNG  323 (350)
T ss_dssp             CCCHHHHHHHHHHSS--SCEEEEEECSSC
T ss_pred             CcCHHHHHHHHHHhc--CCcEEEEEEcCc
Confidence             45566666666665  78899999 996

>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=97.37  E-value=0.0011  Score=62.00  Aligned_cols=67  Identities=15%  Similarity=0.061  Sum_probs=43.4

Q ss_pred             CCcEEEEcCCCCCChH----------HHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGTGDI----------QLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~----------~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      .+.++|+|||+-....          ......+..+|.+++|+.+... +..+....++.+.+.+.+++ +|+|+++..
T Consensus        58 ~~~i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~~~~pvi-lV~NK~Dl~  135 (308)
T 3iev_A           58 EAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKPLNKPVI-VVINKIDKI  135 (308)
T ss_dssp             TEEEEEEECCCCCCCCTTCHHHHHHHHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGGGCCCEE-EEEECGGGS
T ss_pred             CCeEEEEECcCCCccccchhHHHHHHHHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHhcCCCEE-EEEECccCC
Confidence            6789999998643211          1112223457999999888753 34443333777777777765 788999864

>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=97.36  E-value=0.0025  Score=54.31  Aligned_cols=90  Identities=13%  Similarity=0.155  Sum_probs=50.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+++.|+|+|+...........+..+|.+++|..... .+..++...+..+..    .+.++ -+|+|+++.....   
T Consensus        67 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~-ilv~nK~Dl~~~~---  142 (190)
T 3con_A           67 ETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPM-VLVGNKCDLPTRT---  142 (190)
T ss_dssp             EEEEEEEEECCC-----------CTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCE-EEEEECTTCSCCC---
T ss_pred             EEEEEEEEECCChHHHHHHHHHhhCcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeE-EEEEECCcCCccc---
Confidence            35789999998643211121222345788888876554 455555555544443    24554 4889999864311   


Q ss_pred             cccCCChHHHHHHHhCCCeEE
Q 016622          354 YPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl~  374 (386)
                        ......+++++.++++++.
T Consensus       143 --~~~~~~~~~~~~~~~~~~~  161 (190)
T 3con_A          143 --VDTKQAHELAKSYGIPFIE  161 (190)
T ss_dssp             --SCHHHHHHHHHHHTCCEEE
T ss_pred             --CCHHHHHHHHHHcCCeEEE
Confidence              1123567788888887654

>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=97.36  E-value=0.0029  Score=52.02  Aligned_cols=90  Identities=13%  Similarity=0.135  Sum_probs=53.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+++.|+|+|+...........+..+|.+++|..... .+...+...+..+.+.    +.++ -+|+|+++.....   
T Consensus        49 ~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~-iiv~nK~Dl~~~~---  124 (166)
T 2ce2_X           49 ETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM-VLVGNKSDLAART---  124 (166)
T ss_dssp             EEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCE-EEEEECTTCSCCC---
T ss_pred             EEEEEEEEECCCchhhhHHHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcE-EEEEEchhhhhcc---
Confidence            45788999999743211222222345688888877654 3455555555544332    4554 4889999864321   


Q ss_pred             cccCCChHHHHHHHhCCCeEE
Q 016622          354 YPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl~  374 (386)
                        ......+++++.++++++.
T Consensus       125 --~~~~~~~~~~~~~~~~~~~  143 (166)
T 2ce2_X          125 --VESRQAQDLARSYGIPYIE  143 (166)
T ss_dssp             --SCHHHHHHHHHHHTCCEEE
T ss_pred             --cCHHHHHHHHHHcCCeEEE
Confidence              1123567778888887664

>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=97.35  E-value=0.00028  Score=60.14  Aligned_cols=42  Identities=24%  Similarity=0.200  Sum_probs=35.8

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      ++++|+|++ ..|+||||++..|+..|..+|++|.++..|+..
T Consensus         3 ~~~~i~i~G-~sGsGKTTl~~~L~~~l~~~g~~v~~ik~~~~~   44 (169)
T 1xjc_A            3 AMNVWQVVG-YKHSGKTTLMEKWVAAAVREGWRVGTVKHHGHG   44 (169)
T ss_dssp             -CCEEEEEC-CTTSSHHHHHHHHHHHHHHTTCCEEEEECCC--
T ss_pred             CCEEEEEEC-CCCCCHHHHHHHHHHhhHhcCCeeeEEEeCCCC
Confidence            456888885 669999999999999999999999999998864

>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=97.28  E-value=0.0012  Score=60.16  Aligned_cols=88  Identities=13%  Similarity=0.042  Sum_probs=55.6

Q ss_pred             CCCcEEEEcCCCCCChH------------HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcC
Q 016622          279 GELDYLVIDMPPGTGDI------------QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHF  346 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~------------~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~  346 (386)
                      ..+++.|+|||+.....            .........+|.+++|+....  ..........+.+.+.+++ +|+||++.
T Consensus        46 ~~~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~vi~VvDas~--~~~~~~l~~~l~~~~~pvi-lv~NK~Dl  122 (256)
T 3iby_A           46 GEHLIEITDLPGVYSLVANAEGISQDEQIAAQSVIDLEYDCIINVIDACH--LERHLYLTSQLFELGKPVV-VALNMMDI  122 (256)
T ss_dssp             TTEEEEEEECCCCSSCC------CHHHHHHHHHHHHSCCSEEEEEEEGGG--HHHHHHHHHHHTTSCSCEE-EEEECHHH
T ss_pred             CCeEEEEEeCCCcccccccccCCCHHHHHHHHHHhhCCCCEEEEEeeCCC--chhHHHHHHHHHHcCCCEE-EEEEChhc
Confidence            34578999998643211            111111146799999988765  3455566677777788765 88899885


Q ss_pred             CCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          347 DADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       347 ~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ......     ....+.+.+.+|+|++.
T Consensus       123 ~~~~~~-----~~~~~~l~~~lg~~vi~  145 (256)
T 3iby_A          123 AEHRGI-----SIDTEKLESLLGCSVIP  145 (256)
T ss_dssp             HHHTTC-----EECHHHHHHHHCSCEEE
T ss_pred             CCcCCc-----HHHHHHHHHHcCCCEEE
Confidence            432111     12367788999988764

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=97.27  E-value=0.0019  Score=61.25  Aligned_cols=42  Identities=29%  Similarity=0.332  Sum_probs=36.8

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      .+.+++++ |..|+||||+.-.|+..+...+.+|.++..|+..
T Consensus        54 ~g~~v~i~-G~~GaGKSTLl~~l~g~~~~~~g~v~i~~~d~~~   95 (337)
T 2qm8_A           54 RAIRVGIT-GVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSS   95 (337)
T ss_dssp             CSEEEEEE-CCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGG
T ss_pred             CCeEEEEE-CCCCCCHHHHHHHHHHhhhhCCCEEEEEEEcCcc
Confidence            34688888 9999999999999999998888899999999854

>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=97.26  E-value=0.0014  Score=63.82  Aligned_cols=68  Identities=18%  Similarity=0.284  Sum_probs=49.3

Q ss_pred             CCCcEEEEcCCCCCCh-HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGD-IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~-~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|||+ ..+ .......+..+|.+++|+.+.........+.+..+...+++.+-+++||++..
T Consensus        73 ~~~~~~iiDtpG-~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~~~l~~~~~~~ip~iivviNK~Dl~  141 (405)
T 2c78_A           73 AKRHYSHVDCPG-HADYIKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMV  141 (405)
T ss_dssp             SSCEEEEEECCC-SGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHTTCCCEEEEEECGGGC
T ss_pred             CCeEEEEEECCC-hHHHHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEECcccc
Confidence            567899999985 433 22333335568999999988765556677777888888888566889999864

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=97.15  E-value=0.0031  Score=63.85  Aligned_cols=89  Identities=13%  Similarity=0.059  Sum_probs=65.6

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG  357 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~  357 (386)
                      |++|-+=|||||+-..-..-....+..+|++++|+.+...--..+...++.+.+.+++++ +++||++......      
T Consensus        97 ~~~~~iNlIDTPGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~a~~~~lp~i-~fINK~Dr~~ad~------  169 (548)
T 3vqt_A           97 YRDRVVNLLDTPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDVCRMRATPVM-TFVNKMDREALHP------  169 (548)
T ss_dssp             ETTEEEEEECCCCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHHHHHTTCCEE-EEEECTTSCCCCH------
T ss_pred             ECCEEEEEEeCCCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHHHHHHHhCCceE-EEEecccchhcch------
Confidence            477889999999633211222233667799999999988877889999999999999977 6779998654321      


Q ss_pred             CChHHHHHHHhCCCeE
Q 016622          358 RGSGSQVVQQFGIPHL  373 (386)
Q Consensus       358 ~~~~~~i~~~~g~pvl  373 (386)
                      ....+++.+.++...+
T Consensus       170 ~~~~~~i~~~l~~~~~  185 (548)
T 3vqt_A          170 LDVMADIEQHLQIECA  185 (548)
T ss_dssp             HHHHHHHHHHHTSEEE
T ss_pred             hHhhhhhhhhcCCceE
Confidence            1357888899886543

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=97.15  E-value=0.00021  Score=72.16  Aligned_cols=88  Identities=13%  Similarity=0.027  Sum_probs=60.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGR  358 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~  358 (386)
                      ..+.+.|+|||+-..-.......+..+|.+++|+.+...........+..+...+++++ +|+||++......      .
T Consensus        80 ~~~~i~liDTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~~~~~~~iPii-vviNK~Dl~~~~~------~  152 (528)
T 3tr5_A           80 KDYLINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLMEVCRLRHTPIM-TFINKMDRDTRPS------I  152 (528)
T ss_dssp             TTEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHHTTTCCEE-EEEECTTSCCSCH------H
T ss_pred             CCEEEEEEECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEE-EEEeCCCCccccH------H
Confidence            57889999999643222223333556899999999877555666777888888888865 7789998643211      1


Q ss_pred             ChHHHHHHHhCCCeE
Q 016622          359 GSGSQVVQQFGIPHL  373 (386)
Q Consensus       359 ~~~~~i~~~~g~pvl  373 (386)
                      ...+++.+.++....
T Consensus       153 ~~l~ei~~~l~~~~~  167 (528)
T 3tr5_A          153 ELLDEIESILRIHCA  167 (528)
T ss_dssp             HHHHHHHHHHCCEEE
T ss_pred             HHHHHHHHhhCCCce
Confidence            246778888886543

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=97.11  E-value=0.001  Score=63.85  Aligned_cols=38  Identities=21%  Similarity=0.295  Sum_probs=34.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .++.|+ +.+|+||||++.++|..+++.|.+|++||++.
T Consensus        75 ~li~I~-G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~  112 (366)
T 1xp8_A           75 RITEIY-GPESGGKTTLALAIVAQAQKAGGTCAFIDAEH  112 (366)
T ss_dssp             SEEEEE-ESTTSSHHHHHHHHHHHHHHTTCCEEEEESSC
T ss_pred             cEEEEE-cCCCCChHHHHHHHHHHHHHCCCeEEEEECCC
Confidence            466665 88999999999999999999999999999985

>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=97.06  E-value=0.0017  Score=53.82  Aligned_cols=90  Identities=12%  Similarity=0.092  Sum_probs=51.6

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHc--CCCCeEEEEEcCCcCCCCCceeccc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSK--LKVPCIAVVENMCHFDADGKRYYPF  356 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~--~~~~i~gvVlN~~~~~~~~~~~~~~  356 (386)
                      .+.+.|+|+|+...........+..+|.+++|...... +...+...+..+..  .+.+ +-+|+|+++.......    
T Consensus        53 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~p-iilv~nK~Dl~~~~~~----  127 (168)
T 1z2a_A           53 DVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIP-TALVQNKIDLLDDSCI----  127 (168)
T ss_dssp             EEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCC-EEEEEECGGGGGGCSS----
T ss_pred             EEEEEEEcCCCcHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCC-EEEEEECcccCccccc----
Confidence            56899999986321111111224457898988877553 45555555544433  2455 4488899986432111    


Q ss_pred             CCChHHHHHHHhCCCeEE
Q 016622          357 GRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       357 ~~~~~~~i~~~~g~pvl~  374 (386)
                      .....+++++.++.+++.
T Consensus       128 ~~~~~~~~~~~~~~~~~~  145 (168)
T 1z2a_A          128 KNEEAEGLAKRLKLRFYR  145 (168)
T ss_dssp             CHHHHHHHHHHHTCEEEE
T ss_pred             CHHHHHHHHHHcCCeEEE
Confidence            113456777788876643

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=97.05  E-value=0.003  Score=60.70  Aligned_cols=67  Identities=6%  Similarity=-0.060  Sum_probs=48.9

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEc-CCcC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVEN-MCHF  346 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN-~~~~  346 (386)
                      ..+.+.|+|||+-..-.......+..+|.+++|+. .......+.+.+..++..+++..-+++| |++.
T Consensus        58 ~~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd-~~g~~~qt~e~~~~~~~~~i~~~ivvvNNK~Dl  125 (370)
T 2elf_A           58 EGRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP-PQGLDAHTGECIIALDLLGFKHGIIALTRSDST  125 (370)
T ss_dssp             SSSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC-TTCCCHHHHHHHHHHHHTTCCEEEEEECCGGGS
T ss_pred             CCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc-CCCCcHHHHHHHHHHHHcCCCeEEEEEEeccCC
Confidence            56779999998643322223333556899999998 6655667788888888889998667888 9886

>1vco_A CTP synthetase; tetramer, riken structural genomics/proteomics initiative, RSGI, structural genomics, ligase; HET: GLN; 2.15A {Thermus thermophilus} SCOP: c.23.16.1 c.37.1.10 PDB: 1vcn_A 1vcm_A

Probab=97.00  E-value=0.0063  Score=61.20  Aligned_cols=44  Identities=23%  Similarity=0.283  Sum_probs=40.7

Q ss_pred             CceEEEEE-eCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCC
Q 016622          172 ISNIVAVS-SCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGP  215 (386)
Q Consensus       172 ~~kvI~v~-s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~  215 (386)
                      |+|.|.|+ +.-.|+||+++++.|++.|+++|+||..+.+||+-+
T Consensus        11 ~~~~i~v~gg~~s~~gk~~~~~~~~~~l~~~g~~v~~~k~~py~n   55 (550)
T 1vco_A           11 PRKYVFITGGVVSSLGKGILTSSLGALLRARGYRVTAIKIDPYVN   55 (550)
T ss_dssp             CCEEEEEEECSSSCSCHHHHHHHHHHHHHTTTCCEEEEEEECSSC
T ss_pred             ceeEEEEeCCcccCcchHHHHHHHHHHHHhCCceeeEeecccccc
Confidence            67899999 889999999999999999999999999999997653

>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=96.97  E-value=0.011  Score=48.47  Aligned_cols=90  Identities=13%  Similarity=0.178  Sum_probs=51.4

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceec
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .+...+......+.+    .+.++ -+|+|+++.......  
T Consensus        50 ~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl~~~~~~--  126 (167)
T 1kao_A           50 PSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPV-ILVGNKVDLESEREV--  126 (167)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCE-EEEEECGGGGGGCCS--
T ss_pred             EEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECCcccccccC--
Confidence            4568999998643322222222345688888877654 345555554444322    35554 588899985432111  


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                        ......++++.++.+++.
T Consensus       127 --~~~~~~~~~~~~~~~~~~  144 (167)
T 1kao_A          127 --SSSEGRALAEEWGCPFME  144 (167)
T ss_dssp             --CHHHHHHHHHHHTSCEEE
T ss_pred             --CHHHHHHHHHHhCCCEEE
Confidence              112456777778887654

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=96.97  E-value=0.0076  Score=51.99  Aligned_cols=91  Identities=13%  Similarity=0.213  Sum_probs=54.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+.+.    +.++ -+|.|+++......  
T Consensus        70 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl~~~~~--  146 (201)
T 3oes_A           70 DEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPV-VLVGNKADLSPERE--  146 (201)
T ss_dssp             -CEEEEEEEECCCCTTCCCCGGGTTTCCEEEEEEETTCHHHHHHHHHHHHHHHC-----CCCE-EEEEECTTCGGGCC--
T ss_pred             EEEEEEEEECCCccchHHHHHHHHhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECccCccccc--
Confidence            46788999998633211112222445788888877653 4566666666666543    4554 48889998643211  


Q ss_pred             cccCCChHHHHHHHhCCCeEE
Q 016622          354 YPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl~  374 (386)
                        ......+.+++.++.+++.
T Consensus       147 --v~~~~~~~~~~~~~~~~~~  165 (201)
T 3oes_A          147 --VQAVEGKKLAESWGATFME  165 (201)
T ss_dssp             --SCHHHHHHHHHHHTCEEEE
T ss_pred             --cCHHHHHHHHHHhCCeEEE
Confidence              1113466778888876654

>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=96.96  E-value=0.012  Score=50.10  Aligned_cols=88  Identities=14%  Similarity=0.024  Sum_probs=49.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc----hHHHHHHHHHHHHcC-----CCCeEEEEEcCCcCCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL----AFIDVAKGVRMFSKL-----KVPCIAVVENMCHFDAD  349 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~----s~~~~~~~~~~l~~~-----~~~i~gvVlN~~~~~~~  349 (386)
                      ..+.+.|+|+|+...........+..+|.+++|......    .......+.+++...     +.+ +-+|.|+++....
T Consensus        72 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~p-iilv~NK~Dl~~~  150 (198)
T 3t1o_A           72 FKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVP-IVIQVNKRDLPDA  150 (198)
T ss_dssp             CEEEEEEEECCSCCSCSHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCCTTSSC-EEEEEECTTSTTC
T ss_pred             CceEEEEEeCCChHHHHHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccccCCCC-EEEEEEchhcccc
Confidence            456789999997432222222235567999999888743    223333344444432     445 4588899986442


Q ss_pred             CceecccCCChHHHHHHHhCC-CeE
Q 016622          350 GKRYYPFGRGSGSQVVQQFGI-PHL  373 (386)
Q Consensus       350 ~~~~~~~~~~~~~~i~~~~g~-pvl  373 (386)
                      -      .....+++++..+. +++
T Consensus       151 ~------~~~~~~~~~~~~~~~~~~  169 (198)
T 3t1o_A          151 L------PVEMVRAVVDPEGKFPVL  169 (198)
T ss_dssp             C------CHHHHHHHHCTTCCSCEE
T ss_pred             c------CHHHHHHHHHhcCCceEE
Confidence            1      11234555555565 544

>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=96.96  E-value=0.0077  Score=50.18  Aligned_cols=90  Identities=14%  Similarity=0.072  Sum_probs=49.9

Q ss_pred             CCcEEEEcCCCCCC--hHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCce
Q 016622          280 ELDYLVIDMPPGTG--DIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKR  352 (386)
Q Consensus       280 ~yD~VIIDtpp~~~--~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~  352 (386)
                      .+.+.++|+|+...  ...+.......+|.+++|...+ ..++..+......+.+.    +.++ -+|.|+++.......
T Consensus        51 ~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~pi-ilv~NK~Dl~~~~~v  129 (175)
T 2nzj_A           51 DTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPI-ILVGNKADLARCREV  129 (175)
T ss_dssp             EEEEEEECCC-------CHHHHHTTTSCSEEEEEEETTCHHHHHHHHHHHHHHHHCC----CCE-EEEEECTTCTTTCCS
T ss_pred             EEEEEEEecCCCCccchhhhHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCE-EEEEEChhhcccccc
Confidence            46789999986332  1122222233468888877654 45666666666666543    5554 488999986542211


Q ss_pred             ecccCCChHHHHHHHhCCCeEE
Q 016622          353 YYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       353 ~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                          .......+++.++.+++.
T Consensus       130 ----~~~~~~~~~~~~~~~~~~  147 (175)
T 2nzj_A          130 ----SVEEGRACAVVFDCKFIE  147 (175)
T ss_dssp             ----CHHHHHHHHHHHTSEEEE
T ss_pred             ----CHHHHHHHHHHcCCeEEE
Confidence                112345666777876543

>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=96.96  E-value=0.0045  Score=57.72  Aligned_cols=68  Identities=21%  Similarity=0.166  Sum_probs=42.2

Q ss_pred             CCCcEEEEcCCCCCCh--------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcC--CCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGD--------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKL--KVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~--------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~  347 (386)
                      ..+.++|+|||+....        .......+..+|.+++|+.....--......++.+++.  +.+++ +|+|+++..
T Consensus        53 ~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l~~ad~il~VvD~~~~~~~~~~~i~~~l~~~~~~~p~i-lV~NK~Dl~  130 (301)
T 1wf3_A           53 GRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPIL-LVGNKLDAA  130 (301)
T ss_dssp             TTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSCEE-EEEECGGGC
T ss_pred             CCcEEEEecCccccchhhHHHHHHHHHHHHHHhcCCEEEEEEECCCCCChHHHHHHHHHHhhcCCCCEE-EEEECcccC
Confidence            4678999999864321        11122234568999999887542112234555667665  66655 788999864

>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=96.96  E-value=0.012  Score=49.88  Aligned_cols=90  Identities=11%  Similarity=0.137  Sum_probs=54.7

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceec
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .+...+...+..+..    .+.+ +-+|+|+++.......  
T Consensus        69 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl~~~~~~--  145 (195)
T 3bc1_A           69 RIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPD-IVLCGNKSDLEDQRAV--  145 (195)
T ss_dssp             EEEEEEEEECCSGGGHHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCC-EEEEEECTTCGGGCCS--
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccccccccc--
Confidence            5789999998643222222233456799999988654 455555655555543    3455 4588899986432111  


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                        .....+++++.++++++.
T Consensus       146 --~~~~~~~~~~~~~~~~~~  163 (195)
T 3bc1_A          146 --KEEEARELAEKYGIPYFE  163 (195)
T ss_dssp             --CHHHHHHHHHHHTCCEEE
T ss_pred             --CHHHHHHHHHHcCCCEEE
Confidence              113466777788877654

>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=96.96  E-value=0.0073  Score=49.75  Aligned_cols=91  Identities=11%  Similarity=0.058  Sum_probs=50.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+.+    .+.++ -+|+|+++....... 
T Consensus        50 ~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl~~~~~~-  127 (168)
T 1u8z_A           50 EEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPF-LLVGNKSDLEDKRQV-  127 (168)
T ss_dssp             EEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCE-EEEEECGGGGGGCCS-
T ss_pred             EEEEEEEEECCCcchhHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcE-EEEEECccccccCcc-
Confidence            35689999998643222222222345688888877654 345555554444433    25554 488999986432111 


Q ss_pred             cccCCChHHHHHHHhCCCeEE
Q 016622          354 YPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl~  374 (386)
                         ......++.+..+++++.
T Consensus       128 ---~~~~~~~~~~~~~~~~~~  145 (168)
T 1u8z_A          128 ---SVEEAKNRADQWNVNYVE  145 (168)
T ss_dssp             ---CHHHHHHHHHHHTCEEEE
T ss_pred             ---CHHHHHHHHHHcCCeEEE
Confidence               113456667777876543

>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=96.94  E-value=0.011  Score=49.65  Aligned_cols=92  Identities=15%  Similarity=0.070  Sum_probs=54.0

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcCC--CCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKLK--VPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~~--~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+.+..  ...+-+|.|+++.......   
T Consensus        59 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~---  135 (181)
T 2efe_B           59 ATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKV---  135 (181)
T ss_dssp             EEEEEEEEECCCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCS---
T ss_pred             EEEEEEEEeCCCChhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccccC---
Confidence            35678999998633211222222445799999988754 45566666666665432  2235588899986432211   


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       .....+++++..+++++.
T Consensus       136 -~~~~~~~~~~~~~~~~~~  153 (181)
T 2efe_B          136 -TAEDAQTYAQENGLFFME  153 (181)
T ss_dssp             -CHHHHHHHHHHTTCEEEE
T ss_pred             -CHHHHHHHHHHcCCEEEE
Confidence             113456677777876543

>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=96.94  E-value=0.0073  Score=50.86  Aligned_cols=91  Identities=11%  Similarity=0.076  Sum_probs=51.9

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+.+    .+.+++ +|+|+++....... 
T Consensus        64 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii-lv~nK~Dl~~~~~~-  141 (187)
T 2a9k_A           64 EEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFL-LVGNKSDLEDKRQV-  141 (187)
T ss_dssp             EEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEE-EEEECGGGGGGCCS-
T ss_pred             EEEEEEEEECCCCcccHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEE-EEEECccccccCcc-
Confidence            34689999998644322222222445788888887654 344555444444332    255654 88899986432111 


Q ss_pred             cccCCChHHHHHHHhCCCeEE
Q 016622          354 YPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl~  374 (386)
                         ......++++.++++++.
T Consensus       142 ---~~~~~~~~~~~~~~~~~~  159 (187)
T 2a9k_A          142 ---SVEEAKNRAEQWNVNYVE  159 (187)
T ss_dssp             ---CHHHHHHHHHHTTCEEEE
T ss_pred             ---CHHHHHHHHHHcCCeEEE
Confidence               113456677777876553

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=96.93  E-value=0.017  Score=49.23  Aligned_cols=88  Identities=10%  Similarity=-0.026  Sum_probs=52.0

Q ss_pred             CcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHc-CCCCeEEEEEcCCcCCCCCceecccCC
Q 016622          281 LDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSK-LKVPCIAVVENMCHFDADGKRYYPFGR  358 (386)
Q Consensus       281 yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~-~~~~i~gvVlN~~~~~~~~~~~~~~~~  358 (386)
                      +.+.|+|+|+...........+..+|.+++|...... +...+...+..+.+ .+ ..+-+|+|+++ ......    ..
T Consensus        93 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~-~piilv~NK~D-~~~~~~----~~  166 (208)
T 3clv_A           93 IKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSN-YIIILVANKID-KNKFQV----DI  166 (208)
T ss_dssp             EEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC-CEEEEEEECTT-CC-CCS----CH
T ss_pred             eEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCC-CcEEEEEECCC-cccccC----CH
Confidence            7899999986321111122224467999999887654 45566655555544 34 44568999999 221111    11


Q ss_pred             ChHHHHHHHhCCCeEE
Q 016622          359 GSGSQVVQQFGIPHLF  374 (386)
Q Consensus       359 ~~~~~i~~~~g~pvl~  374 (386)
                      ....++++..+++++.
T Consensus       167 ~~~~~~~~~~~~~~~~  182 (208)
T 3clv_A          167 LEVQKYAQDNNLLFIQ  182 (208)
T ss_dssp             HHHHHHHHHTTCEEEE
T ss_pred             HHHHHHHHHcCCcEEE
Confidence            3456677777876653

>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=96.92  E-value=0.0059  Score=56.04  Aligned_cols=88  Identities=15%  Similarity=0.117  Sum_probs=54.3

Q ss_pred             CCCcEEEEcCCCCCChH----------H--HhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcC
Q 016622          279 GELDYLVIDMPPGTGDI----------Q--LTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHF  346 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~----------~--~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~  346 (386)
                      ..+.+.|+|||+.....          .  ........+|.+++|+....  ..........+.+.+.+++ +|+||++.
T Consensus        48 ~~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~ii~VvD~~~--~~~~~~~~~~l~~~~~p~i-vv~NK~Dl  124 (274)
T 3i8s_A           48 TDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASN--LERNLYLTLQLLELGIPCI-VALNMLDI  124 (274)
T ss_dssp             SSCEEEEEECCCCSCSCC----CCHHHHHHHHHHHHTCCSEEEEEEEGGG--HHHHHHHHHHHHHHTCCEE-EEEECHHH
T ss_pred             CCCceEEEECcCCCccccccccCCHHHHHHHHHHhhcCCCEEEEEecCCC--hHHHHHHHHHHHhcCCCEE-EEEECccc
Confidence            35678999998733211          0  11111236799999988765  3445556666667788865 78899885


Q ss_pred             CCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          347 DADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       347 ~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      .......     ...+.+.+.+|+|++.
T Consensus       125 ~~~~~~~-----~~~~~l~~~lg~~~i~  147 (274)
T 3i8s_A          125 AEKQNIR-----IEIDALSARLGCPVIP  147 (274)
T ss_dssp             HHHTTEE-----ECHHHHHHHHTSCEEE
T ss_pred             hhhhhHH-----HHHHHHHHhcCCCEEE
Confidence            4321111     2367888888888764

>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=96.92  E-value=0.0043  Score=55.24  Aligned_cols=36  Identities=11%  Similarity=0.038  Sum_probs=30.8

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      .|.+..|..|+||||.+..++..++.+|.+|+++..
T Consensus        13 ~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~   48 (223)
T 2b8t_A           13 WIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKP   48 (223)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEe
Confidence            344445889999999999999999999999999943

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=96.91  E-value=0.0054  Score=63.88  Aligned_cols=86  Identities=19%  Similarity=0.028  Sum_probs=55.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGR  358 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~  358 (386)
                      ..+.+.|+|||+-..........+..+|.+++|+.+....-......+..+.+.+.+++ +|+||++.....  .    .
T Consensus        73 ~~~~i~liDTPG~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~~~~~~~p~i-lviNK~Dl~~~~--~----~  145 (693)
T 2xex_A           73 EGHRVNIIDTPGHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQATTYGVPRI-VFVNKMDKLGAN--F----E  145 (693)
T ss_dssp             TTEEEEEECCCCCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHHHTTCCEE-EEEECTTSTTCC--H----H
T ss_pred             CCeeEEEEECcCCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHHHHHcCCCEE-EEEECCCccccc--h----H
Confidence            56889999999643211222223445799999998866444455566677777788866 778999865421  0    1


Q ss_pred             ChHHHHHHHhCCC
Q 016622          359 GSGSQVVQQFGIP  371 (386)
Q Consensus       359 ~~~~~i~~~~g~p  371 (386)
                      ...+++.+.++..
T Consensus       146 ~~~~~l~~~l~~~  158 (693)
T 2xex_A          146 YSVSTLHDRLQAN  158 (693)
T ss_dssp             HHHHHHHHHHCCC
T ss_pred             HHHHHHHHHhCCC
Confidence            2466777777754

>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=96.89  E-value=0.0075  Score=51.37  Aligned_cols=91  Identities=10%  Similarity=0.145  Sum_probs=54.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+.+.   +.+ +-+|+|+++.......  
T Consensus        69 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~Dl~~~~~~--  145 (189)
T 2gf9_A           69 KRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQ-VILVGNKCDLEDERVV--  145 (189)
T ss_dssp             EEEEEEEEECCSCCSSCCSGGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECTTCGGGCCS--
T ss_pred             eEEEEEEEeCCCcHHHhhhHHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECcccccccCC--
Confidence            35678999998643211122222446799999888754 4566666666666543   344 5588999986432111  


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                        .....+++++.++++++.
T Consensus       146 --~~~~~~~~~~~~~~~~~~  163 (189)
T 2gf9_A          146 --PAEDGRRLADDLGFEFFE  163 (189)
T ss_dssp             --CHHHHHHHHHHHTCEEEE
T ss_pred             --CHHHHHHHHHHcCCeEEE
Confidence              113467788888876653

>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=96.88  E-value=0.011  Score=49.25  Aligned_cols=91  Identities=11%  Similarity=0.069  Sum_probs=52.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc---CCCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK---LKVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~---~~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .+...+...+..+..   .+.+ +-+|.|+++.......  
T Consensus        62 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~~--  138 (179)
T 1z0f_A           62 QKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTV-IILIGNKADLEAQRDV--  138 (179)
T ss_dssp             EEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECTTCGGGCCS--
T ss_pred             eEEEEEEEECCCChHhhhhHHHHhccCCEEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECccccccccc--
Confidence            35678999998632211222222456799999888764 345555555554443   2344 5588999986432111  


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                        .....+++++..+++++.
T Consensus       139 --~~~~~~~~~~~~~~~~~~  156 (179)
T 1z0f_A          139 --TYEEAKQFAEENGLLFLE  156 (179)
T ss_dssp             --CHHHHHHHHHHTTCEEEE
T ss_pred             --CHHHHHHHHHHcCCEEEE
Confidence              113456777777876643

>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=96.88  E-value=0.002  Score=62.53  Aligned_cols=68  Identities=15%  Similarity=0.205  Sum_probs=48.4

Q ss_pred             CCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|||+ ..+. ......+..+|.+++|+.+.........+.+..++..+++.+-+++||++..
T Consensus        64 ~~~~~~iiDtpG-~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~~vp~iivviNK~Dl~  132 (397)
T 1d2e_A           64 AARHYAHTDCPG-HADYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNKADAV  132 (397)
T ss_dssp             SSCEEEEEECSS-HHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCCEEEEEECGGGC
T ss_pred             CCeEEEEEECCC-hHHHHHHHHhhHhhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCeEEEEEECcccC
Confidence            568899999985 3321 2222334458999999988775555666777777778888666889999864

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=96.87  E-value=0.0068  Score=50.23  Aligned_cols=91  Identities=9%  Similarity=0.103  Sum_probs=52.3

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC-----CCCeEEEEEcCCcCCCCCce
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL-----KVPCIAVVENMCHFDADGKR  352 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~-----~~~i~gvVlN~~~~~~~~~~  352 (386)
                      ..+.+.|+|+|+...........+..+|.+++|...+. .+...+...+..+.+.     +.+ +-+|+|+++.......
T Consensus        49 ~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~p-ii~v~nK~Dl~~~~~v  127 (172)
T 2erx_A           49 SICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIP-IMLVGNKCDESPSREV  127 (172)
T ss_dssp             EEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCC-EEEEEECGGGGGGCCS
T ss_pred             EEEEEEEEECCCchhhHHHHHHhcccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCC-EEEEEEcccccccccc
Confidence            35678999998644322222222445688888887654 3455555555544432     455 4588999986432111


Q ss_pred             ecccCCChHHHHHHHhCCCeEE
Q 016622          353 YYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       353 ~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                          .......+.+..+++++.
T Consensus       128 ----~~~~~~~~~~~~~~~~~~  145 (172)
T 2erx_A          128 ----QSSEAEALARTWKCAFME  145 (172)
T ss_dssp             ----CHHHHHHHHHHHTCEEEE
T ss_pred             ----CHHHHHHHHHHhCCeEEE
Confidence                112455667777776543

>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=96.86  E-value=0.0094  Score=49.38  Aligned_cols=91  Identities=13%  Similarity=0.123  Sum_probs=50.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc---CCCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK---LKVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~---~~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .+...+...+..+.+   .+.+ +-+|.|+++.......  
T Consensus        53 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~~--  129 (170)
T 1z08_A           53 KRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEIC-LCIVGNKIDLEKERHV--  129 (170)
T ss_dssp             CEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSE-EEEEEECGGGGGGCCS--
T ss_pred             EEEEEEEEECCCcHhhhhhHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCe-EEEEEECccccccccc--
Confidence            35678999998633211222222345788888887654 455555555555543   2344 4588999986432111  


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                        .....+++++..+.+++.
T Consensus       130 --~~~~~~~~~~~~~~~~~~  147 (170)
T 1z08_A          130 --SIQEAESYAESVGAKHYH  147 (170)
T ss_dssp             --CHHHHHHHHHHTTCEEEE
T ss_pred             --CHHHHHHHHHHcCCeEEE
Confidence              113466777778876653

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.86  E-value=0.0014  Score=56.20  Aligned_cols=40  Identities=35%  Similarity=0.403  Sum_probs=35.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      +++|.+. |..|+||||++..||..+...|.+|.++|.|..
T Consensus        13 ~~~i~l~-G~~GsGKsT~~~~L~~~l~~~~~~~~~~~~d~~   52 (186)
T 2yvu_A           13 GIVVWLT-GLPGSGKTTIATRLADLLQKEGYRVEVLDGDWA   52 (186)
T ss_dssp             CEEEEEE-CCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CcEEEEE-cCCCCCHHHHHHHHHHHHHhcCCeEEEeeHHHH
Confidence            4567766 999999999999999999999999999998754

>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=96.85  E-value=0.006  Score=63.54  Aligned_cols=86  Identities=16%  Similarity=0.044  Sum_probs=56.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGR  358 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~  358 (386)
                      ..+.+.|+|||+-..-.......+..+|.+++|+.+...........+..+.+.+++++ +|+||++......      .
T Consensus        75 ~~~~i~liDTPG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~~~~~~~p~i-vviNKiD~~~~~~------~  147 (691)
T 1dar_A           75 KDHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRI-AFANKMDKTGADL------W  147 (691)
T ss_dssp             TTEEEEEECCCSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEE-EEEECTTSTTCCH------H
T ss_pred             CCeEEEEEECcCccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHHHHHcCCCEE-EEEECCCcccCCH------H
Confidence            57889999999643322222333455799999998876544555666777777788866 7889998654210      1


Q ss_pred             ChHHHHHHHhCCC
Q 016622          359 GSGSQVVQQFGIP  371 (386)
Q Consensus       359 ~~~~~i~~~~g~p  371 (386)
                      ...+++.+.++..
T Consensus       148 ~~~~~l~~~l~~~  160 (691)
T 1dar_A          148 LVIRTMQERLGAR  160 (691)
T ss_dssp             HHHHHHHHTTCCC
T ss_pred             HHHHHHHHHhCCC
Confidence            2456777777754

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=96.82  E-value=0.0086  Score=51.06  Aligned_cols=90  Identities=14%  Similarity=0.181  Sum_probs=54.0

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+.+.   +.+ +-+|.|+++.......   
T Consensus        64 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ilv~nK~Dl~~~~~~---  139 (196)
T 3tkl_A           64 TIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVN-KLLVGNKCDLTTKKVV---  139 (196)
T ss_dssp             EEEEEEEEECCSGGGCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECTTCTTTCCS---
T ss_pred             EEEEEEEECCCcHhhhhhHHHHHhhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECccccccccc---
Confidence            4678999998632211112222445799999887654 3455555555555443   444 4588899986443211   


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       .....+++++.++++++.
T Consensus       140 -~~~~~~~~~~~~~~~~~~  157 (196)
T 3tkl_A          140 -DYTTAKEFADSLGIPFLE  157 (196)
T ss_dssp             -CHHHHHHHHHHTTCCEEE
T ss_pred             -CHHHHHHHHHHcCCcEEE
Confidence             113567788888887764

>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=96.81  E-value=0.004  Score=53.27  Aligned_cols=91  Identities=11%  Similarity=0.139  Sum_probs=55.1

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+.|+|+|+.-.........+..+|.+++|.... ..++..+...++.+...   +.+ +-+|.|+++.......  
T Consensus        70 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~Dl~~~~~~--  146 (191)
T 3dz8_A           70 KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQ-VILVGNKCDMEEERVV--  146 (191)
T ss_dssp             TTEEEEEECHHHHHHCHHHHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECTTCGGGCCS--
T ss_pred             EEEEEEEEeCCChHHHHHHHHHHHccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECCCCcccccc--
Confidence            4677899999852211122222345678999988775 34566666666666552   444 4588899986432111  


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                        .....+.+++.++++++.
T Consensus       147 --~~~~~~~~~~~~~~~~~~  164 (191)
T 3dz8_A          147 --PTEKGQLLAEQLGFDFFE  164 (191)
T ss_dssp             --CHHHHHHHHHHHTCEEEE
T ss_pred             --CHHHHHHHHHHcCCeEEE
Confidence              123466778888887653

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=96.80  E-value=0.0022  Score=61.18  Aligned_cols=38  Identities=21%  Similarity=0.326  Sum_probs=34.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .++.++ |.+|+||||++.+++..+++.|.+|+++|++.
T Consensus        62 ~iv~I~-G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~   99 (349)
T 2zr9_A           62 RVIEIY-GPESSGKTTVALHAVANAQAAGGIAAFIDAEH   99 (349)
T ss_dssp             SEEEEE-ESTTSSHHHHHHHHHHHHHHTTCCEEEEESSC
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence            467776 88999999999999999999999999999974

>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=96.78  E-value=0.011  Score=49.82  Aligned_cols=90  Identities=11%  Similarity=0.127  Sum_probs=50.5

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHH----cCCCCeEEEEEcCCcCCCCCceec
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFS----KLKVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~----~~~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+.    ..+.++ -+|.|+++.......  
T Consensus        53 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl~~~~~~--  129 (181)
T 3t5g_A           53 EYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPI-MLVGNKKDLHMERVI--  129 (181)
T ss_dssp             EEEEEEEECCCCCTTCCCCGGGTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC----CCE-EEEEECTTCTTTCCS--
T ss_pred             EEEEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECccchhccee--
Confidence            4678999998633211111122335688888877654 45555555444442    225554 488899986432211  


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                        .....+++++.++.+++.
T Consensus       130 --~~~~~~~~~~~~~~~~~~  147 (181)
T 3t5g_A          130 --SYEEGKALAESWNAAFLE  147 (181)
T ss_dssp             --CHHHHHHHHHHTTCEEEE
T ss_pred             --cHHHHHHHHHHhCCcEEE
Confidence              123567788888877654

>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=96.74  E-value=0.015  Score=49.94  Aligned_cols=90  Identities=11%  Similarity=0.065  Sum_probs=52.0

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceec
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+..    .+.++ -+|+|+++.......  
T Consensus        61 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl~~~~~~--  137 (206)
T 2bov_A           61 EVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPF-LLVGNKSDLEDKRQV--  137 (206)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCE-EEEEECTTCGGGCCS--
T ss_pred             EEEEEEEcCCChhhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEeccCccccccc--
Confidence            4678999998644322222222345688888877654 455555555444433    25564 488999986432111  


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                        .......+.+..+++++.
T Consensus       138 --~~~~~~~~~~~~~~~~~~  155 (206)
T 2bov_A          138 --SVEEAKNRAEQWNVNYVE  155 (206)
T ss_dssp             --CHHHHHHHHHHHTCEEEE
T ss_pred             --cHHHHHHHHHHhCCeEEE
Confidence              113456677777876553

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=96.71  E-value=0.01  Score=48.67  Aligned_cols=68  Identities=6%  Similarity=-0.070  Sum_probs=39.8

Q ss_pred             CCcEEEEcCCCCCCh-------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          280 ELDYLVIDMPPGTGD-------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~-------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ...+.|+|||+....       .......+..+|.+++|.......-.......+.+++.+.++ -+|.|+++...
T Consensus        48 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl~~  122 (161)
T 2dyk_A           48 RGRFLLVDTGGLWSGDKWEKKIQEKVDRALEDAEVVLFAVDGRAELTQADYEVAEYLRRKGKPV-ILVATKVDDPK  122 (161)
T ss_dssp             TEEEEEEECGGGCSSSSCCHHHHHHHHHHTTTCSEEEEEEESSSCCCHHHHHHHHHHHHHTCCE-EEEEECCCSGG
T ss_pred             CceEEEEECCCCCCccchHHHHHHHHHHHHHhCCEEEEEEECCCcccHhHHHHHHHHHhcCCCE-EEEEECccccc
Confidence            446889999864320       111112244678888888776521122234555566556664 48889988643

>1s1m_A CTP synthase; CTP synthetase, UTP:ammonia ligase (ADP-forming), cytidine 5 triphosphate synthase, ammonia lyase; 2.30A {Escherichia coli} SCOP: c.23.16.1 c.37.1.10 PDB: 2ad5_A*

Probab=96.70  E-value=0.0016  Score=65.53  Aligned_cols=43  Identities=30%  Similarity=0.383  Sum_probs=39.7

Q ss_pred             ceEEEEE-eCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCC
Q 016622          173 SNIVAVS-SCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGP  215 (386)
Q Consensus       173 ~kvI~v~-s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~  215 (386)
                      +|.|+|+ +.-.|+||+++++.|++.|+++|+||..+.+||+-+
T Consensus         3 ~~~i~v~gg~~s~~gk~~~~~~l~~~l~~~g~~v~~~k~~py~n   46 (545)
T 1s1m_A            3 TNYIFVTGGVVSSLGKGIAAASLAAILEARGLNVTIMKLDPYIN   46 (545)
T ss_dssp             CEEEEEEECSSSCSCHHHHHHHHHHHHHTTTCCEEEEEEECCSC
T ss_pred             ceEEEEeCCcccCcchHHHHHHHHHHHHhCCceeeeeecccccc
Confidence            5789999 899999999999999999999999999999997653

>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=96.69  E-value=0.02  Score=49.27  Aligned_cols=69  Identities=10%  Similarity=0.069  Sum_probs=41.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHH-HHHHHHHHcC--CCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDV-AKGVRMFSKL--KVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~-~~~~~~l~~~--~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.|+|+|+...........+..+|.+++|...+. .++..+ ....+.+.+.  +.++ -+|.|+++...
T Consensus        71 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl~~  143 (201)
T 2gco_A           71 KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI-ILVGNKKDLRQ  143 (201)
T ss_dssp             EEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCE-EEEEECGGGTT
T ss_pred             EEEEEEEEECCCchhHHHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCE-EEEEecHHhhc
Confidence            34678999998632211111222445788998877554 455555 4455555543  5665 48999998654

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=96.69  E-value=0.002  Score=61.66  Aligned_cols=38  Identities=21%  Similarity=0.308  Sum_probs=34.2

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +++.|+ +.+|+||||++.++|..+++.|.+|++||++.
T Consensus        64 ~ii~I~-G~pGsGKTtLal~la~~~~~~g~~vlyid~E~  101 (356)
T 1u94_A           64 RIVEIY-GPESSGKTTLTLQVIAAAQREGKTCAFIDAEH  101 (356)
T ss_dssp             SEEEEE-CSTTSSHHHHHHHHHHHHHHTTCCEEEEESSC
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCC
Confidence            466666 89999999999999999999999999999964

>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=96.69  E-value=0.021  Score=49.07  Aligned_cols=91  Identities=11%  Similarity=0.135  Sum_probs=54.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+...   +.+ +-+|.|+++.......  
T Consensus        55 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~Dl~~~~~~--  131 (203)
T 1zbd_A           55 KRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQ-VLLVGNKCDMEDERVV--  131 (203)
T ss_dssp             EEEEEEEEEECCSGGGHHHHHTTGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCSSCE-EEEEEECTTCTTSCCS--
T ss_pred             eEEEEEEEECCCchhhcchHHHhhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECcccCccccc--
Confidence            35678999998643222222233445799999888754 3556666665555542   444 4588999986432111  


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                        ......++++.++++++.
T Consensus       132 --~~~~~~~~~~~~~~~~~~  149 (203)
T 1zbd_A          132 --SSERGRQLADHLGFEFFE  149 (203)
T ss_dssp             --CHHHHHHHHHHHTCEEEE
T ss_pred             --CHHHHHHHHHHCCCeEEE
Confidence              113466777888876543

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=96.68  E-value=0.0088  Score=50.06  Aligned_cols=68  Identities=10%  Similarity=0.075  Sum_probs=40.3

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      .+.+.|+|||+..............+|.+++|...+..........++.+...+.++ -+|.|+++...
T Consensus        54 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~l~~~~~~~~p~-ilv~nK~Dl~~  121 (178)
T 2lkc_A           54 DKKITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTVEAINHAKAANVPI-IVAINKMDKPE  121 (178)
T ss_dssp             TEEEEESCCCSSSSSSCSCCSSCCCCCEEEEEEETTCCCCHHHHHHHHHHGGGSCCE-EEEEETTTSSC
T ss_pred             CceEEEEECCCCHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHhCCCCE-EEEEECccCCc
Confidence            456778899863221111112233468888888765543344455556666666774 48889988643

>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=96.68  E-value=0.015  Score=49.74  Aligned_cols=91  Identities=18%  Similarity=0.119  Sum_probs=53.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcCC--CCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKLK--VPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~~--~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .+...+...+..+.+..  ...+-+|+|+++.......   
T Consensus        70 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~v---  146 (192)
T 2fg5_A           70 ELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREV---  146 (192)
T ss_dssp             SEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCS---
T ss_pred             EEEEEEEEcCCCchhhHhhhHHhhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECccccccccc---
Confidence            45688999998633211222222446789998887654 45666666666665432  2235588899986431111   


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                       ......++++.++++++
T Consensus       147 -~~~~~~~~~~~~~~~~~  163 (192)
T 2fg5_A          147 -PLKDAKEYAESIGAIVV  163 (192)
T ss_dssp             -CHHHHHHHHHTTTCEEE
T ss_pred             -CHHHHHHHHHHcCCEEE
Confidence             11345666777776654

>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=96.68  E-value=0.014  Score=50.52  Aligned_cols=89  Identities=11%  Similarity=0.182  Sum_probs=52.0

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+...   +.+ +-+|+|+++.....     
T Consensus        68 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~Dl~~~~-----  141 (213)
T 3cph_A           68 KVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQ-LLLVGNKSDMETRV-----  141 (213)
T ss_dssp             EEEEEEECCTTGGGGTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSE-EEEEEECTTCSSCC-----
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECCCCcccc-----
Confidence            4679999998632111111122445799999988754 3455555555555442   344 45889999863211     


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                      ......+++++.++++++.
T Consensus       142 ~~~~~~~~~~~~~~~~~~~  160 (213)
T 3cph_A          142 VTADQGEALAKELGIPFIE  160 (213)
T ss_dssp             SCHHHHHHHHHHHTCCEEE
T ss_pred             cCHHHHHHHHHHcCCEEEE
Confidence            1113456777788877653

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=96.67  E-value=0.028  Score=46.89  Aligned_cols=91  Identities=13%  Similarity=0.134  Sum_probs=54.7

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHcC-----CCCeEEEEEcCCcCCCCCcee
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSKL-----KVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~~-----~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      .+.+.|+|+|+...........+..+|.+++|...... ++..+...+..+.+.     +.+.+-+|.|+++......  
T Consensus        55 ~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~--  132 (178)
T 2hxs_A           55 NVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRT--  132 (178)
T ss_dssp             EEEEEEEECTTCCTTCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCS--
T ss_pred             EEEEEEEECCCCccccchhhHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccc--
Confidence            46789999987432111222224567999999887653 555555555555442     5565678999998643211  


Q ss_pred             cccCCChHHHHHHHhCCCeEE
Q 016622          354 YPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl~  374 (386)
                        ......+++++.++++++.
T Consensus       133 --~~~~~~~~~~~~~~~~~~~  151 (178)
T 2hxs_A          133 --IKPEKHLRFCQENGFSSHF  151 (178)
T ss_dssp             --SCHHHHHHHHHHHTCEEEE
T ss_pred             --cCHHHHHHHHHHcCCcEEE
Confidence              1113456777788877653

>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=96.65  E-value=0.026  Score=47.18  Aligned_cols=90  Identities=11%  Similarity=0.163  Sum_probs=51.3

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc---CCCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK---LKVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~---~~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .+...+...+..+..   .+.+ +-+|+|+++.......   
T Consensus        59 ~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~Dl~~~~~~---  134 (180)
T 2g6b_A           59 KVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVA-LMLLGNKVDSAHERVV---  134 (180)
T ss_dssp             EEEEEEEECCCC--------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECCSTTSCCCS---
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCc-EEEEEECcccCccccc---
Confidence            4678999998643222222222445789999888755 345555555555543   3444 4589999986542211   


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       .....+++++..+++++.
T Consensus       135 -~~~~~~~~~~~~~~~~~~  152 (180)
T 2g6b_A          135 -KREDGEKLAKEYGLPFME  152 (180)
T ss_dssp             -CHHHHHHHHHHHTCCEEE
T ss_pred             -CHHHHHHHHHHcCCeEEE
Confidence             113456777778877654

>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=96.64  E-value=0.012  Score=48.60  Aligned_cols=90  Identities=11%  Similarity=0.178  Sum_probs=51.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .+...+...+..+.+.   +.+ +-+|+|+++.....    
T Consensus        50 ~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~Dl~~~~----  124 (170)
T 1g16_A           50 KKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQ-LLLVGNKSDMETRV----  124 (170)
T ss_dssp             CEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECTTCTTCC----
T ss_pred             EEEEEEEEeCCCChhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECccCCcCc----
Confidence            34678999998632111111122345688888887654 3555555555555442   444 45889999863211    


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                       ......+++++.++++++.
T Consensus       125 -~~~~~~~~~~~~~~~~~~~  143 (170)
T 1g16_A          125 -VTADQGEALAKELGIPFIE  143 (170)
T ss_dssp             -SCHHHHHHHHHHHTCCEEE
T ss_pred             -cCHHHHHHHHHHcCCeEEE
Confidence             1113456777888877654

>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=96.60  E-value=0.029  Score=48.31  Aligned_cols=91  Identities=13%  Similarity=0.083  Sum_probs=54.1

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+...   +.+ +-+|+|+++.......  
T Consensus        55 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~Dl~~~~~~--  131 (206)
T 2bcg_Y           55 KTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVL-KLLVGNKCDLKDKRVV--  131 (206)
T ss_dssp             EEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE-EEEEEECTTCTTTCCS--
T ss_pred             EEEEEEEEeCCChHHHHHHHHHhccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECCCCcccccc--
Confidence            34679999998643211122222445799999988754 3556666656555442   333 4588999986542211  


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                        ......++++..+++++.
T Consensus       132 --~~~~~~~~~~~~~~~~~~  149 (206)
T 2bcg_Y          132 --EYDVAKEFADANKMPFLE  149 (206)
T ss_dssp             --CHHHHHHHHHHTTCCEEE
T ss_pred             --CHHHHHHHHHHcCCeEEE
Confidence              113456677778877654

>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=96.58  E-value=0.019  Score=47.35  Aligned_cols=92  Identities=15%  Similarity=0.069  Sum_probs=53.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcCC--CCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKLK--VPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~~--~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .+...+...++.+.+.+  ...+-+|.|+++.......   
T Consensus        53 ~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~v---  129 (170)
T 1z0j_A           53 ELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREV---  129 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCS---
T ss_pred             eEEEEEEEcCCCchhhhcccHhhCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCcccccccc---
Confidence            34678999998642211222222445788888887654 35566666666665432  2345578899986432111   


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       .......+++..+.+++.
T Consensus       130 -~~~~~~~~~~~~~~~~~~  147 (170)
T 1z0j_A          130 -MERDAKDYADSIHAIFVE  147 (170)
T ss_dssp             -CHHHHHHHHHHTTCEEEE
T ss_pred             -CHHHHHHHHHHcCCEEEE
Confidence             113456677777766543

>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=96.57  E-value=0.019  Score=47.28  Aligned_cols=90  Identities=14%  Similarity=0.185  Sum_probs=49.9

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...++.+.+    .+.++ -+|.|+++......  
T Consensus        49 ~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl~~~~~--  125 (167)
T 1c1y_A           49 QQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPM-ILVGNKCDLEDERV--  125 (167)
T ss_dssp             CEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCE-EEEEECTTCGGGCC--
T ss_pred             EEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCcE-EEEEECcccccccc--
Confidence            45678999998643211122222345688888876554 455555555444432    25554 48899998643211  


Q ss_pred             cccCCChHHHHHHHh-CCCeE
Q 016622          354 YPFGRGSGSQVVQQF-GIPHL  373 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~-g~pvl  373 (386)
                        .......++++.+ +.+++
T Consensus       126 --~~~~~~~~~~~~~~~~~~~  144 (167)
T 1c1y_A          126 --VGKEQGQNLARQWCNCAFL  144 (167)
T ss_dssp             --SCHHHHHHHHHHTTSCEEE
T ss_pred             --CCHHHHHHHHHHccCCcEE
Confidence              1113455666666 55554

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=96.57  E-value=0.035  Score=47.23  Aligned_cols=69  Identities=17%  Similarity=0.180  Sum_probs=43.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHcC-----------CCCeEEEEEcCCcC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSKL-----------KVPCIAVVENMCHF  346 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~~-----------~~~i~gvVlN~~~~  346 (386)
                      ..+.+.|+|+|+...........+..+|.+++|...... ++..+...+..+.+.           +.+++ +|.|+++.
T Consensus        61 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~pii-lv~NK~Dl  139 (199)
T 4bas_A           61 GRVAFTVFDMGGAKKFRGLWETYYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFL-FFANKMDA  139 (199)
T ss_dssp             TTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEE-EEEECTTS
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEE-EEEECcCC
Confidence            567899999986432222222224457999999887654 566666655555433           55544 88899986


Q ss_pred             CC
Q 016622          347 DA  348 (386)
Q Consensus       347 ~~  348 (386)
                      ..
T Consensus       140 ~~  141 (199)
T 4bas_A          140 AG  141 (199)
T ss_dssp             TT
T ss_pred             CC
Confidence            44

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=96.53  E-value=0.013  Score=50.76  Aligned_cols=36  Identities=11%  Similarity=0.036  Sum_probs=31.6

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      ++++.++ |.-|+||||.+..++..+..+|++|+++-
T Consensus         8 g~i~v~~-G~mgsGKTT~ll~~a~r~~~~g~kV~v~k   43 (191)
T 1xx6_A            8 GWVEVIV-GPMYSGKSEELIRRIRRAKIAKQKIQVFK   43 (191)
T ss_dssp             CEEEEEE-CSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CEEEEEE-CCCCCcHHHHHHHHHHHHHHCCCEEEEEE
Confidence            4566565 88899999999999999999999999996

>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=96.53  E-value=0.017  Score=48.53  Aligned_cols=91  Identities=16%  Similarity=0.127  Sum_probs=51.7

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHH----cCCCCeEEEEEcCCcCCCCCceec
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFS----KLKVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~----~~~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      .+.+-|+|+|+...........+..+|.+++|...... ++..+...+..+.    ..+.+++ +|.|+++......   
T Consensus        65 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i-lv~nK~Dl~~~~~---  140 (183)
T 3kkq_A           65 WAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMI-LVANKVDLMHLRK---  140 (183)
T ss_dssp             EEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEE-EEEECTTCSTTCC---
T ss_pred             EEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEE-EEEECCCchhccC---
Confidence            44566799986321111111113346888888776543 4555555444442    2455654 8889998643211   


Q ss_pred             ccCCChHHHHHHHhCCCeEEe
Q 016622          355 PFGRGSGSQVVQQFGIPHLFD  375 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~~  375 (386)
                       ......+++++.++++++..
T Consensus       141 -v~~~~~~~~~~~~~~~~~~~  160 (183)
T 3kkq_A          141 -VTRDQGKEMATKYNIPYIET  160 (183)
T ss_dssp             -SCHHHHHHHHHHHTCCEEEE
T ss_pred             -cCHHHHHHHHHHhCCeEEEe
Confidence             11235678888889887653

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.51  E-value=0.0027  Score=57.81  Aligned_cols=40  Identities=30%  Similarity=0.354  Sum_probs=34.0

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      ++.|.++ |-.|+||||++..|+..|...|..++++|.|..
T Consensus         4 ~~lIvl~-G~pGSGKSTla~~La~~L~~~g~~~i~~~~D~~   43 (260)
T 3a4m_A            4 IMLIILT-GLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLI   43 (260)
T ss_dssp             CEEEEEE-CCTTSSHHHHHHHHHHHHHHTTCCEEEECTHHH
T ss_pred             CEEEEEE-cCCCCCHHHHHHHHHHHHHhCCCEEEEECchHH
Confidence            4567776 789999999999999999989999988887753

>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=96.51  E-value=0.0043  Score=53.04  Aligned_cols=42  Identities=24%  Similarity=0.352  Sum_probs=36.3

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      |+++|+|+ |..|+||||+...|...+...|++|..+..|+..
T Consensus         5 ~~~~i~i~-G~sGsGKTTl~~~l~~~l~~~g~~v~~i~~~~~~   46 (174)
T 1np6_A            5 MIPLLAFA-AWSGTGKTTLLKKLIPALCARGIRPGLIKHTHHD   46 (174)
T ss_dssp             CCCEEEEE-CCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC-
T ss_pred             cceEEEEE-eCCCCCHHHHHHHHHHhccccCCceeEEeeCCCc
Confidence            45688887 6889999999999999999999999999988754

>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=96.48  E-value=0.012  Score=50.09  Aligned_cols=90  Identities=11%  Similarity=0.139  Sum_probs=52.4

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .+...+...+..+.+.   +.+ +-+|.|+++......    
T Consensus        69 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~p-iilv~nK~Dl~~~~~----  143 (191)
T 2a5j_A           69 QIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMV-IMLIGNKSDLESRRD----  143 (191)
T ss_dssp             EEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECTTCGGGCC----
T ss_pred             EEEEEEEECCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECcccCCccc----
Confidence            4678999998632111111122445789999888654 4556666666555442   444 458899998643211    


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                      ......+++++..+++++.
T Consensus       144 v~~~~~~~~~~~~~~~~~~  162 (191)
T 2a5j_A          144 VKREEGEAFAREHGLIFME  162 (191)
T ss_dssp             SCHHHHHHHHHHHTCEEEE
T ss_pred             cCHHHHHHHHHHcCCEEEE
Confidence            1113456777778876654

>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=96.47  E-value=0.11  Score=42.33  Aligned_cols=82  Identities=9%  Similarity=0.071  Sum_probs=48.7

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+...    +.+ +-+|.|+++....    
T Consensus        42 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~----  116 (164)
T 1r8s_A           42 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAV-LLVFANKQDLPNA----  116 (164)
T ss_dssp             SSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCE-EEEEEECTTSTTC----
T ss_pred             CCEEEEEEEcCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCe-EEEEEECcCCcCC----
Confidence            45789999998643222222223456799999887654 4566666655554332    444 5588999986432    


Q ss_pred             cccCCChHHHHHHHhCC
Q 016622          354 YPFGRGSGSQVVQQFGI  370 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~  370 (386)
                           ...+++.+.++.
T Consensus       117 -----~~~~~~~~~~~~  128 (164)
T 1r8s_A          117 -----MNAAEITDKLGL  128 (164)
T ss_dssp             -----CCHHHHHHHTTG
T ss_pred             -----CCHHHHHHHhCc
Confidence                 124556666553

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=96.46  E-value=0.0043  Score=64.06  Aligned_cols=88  Identities=11%  Similarity=0.129  Sum_probs=63.6

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG  357 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~  357 (386)
                      |++|-+=|||||+-..-.......+..+|++++|+.+...--..++..++.+.+.+++++ +++||.+.......     
T Consensus        64 ~~~~~iNlIDTPGH~DF~~Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~~a~~~~lp~i-~~INKmDr~~a~~~-----  137 (638)
T 3j25_A           64 WENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGIPTI-FFINKIDQNGIDLS-----  137 (638)
T ss_dssp             CSSCBCCCEECCCSSSTHHHHHHHHTTCSEEECCEESSCTTCSHHHHHHHHHHHHTCSCE-ECCEECCSSSCCSH-----
T ss_pred             ECCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEeCCCCCcHHHHHHHHHHHHcCCCeE-EEEeccccccCCHH-----
Confidence            577889999999644323333344667899999999877666678899999999999976 67899986543211     


Q ss_pred             CChHHHHHHHhCCCe
Q 016622          358 RGSGSQVVQQFGIPH  372 (386)
Q Consensus       358 ~~~~~~i~~~~g~pv  372 (386)
                       ...+++.+.++..+
T Consensus       138 -~~~~~i~~~l~~~~  151 (638)
T 3j25_A          138 -TVYQDIKEKLSAEI  151 (638)
T ss_dssp             -HHHHHHHHTTCCCC
T ss_pred             -HHHHHHHHHhCCCc
Confidence             35677888777543

>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=96.46  E-value=0.022  Score=51.72  Aligned_cols=88  Identities=10%  Similarity=0.038  Sum_probs=53.9

Q ss_pred             CCCcEEEEcCCCCCChH------H--HhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCC
Q 016622          279 GELDYLVIDMPPGTGDI------Q--LTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADG  350 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~------~--~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~  350 (386)
                      ..+.+.|+|+|+.....      .  ........+|.+++|+.....  .........+.+.+.+++ +|+||++.....
T Consensus        50 ~~~~~~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~ii~V~D~t~~--~~~~~~~~~l~~~~~pvi-lv~NK~Dl~~~~  126 (258)
T 3a1s_A           50 KGYTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLVILVADSVNP--EQSLYLLLEILEMEKKVI-LAMTAIDEAKKT  126 (258)
T ss_dssp             TTEEEEEEECCCCSSCCSSSHHHHHHHHHHHHSCCSEEEEEEETTSC--HHHHHHHHHHHTTTCCEE-EEEECHHHHHHT
T ss_pred             CCeEEEEEECCCcCccCCCCHHHHHHHHHHhhcCCCEEEEEeCCCch--hhHHHHHHHHHhcCCCEE-EEEECcCCCCcc
Confidence            45789999999643211      1  111111357999999887654  233345556666777755 888998853311


Q ss_pred             ceecccCCChHHHHHHHhCCCeEE
Q 016622          351 KRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       351 ~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ..     ....+.+++.+|+|++.
T Consensus       127 ~i-----~~~~~~l~~~lg~~vi~  145 (258)
T 3a1s_A          127 GM-----KIDRYELQKHLGIPVVF  145 (258)
T ss_dssp             TC-----CBCHHHHHHHHCSCEEE
T ss_pred             ch-----HHHHHHHHHHcCCCEEE
Confidence            11     12367888888988764

>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=96.44  E-value=0.021  Score=47.08  Aligned_cols=91  Identities=11%  Similarity=0.055  Sum_probs=51.9

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcCC--CCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKLK--VPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~~--~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+.+..  ...+-+|.|+++.......   
T Consensus        53 ~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~~---  129 (170)
T 1r2q_A           53 TTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAV---  129 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCS---
T ss_pred             EEEEEEEEeCCCcHHhhhhhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCcccccc---
Confidence            35678999998643211222222445799999888754 45666666655554431  2234577799986432111   


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                       ......++++..+++++
T Consensus       130 -~~~~~~~~~~~~~~~~~  146 (170)
T 1r2q_A          130 -DFQEAQSYADDNSLLFM  146 (170)
T ss_dssp             -CHHHHHHHHHHTTCEEE
T ss_pred             -CHHHHHHHHHHcCCeEE
Confidence             11245566677776654

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=96.44  E-value=0.013  Score=49.73  Aligned_cols=42  Identities=12%  Similarity=0.033  Sum_probs=28.4

Q ss_pred             CCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          305 LTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       305 ~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +|.+++|+..............+++...+.+++ +|+|+++..
T Consensus       105 ~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~p~i-~v~nK~Dl~  146 (195)
T 3pqc_A          105 LQMVFLLVDGRIPPQDSDLMMVEWMKSLNIPFT-IVLTKMDKV  146 (195)
T ss_dssp             EEEEEEEEETTSCCCHHHHHHHHHHHHTTCCEE-EEEECGGGS
T ss_pred             ceEEEEEecCCCCCCHHHHHHHHHHHHcCCCEE-EEEEChhcC
Confidence            377888887655433344456677777777765 788998864

>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=96.44  E-value=0.028  Score=46.30  Aligned_cols=94  Identities=18%  Similarity=0.201  Sum_probs=53.1

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .+...+...+..+.+.   +.+ +-+|.|+++........ 
T Consensus        50 ~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~~~-  127 (170)
T 1ek0_A           50 HTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDII-IALVGNKIDXLQEGGER-  127 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE-EEEEEECGGGGGSSCCC-
T ss_pred             EEEEEEEEECCCChhhhhhhhhhhccCcEEEEEEecCChHHHHHHHHHHHHHHHhcCCCCc-EEEEEECCCcccccccc-
Confidence            34678999998643222222222446799999887654 3556666555555432   333 55888999864321100 


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                      .......+++++..+++++.
T Consensus       128 ~v~~~~~~~~~~~~~~~~~~  147 (170)
T 1ek0_A          128 KVAREEGEKLAEEKGLLFFE  147 (170)
T ss_dssp             CSCHHHHHHHHHHHTCEEEE
T ss_pred             CCCHHHHHHHHHHcCCEEEE
Confidence            11123456677777876543

>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=96.43  E-value=0.02  Score=48.97  Aligned_cols=90  Identities=11%  Similarity=0.068  Sum_probs=53.3

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+.+.|+|+|+... .......+..+|.+++|..... .++..+...+..+.+    .+.++ -+|.|+++....... 
T Consensus        74 ~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~NK~Dl~~~~~v-  150 (196)
T 2atv_A           74 EVVSMEILDTAGQED-TIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTL-ILVGNKADLDHSRQV-  150 (196)
T ss_dssp             EEEEEEEEECCCCCC-CHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCE-EEEEECGGGGGGCCS-
T ss_pred             EEEEEEEEECCCCCc-ccchhhhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcE-EEEEECccccccccc-
Confidence            356789999986443 2222222445789999888754 455555555544433    35554 488999986432111 


Q ss_pred             cccCCChHHHHHHHhCCCeEE
Q 016622          354 YPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl~  374 (386)
                         ......++++.++++++.
T Consensus       151 ---~~~~~~~~~~~~~~~~~~  168 (196)
T 2atv_A          151 ---STEEGEKLATELACAFYE  168 (196)
T ss_dssp             ---CHHHHHHHHHHHTSEEEE
T ss_pred             ---CHHHHHHHHHHhCCeEEE
Confidence               113456777777876654

>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=96.42  E-value=0.0018  Score=64.10  Aligned_cols=68  Identities=10%  Similarity=0.012  Sum_probs=40.1

Q ss_pred             CCCcEEEEcCCCCCC-----hH---HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTG-----DI---QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~-----~~---~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ....+.|+|||+-..     ..   ......+..+|.+++|+.....-...-....+++++.+.+++ +|+|+++..
T Consensus        69 ~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~VvD~~~~~~~~d~~l~~~l~~~~~pvi-lV~NK~D~~  144 (456)
T 4dcu_A           69 LNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKILYRTKKPVV-LAVNKLDNT  144 (456)
T ss_dssp             CSSCCEEECCCC------CCHHHHHHHHHHHHHHCSEEEEEEESSSCSCHHHHHHHHHHTTCCSCEE-EEEECC---
T ss_pred             CCceEEEEECCCCCCcchHHHHHHHHHHHhhHhhCCEEEEEEeCCCCCChHHHHHHHHHHHcCCCEE-EEEECccch
Confidence            566789999986221     10   111122334799999988655333334567777877777765 788999864

>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=96.40  E-value=0.027  Score=47.99  Aligned_cols=89  Identities=10%  Similarity=0.138  Sum_probs=50.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc-----CCCCeEEEEEcCCcCCCCCce
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK-----LKVPCIAVVENMCHFDADGKR  352 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~-----~~~~i~gvVlN~~~~~~~~~~  352 (386)
                      ..+.+.|+|+|+...........+..+|.+++|...+. .++..+...+..+.+     .+.+ +-+|+|+++.....  
T Consensus        54 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~p-iilv~nK~Dl~~~~--  130 (199)
T 2gf0_A           54 SVCTLQITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIP-VMLVGNKCDETQRE--  130 (199)
T ss_dssp             EEEEEEEEECCGGGSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSC-EEEEEECTTCSSCS--
T ss_pred             EEEEEEEEeCCChHHhHHHHHHhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccCCccc--
Confidence            35678999998633222222222345688888877654 345555554444433     1445 45888999864321  


Q ss_pred             ecccCCChHHHHHHHhCCCeE
Q 016622          353 YYPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       353 ~~~~~~~~~~~i~~~~g~pvl  373 (386)
                         ........+++.++++++
T Consensus       131 ---~~~~~~~~~~~~~~~~~~  148 (199)
T 2gf0_A          131 ---VDTREAQAVAQEWKCAFM  148 (199)
T ss_dssp             ---SCHHHHHHHHHHHTCEEE
T ss_pred             ---cCHHHHHHHHHHhCCeEE
Confidence               111245566677776654

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.39  E-value=0.0034  Score=53.63  Aligned_cols=37  Identities=32%  Similarity=0.331  Sum_probs=32.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +.|.|. |-.|+||||++..|+..+...|+++..++.|
T Consensus         2 ~~I~i~-G~~GsGKsT~~~~L~~~l~~~g~~~~~~~~~   38 (194)
T 1nks_A            2 KIGIVT-GIPGVGKSTVLAKVKEILDNQGINNKIINYG   38 (194)
T ss_dssp             EEEEEE-ECTTSCHHHHHHHHHHHHHTTTCCEEEEEHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHHhcCceEEEEECC
Confidence            567776 8899999999999999999889999999754

>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=96.38  E-value=0.033  Score=48.03  Aligned_cols=89  Identities=10%  Similarity=0.119  Sum_probs=53.2

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+.+.   +.+ +-+|.|+++.......   
T Consensus        77 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~NK~Dl~~~~~v---  152 (201)
T 2hup_A           77 RVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIV-QLLIGNKSDLSELREV---  152 (201)
T ss_dssp             EEEEEEECCTTCGGGHHHHHHHHTTCSEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECTTCGGGCCS---
T ss_pred             EEEEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECCcccccccc---
Confidence            4678999998643222222233456799999988764 3556666666555442   344 4588899986432111   


Q ss_pred             cCCChHHHHHHHhCC-CeE
Q 016622          356 FGRGSGSQVVQQFGI-PHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~-pvl  373 (386)
                       ......++++.+++ +++
T Consensus       153 -~~~~~~~~~~~~~~~~~~  170 (201)
T 2hup_A          153 -SLAEAQSLAEHYDILCAI  170 (201)
T ss_dssp             -CHHHHHHHHHHTTCSEEE
T ss_pred             -CHHHHHHHHHHcCCCEEE
Confidence             11345677778887 544

>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=96.37  E-value=0.035  Score=47.06  Aligned_cols=89  Identities=11%  Similarity=0.152  Sum_probs=51.4

Q ss_pred             CCcEEEEcCCCCCChHH--HhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHH----cCCCCeEEEEEcCCcCCCCCce
Q 016622          280 ELDYLVIDMPPGTGDIQ--LTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFS----KLKVPCIAVVENMCHFDADGKR  352 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~--~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~----~~~~~i~gvVlN~~~~~~~~~~  352 (386)
                      .+.+.|+|+|+. ....  .....+..+|.+++|..... .++..+...+..+.    ..+.++ -+|.|+++...... 
T Consensus        68 ~~~~~l~Dt~G~-~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl~~~~~-  144 (189)
T 1z06_A           68 RIKIQLWDTAGQ-ERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPR-ILVGNKCDLRSAIQ-  144 (189)
T ss_dssp             EEEEEEEECCCS-HHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCE-EEEEECTTCGGGCC-
T ss_pred             EEEEEEEECCCc-hhhhhhhhHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECccccccce-
Confidence            467999999853 2211  11222446799999988654 34445544444433    234554 48889998643211 


Q ss_pred             ecccCCChHHHHHHHhCCCeEE
Q 016622          353 YYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       353 ~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                         ......+++++..+++++.
T Consensus       145 ---v~~~~~~~~~~~~~~~~~~  163 (189)
T 1z06_A          145 ---VPTDLAQKFADTHSMPLFE  163 (189)
T ss_dssp             ---SCHHHHHHHHHHTTCCEEE
T ss_pred             ---eCHHHHHHHHHHcCCEEEE
Confidence               1123456777788887654

>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=96.35  E-value=0.019  Score=58.67  Aligned_cols=69  Identities=10%  Similarity=0.004  Sum_probs=44.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ..|.+.|+|||+-..........+..+|.+++|+......-......+..+...+++++ +|+|+++...
T Consensus        71 ~~~~inliDTPGh~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~~~ipiI-vviNKiDl~~  139 (600)
T 2ywe_A           71 NTYKLHLIDTPGHVDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVEQDLVII-PVINKIDLPS  139 (600)
T ss_dssp             CEEEEEEECCCCSGGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHHTTCEEE-EEEECTTSTT
T ss_pred             CeEEEEEEECCCcHhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHCCCCEE-EEEeccCccc
Confidence            35788899998543222222233556899999988765433344555555566788854 8889998643

>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=96.33  E-value=0.018  Score=49.88  Aligned_cols=68  Identities=13%  Similarity=0.130  Sum_probs=41.5

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHH-HHHHHHHHcC--CCCeEEEEEcCCcCCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDV-AKGVRMFSKL--KVPCIAVVENMCHFDA  348 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~-~~~~~~l~~~--~~~i~gvVlN~~~~~~  348 (386)
                      .+.+.|+|+|+...........+..+|.+++|...+. .++..+ ...+..+.+.  +.+++ +|.||++...
T Consensus        72 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pii-lv~nK~Dl~~  143 (207)
T 2fv8_A           72 QVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVPII-LVANKKDLRS  143 (207)
T ss_dssp             EEEEEEEECTTCTTCTTTGGGGCTTCCEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEE-EEEECGGGGG
T ss_pred             EEEEEEEECCCcHHHHHHHHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEE-EEEEchhhhc
Confidence            4678999998643211122222445788998877654 355555 4455555543  55654 8899998643

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=96.33  E-value=0.025  Score=49.56  Aligned_cols=89  Identities=10%  Similarity=0.045  Sum_probs=50.6

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+......+....+..+|.+++|..... .++..+...+..+...   +.+ +-+|.|+++......    
T Consensus        61 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~p-iilv~nK~Dl~~~~~----  135 (223)
T 3cpj_B           61 RIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVA-VGLIGNKSDLAHLRA----  135 (223)
T ss_dssp             EEEEEEECCTTTTTTTCCCGGGTTTCCEEEEEEC-CCHHHHHHHHHHHHHHHHHCC--CE-EEEEECCGGGGGGCC----
T ss_pred             EEEEEEEECCCccchhhhHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCe-EEEEEECcccccccc----
Confidence            4678999998643211112222445788898887654 3556666656555443   333 558889998643211    


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                      .......++++..+++++
T Consensus       136 v~~~~~~~~~~~~~~~~~  153 (223)
T 3cpj_B          136 VPTEESKTFAQENQLLFT  153 (223)
T ss_dssp             SCHHHHHHHHHHTTCEEE
T ss_pred             cCHHHHHHHHHHcCCEEE
Confidence            111245666777776654

>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=96.32  E-value=0.018  Score=56.45  Aligned_cols=70  Identities=13%  Similarity=0.185  Sum_probs=49.0

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHH-------HHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFI-------DVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~-------~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.|+|||+-..-.......+..+|.+++|+.....++.       .+.+.+..+...+++.+-+++||++...
T Consensus        82 ~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~  158 (435)
T 1jny_A           82 KKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTE  158 (435)
T ss_dssp             SSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSS
T ss_pred             CCeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCCCccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCC
Confidence            578899999986433222333335568999999998876554       4566666777778765668899998643

>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=96.32  E-value=0.024  Score=48.69  Aligned_cols=95  Identities=11%  Similarity=0.066  Sum_probs=53.3

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCc--e
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGK--R  352 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~--~  352 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .+...+...++.+...   +.++ -+|.|+++......  .
T Consensus        75 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~pi-ilv~NK~Dl~~~~~~~~  153 (199)
T 2p5s_A           75 ERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPI-MLVGNKADIRDTAATEG  153 (199)
T ss_dssp             EEEEEEEEECTTCTTCHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHC---CCE-EEEEECGGGHHHHHHTT
T ss_pred             EEEEEEEEECCCCcchhhhHHHHHhhCCEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCCE-EEEEECccccccccccc
Confidence            34678999998644322222222445799999988654 4555566555555442   4554 58889998631000  0


Q ss_pred             ecccCCChHHHHHHHhCCCeEE
Q 016622          353 YYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       353 ~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      .........+++++..+++++.
T Consensus       154 ~~~v~~~~~~~~~~~~~~~~~~  175 (199)
T 2p5s_A          154 QKCVPGHFGEKLAMTYGALFCE  175 (199)
T ss_dssp             CCCCCHHHHHHHHHHHTCEEEE
T ss_pred             ccccCHHHHHHHHHHcCCeEEE
Confidence            0011123456777778876653

>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=96.31  E-value=0.051  Score=45.24  Aligned_cols=68  Identities=13%  Similarity=0.051  Sum_probs=37.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc-------CCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK-------LKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~-------~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .+...+...+..+..       .+.+ +-+|+|+++..
T Consensus        56 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p-~ilv~nK~Dl~  131 (182)
T 1ky3_A           56 KVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFP-FVILGNKIDAE  131 (182)
T ss_dssp             CCEEEEEECCC----------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCC-EEEEEECTTSC
T ss_pred             cEEEEEEEECCCChHhhhhhHHHhhcCCEEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCc-EEEEEECCccc
Confidence            45688999998633211222222345789999887654 345555554444432       3445 45889999863

>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=96.30  E-value=0.028  Score=46.30  Aligned_cols=91  Identities=19%  Similarity=0.123  Sum_probs=47.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+.+.++|+|+...........+..+|.+++|...+ ..++..+...+..+.+.    +.++ -+|.|+++......  
T Consensus        47 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl~~~~~--  123 (166)
T 3q72_A           47 EEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPI-ILVGNKSDLVRSRE--  123 (166)
T ss_dssp             EEEEEEEEECC---------------CCEEEEEEETTCHHHHHHHHHHHHHHHHCC---CCCE-EEEEECTTCCSSCC--
T ss_pred             EEEEEEEEECCCCccchhhhhhhhhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEeccccccccc--
Confidence            3567889999863322112222234568888876654 34566666666655443    4554 48889998653221  


Q ss_pred             cccCCChHHHHHHHhCCCeEE
Q 016622          354 YPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl~  374 (386)
                        ......+.+++..+.+++.
T Consensus       124 --~~~~~~~~~~~~~~~~~~~  142 (166)
T 3q72_A          124 --VSVDEGRACAVVFDCKFIE  142 (166)
T ss_dssp             --SCHHHHHHHHHHTTCEEEE
T ss_pred             --cCHHHHHHHHHHhCCcEEE
Confidence              1123456777777876543

>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=96.30  E-value=0.035  Score=48.06  Aligned_cols=90  Identities=11%  Similarity=0.046  Sum_probs=52.4

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+.-.........+..+|.+++|..... .++..+...++.+.+.   +.+ +-+|.||++......    
T Consensus        74 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~NK~Dl~~~~~----  148 (201)
T 2ew1_A           74 KVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVI-TVLVGNKIDLAERRE----  148 (201)
T ss_dssp             EEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECGGGGGGCS----
T ss_pred             EEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECCCCccccc----
Confidence            4678999998643222222233446799999987654 4555555555555432   333 458889998643211    


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                      ......+++++..+++++.
T Consensus       149 v~~~~~~~~~~~~~~~~~~  167 (201)
T 2ew1_A          149 VSQQRAEEFSEAQDMYYLE  167 (201)
T ss_dssp             SCHHHHHHHHHHHTCCEEE
T ss_pred             cCHHHHHHHHHHcCCEEEE
Confidence            1113456677777877654

>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=96.29  E-value=0.024  Score=51.60  Aligned_cols=88  Identities=15%  Similarity=0.102  Sum_probs=51.5

Q ss_pred             CCCcEEEEcCCCCCCh--------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCC-CCeEEEEEcCCcCCCC
Q 016622          279 GELDYLVIDMPPGTGD--------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLK-VPCIAVVENMCHFDAD  349 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~--------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~-~~i~gvVlN~~~~~~~  349 (386)
                      ..+.+.|+|+|+....        ..........+|.+++|+.....  .........+.+.+ .+++ +|+||++....
T Consensus        48 ~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~--~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~~~  124 (271)
T 3k53_A           48 REKEFLVVDLPGIYSLTAHSIDELIARNFILDGNADVIVDIVDSTCL--MRNLFLTLELFEMEVKNII-LVLNKFDLLKK  124 (271)
T ss_dssp             TTEEEEEEECCCCSCCCSSCHHHHHHHHHHHTTCCSEEEEEEEGGGH--HHHHHHHHHHHHTTCCSEE-EEEECHHHHHH
T ss_pred             CCceEEEEeCCCccccccCCHHHHHHHHhhhccCCcEEEEEecCCcc--hhhHHHHHHHHhcCCCCEE-EEEEChhcCcc
Confidence            4567899999863321        11111111357999999876653  33344444455556 6654 88899884321


Q ss_pred             CceecccCCChHHHHHHHhCCCeEE
Q 016622          350 GKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       350 ~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ..     .....+.+.+.+|+|++.
T Consensus       125 ~~-----~~~~~~~l~~~lg~~~~~  144 (271)
T 3k53_A          125 KG-----AKIDIKKMRKELGVPVIP  144 (271)
T ss_dssp             HT-----CCCCHHHHHHHHSSCEEE
T ss_pred             cc-----cHHHHHHHHHHcCCcEEE
Confidence            00     012377888899988764

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=96.28  E-value=0.018  Score=56.55  Aligned_cols=69  Identities=14%  Similarity=0.119  Sum_probs=47.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchH-------HHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAF-------IDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~-------~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|||+-..........+..+|.+++|+.+.....       ....+.+..+...+++.+-+++||++..
T Consensus        93 ~~~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~~v~~iIvviNK~Dl~  168 (439)
T 3j2k_7           93 EKKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDP  168 (439)
T ss_pred             CCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHcCCCeEEEEeecCCCc
Confidence            56789999998532222222233445799999998876433       3567777777788888566889999863

>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=96.27  E-value=0.013  Score=58.37  Aligned_cols=70  Identities=10%  Similarity=0.077  Sum_probs=47.3

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcch-------HHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLA-------FIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s-------~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.|+|||+--.-.......+..+|.+++|+......       .....+.+..+...+.+.+-+|+||++...
T Consensus       109 ~~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~~~~~iIvviNK~Dl~~  185 (483)
T 3p26_A          109 HRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVD  185 (483)
T ss_dssp             SSCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHTTCCCEEEEEECGGGGT
T ss_pred             CCceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHcCCCcEEEEEECcCccc
Confidence            5688999999853322223333455689999999887642       135666677777778775668999998643

>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=96.27  E-value=0.029  Score=47.51  Aligned_cols=90  Identities=10%  Similarity=0.084  Sum_probs=52.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .+...+...+..+.+.   ....+-+|+|+++.....    
T Consensus        62 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~~----  137 (195)
T 1x3s_A           62 NKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENRE----  137 (195)
T ss_dssp             EEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCC----
T ss_pred             eEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCcccc----
Confidence            35779999998632211111222446799999887654 3555666666666543   122355889999863321    


Q ss_pred             ccCCChHHHHHHHhCCCeE
Q 016622          355 PFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl  373 (386)
                       .......++++..+++++
T Consensus       138 -~~~~~~~~~~~~~~~~~~  155 (195)
T 1x3s_A          138 -VDRNEGLKFARKHSMLFI  155 (195)
T ss_dssp             -SCHHHHHHHHHHTTCEEE
T ss_pred             -cCHHHHHHHHHHcCCEEE
Confidence             111345666777776654

>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=96.23  E-value=0.064  Score=44.99  Aligned_cols=89  Identities=13%  Similarity=0.166  Sum_probs=50.7

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceec
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+......+..    .+.++ -+|.|+++.....    
T Consensus        51 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~-i~v~nK~Dl~~~~----  125 (189)
T 4dsu_A           51 TCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPM-VLVGNKCDLPSRT----  125 (189)
T ss_dssp             EEEEEEEECCCC---CTTHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCE-EEEEECTTSSSCS----
T ss_pred             EEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcE-EEEEECccCcccc----
Confidence            4567889998633211111112334688888877654 345555555554433    24554 4888999865321    


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                       ......+.+++.++.+++.
T Consensus       126 -~~~~~~~~~~~~~~~~~~~  144 (189)
T 4dsu_A          126 -VDTKQAQDLARSYGIPFIE  144 (189)
T ss_dssp             -SCHHHHHHHHHHHTCCEEE
T ss_pred             -cCHHHHHHHHHHcCCeEEE
Confidence             1123567788888887654

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=96.22  E-value=0.0076  Score=51.86  Aligned_cols=90  Identities=7%  Similarity=-0.005  Sum_probs=51.0

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc------CCCCeEEEEEcCCcCCC-CCc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK------LKVPCIAVVENMCHFDA-DGK  351 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~------~~~~i~gvVlN~~~~~~-~~~  351 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+..      .+.+ +-+|.|+++... ...
T Consensus        72 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~p-iilv~nK~Dl~~~~~~  150 (208)
T 2yc2_C           72 SVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLR-AVLVANKTDLPPQRHQ  150 (208)
T ss_dssp             EEEEEEEETTTTHHHHHHHSTTCCCCCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCE-EEEEEECC-------C
T ss_pred             EEEEEEEECCCcHHHHHHHHHHHhhCcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCc-EEEEEECcccchhhcc
Confidence            5678999998532211222222445789999888754 355666666666654      2344 558999998643 211


Q ss_pred             eecccCCChHHHHHHHhCCCeEE
Q 016622          352 RYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       352 ~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                          .......++++.++++++.
T Consensus       151 ----v~~~~~~~~~~~~~~~~~~  169 (208)
T 2yc2_C          151 ----VRLDMAQDWATTNTLDFFD  169 (208)
T ss_dssp             ----CCHHHHHHHHHHTTCEEEE
T ss_pred             ----CCHHHHHHHHHHcCCEEEE
Confidence                1113466777888876543

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.20  E-value=0.0071  Score=52.57  Aligned_cols=41  Identities=27%  Similarity=0.294  Sum_probs=35.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      +.+|+++ |..|+||||++..|+..+...|.+|.+++.|...
T Consensus        22 ~~~i~i~-G~~GsGKstl~~~l~~~~~~~~~~v~~~~~d~~~   62 (201)
T 1rz3_A           22 RLVLGID-GLSRSGKTTLANQLSQTLREQGISVCVFHMDDHI   62 (201)
T ss_dssp             SEEEEEE-ECTTSSHHHHHHHHHHHHHHTTCCEEEEEGGGGC
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHhhcCCeEEEeccCccc
Confidence            3577777 8899999999999999998888899999888654

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=96.18  E-value=0.0027  Score=58.87  Aligned_cols=41  Identities=22%  Similarity=0.367  Sum_probs=33.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      ..+|+|+ |-.|+||||+|..|+..+...|.++.+||+|-..
T Consensus         5 ~~iIgIt-G~sGSGKSTva~~L~~~lg~~~~~~~vI~~D~~~   45 (290)
T 1a7j_A            5 HPIISVT-GSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAFH   45 (290)
T ss_dssp             SCEEEEE-SCC---CCTHHHHHHHHHHHHTCCEEEEEGGGGB
T ss_pred             ceEEEEE-CCCCCCHHHHHHHHHHHHhhcCCCeeEeecchhh
Confidence            4588888 7889999999999999988778899999999755

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.17  E-value=0.0063  Score=54.14  Aligned_cols=39  Identities=21%  Similarity=0.203  Sum_probs=34.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      .++.++ |.+|+||||++.++|..++..|.+|++++.+..
T Consensus        24 ~~~~i~-G~~GsGKTtl~~~~~~~~~~~~~~v~~~~~e~~   62 (247)
T 2dr3_A           24 NVVLLS-GGPGTGKTIFSQQFLWNGLKMGEPGIYVALEEH   62 (247)
T ss_dssp             CEEEEE-ECTTSSHHHHHHHHHHHHHHTTCCEEEEESSSC
T ss_pred             cEEEEE-CCCCCCHHHHHHHHHHHHHhcCCeEEEEEccCC
Confidence            466666 889999999999999999999999999998763

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=96.14  E-value=0.035  Score=57.94  Aligned_cols=87  Identities=20%  Similarity=0.048  Sum_probs=61.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGR  358 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~  358 (386)
                      ++|-+=|||||+-.+-..-....+..+|++++|+.+...--..++..++.+.+.+++++ +++||++......      .
T Consensus        83 ~~~~iNlIDTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~~~lp~i-~~iNKiDr~~a~~------~  155 (709)
T 4fn5_A           83 DNYRVNVIDTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANKYGVPRI-VYVNKMDRQGANF------L  155 (709)
T ss_dssp             CCEEEEEECCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHHTCCEE-EEEECSSSTTCCH------H
T ss_pred             CCEEEEEEeCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHHcCCCeE-EEEccccccCccH------H
Confidence            35667799999644322222333556799999999887766788999999999999976 6779998644221      1


Q ss_pred             ChHHHHHHHhCCCe
Q 016622          359 GSGSQVVQQFGIPH  372 (386)
Q Consensus       359 ~~~~~i~~~~g~pv  372 (386)
                      ...+++.+.++...
T Consensus       156 ~~~~ei~~~l~~~~  169 (709)
T 4fn5_A          156 RVVEQIKKRLGHTP  169 (709)
T ss_dssp             HHHHHHHHHHCSCE
T ss_pred             HHHHHhhhhcccce
Confidence            35778888887543

>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=96.14  E-value=0.11  Score=42.74  Aligned_cols=69  Identities=14%  Similarity=0.039  Sum_probs=41.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++......+..+.+    .+.+ +-+|.|+++...
T Consensus        49 ~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~  122 (171)
T 1upt_A           49 KNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAI-LVVFANKQDMEQ  122 (171)
T ss_dssp             TTEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCE-EEEEEECTTSTT
T ss_pred             CCEEEEEEECCCChhhhHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCCE-EEEEEECCCCcC
Confidence            35678999998642211222222345799999887654 356666555544432    2444 558899988643

>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=96.12  E-value=0.045  Score=45.98  Aligned_cols=90  Identities=13%  Similarity=0.011  Sum_probs=51.7

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc---CCCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK---LKVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~---~~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .+...+...+..+..   .+.+ +-+|.|+++.......   
T Consensus        58 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~~---  133 (186)
T 2bme_A           58 YVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIV-IILCGNKKDLDADREV---  133 (186)
T ss_dssp             EEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECGGGGGGCCS---
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECccccccccc---
Confidence            3678999998643222222233445789999887654 345555555544433   2444 5588999986432111   


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       ......++++..+++++.
T Consensus       134 -~~~~~~~~~~~~~~~~~~  151 (186)
T 2bme_A          134 -TFLEASRFAQENELMFLE  151 (186)
T ss_dssp             -CHHHHHHHHHHTTCEEEE
T ss_pred             -CHHHHHHHHHHcCCEEEE
Confidence             112456667777776653

>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=96.11  E-value=0.033  Score=46.34  Aligned_cols=90  Identities=14%  Similarity=0.108  Sum_probs=51.0

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc---CCCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK---LKVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~---~~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+..   .+.+ +-+|+|+++.......   
T Consensus        62 ~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~Dl~~~~~~---  137 (179)
T 2y8e_A           62 TVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVI-IMLVGNKTDLSDKRQV---  137 (179)
T ss_dssp             EEEEEEEEECCSGGGGGGSHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSE-EEEEEECGGGGGGCCS---
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECCcccccCcC---
Confidence            4678999998632211111222446789999888754 345555555554433   2444 4588999986432111   


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       ........++..+++++.
T Consensus       138 -~~~~~~~~~~~~~~~~~~  155 (179)
T 2y8e_A          138 -STEEGERKAKELNVMFIE  155 (179)
T ss_dssp             -CHHHHHHHHHHHTCEEEE
T ss_pred             -CHHHHHHHHHHcCCeEEE
Confidence             112455666777876654

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=96.10  E-value=0.023  Score=47.45  Aligned_cols=91  Identities=12%  Similarity=0.081  Sum_probs=52.2

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC-CCCeEEEEEcCCcCCCCCceecccC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL-KVPCIAVVENMCHFDADGKRYYPFG  357 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~-~~~i~gvVlN~~~~~~~~~~~~~~~  357 (386)
                      .+.+.|+|+|+.-.........+..+|.+++|..... .+...+...+..+.+. ....+-+|.|+++......    ..
T Consensus        57 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~----~~  132 (181)
T 3tw8_B           57 KVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCDDVCRILVGNKNDDPERKV----VE  132 (181)
T ss_dssp             EEEEEEEEETTGGGCSSCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHCTTSEEEEEEECTTCGGGCC----SC
T ss_pred             EEEEEEEcCCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECCCCchhcc----cC
Confidence            3678999998632111111122445788888887654 4555666555555443 2223458899998543211    11


Q ss_pred             CChHHHHHHHhCCCeEE
Q 016622          358 RGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       358 ~~~~~~i~~~~g~pvl~  374 (386)
                      ......+++..+.+++.
T Consensus       133 ~~~~~~~~~~~~~~~~~  149 (181)
T 3tw8_B          133 TEDAYKFAGQMGIQLFE  149 (181)
T ss_dssp             HHHHHHHHHHHTCCEEE
T ss_pred             HHHHHHHHHHcCCeEEE
Confidence            23466777778877654

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=96.09  E-value=0.019  Score=49.05  Aligned_cols=68  Identities=16%  Similarity=0.164  Sum_probs=41.9

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDA  348 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~  348 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .+...+...++.+...   +.+ +-+|.||++...
T Consensus        74 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~p-iilV~NK~Dl~~  145 (192)
T 2il1_A           74 KIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAE-LLLVGNKLDCET  145 (192)
T ss_dssp             EEEEEEEEECCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECGGGGG
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECccccc
Confidence            4678999998643222222222445799999988654 3555555555555443   344 558899998643

>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=96.06  E-value=0.17  Score=42.65  Aligned_cols=68  Identities=7%  Similarity=-0.017  Sum_probs=41.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHc----CCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSK----LKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|+|+...........+..+|.+++|...... ++..+...+..+.+    .+.+ +-+|.|+++..
T Consensus        58 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~NK~Dl~  130 (187)
T 1zj6_A           58 NNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAG-LLIFANKQDVK  130 (187)
T ss_dssp             TTEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCE-EEEEEECTTST
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCe-EEEEEECCCCc
Confidence            346789999986432111212224567999999887553 56777666655544    2444 55889999864

>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=96.02  E-value=0.043  Score=45.22  Aligned_cols=91  Identities=16%  Similarity=0.155  Sum_probs=50.4

Q ss_pred             CCCcEEEEcCCCCCChHH-HhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCce
Q 016622          279 GELDYLVIDMPPGTGDIQ-LTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKR  352 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~-~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~  352 (386)
                      ..+.+.++|+|+...... +.......+|.+++|...+. .++..+...+..+.+.    +.+++ +|.|+++...... 
T Consensus        49 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i-lv~nK~Dl~~~~~-  126 (169)
T 3q85_A           49 EEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVI-LVGNKSDLARSRE-  126 (169)
T ss_dssp             EEEEEEEECCCCC--------CHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEE-EEEECTTCGGGCC-
T ss_pred             eEEEEEEEECCCccccchhhhhhhhccCCEEEEEEECCChHHHHHHHHHHHHHHhcccCCCCCEE-EEeeCcchhhccc-
Confidence            356788999986432111 11111334688888877654 3555555555544332    45544 8889998643211 


Q ss_pred             ecccCCChHHHHHHHhCCCeEE
Q 016622          353 YYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       353 ~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                         ......+++++.++.+++.
T Consensus       127 ---~~~~~~~~~~~~~~~~~~~  145 (169)
T 3q85_A          127 ---VSLEEGRHLAGTLSCKHIE  145 (169)
T ss_dssp             ---SCHHHHHHHHHHTTCEEEE
T ss_pred             ---CCHHHHHHHHHHcCCcEEE
Confidence               1123566778888876653

>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=96.02  E-value=0.019  Score=59.50  Aligned_cols=83  Identities=12%  Similarity=0.120  Sum_probs=55.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGR  358 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~  358 (386)
                      ..+.+.|+|||+-..........+..+|.+++|+.+...--....+.++.+.+.+++++ +|+|+++.. ..  .    .
T Consensus        72 ~~~~~nliDTpG~~~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt~~~~~~~~~~~ip~i-lv~NKiD~~-~~--~----~  143 (665)
T 2dy1_A           72 RGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGTERAWTVAERLGLPRM-VVVTKLDKG-GD--Y----Y  143 (665)
T ss_dssp             TTEEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEE-EEEECGGGC-CC--H----H
T ss_pred             CCEEEEEEeCCCccchHHHHHHHHhhcCcEEEEEcCCcccchhHHHHHHHHHHccCCEE-EEecCCchh-hh--H----H
Confidence            46788999998533212222233445799999988766544556677788877888877 778999865 21  1    1


Q ss_pred             ChHHHHHHHhC
Q 016622          359 GSGSQVVQQFG  369 (386)
Q Consensus       359 ~~~~~i~~~~g  369 (386)
                      ...+++.+.++
T Consensus       144 ~~~~~l~~~l~  154 (665)
T 2dy1_A          144 ALLEDLRSTLG  154 (665)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHhC
Confidence            34677777777

>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=96.00  E-value=0.039  Score=47.31  Aligned_cols=68  Identities=13%  Similarity=0.057  Sum_probs=39.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc-------CCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK-------LKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~-------~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+..       .+.+ +-+|+|+++..
T Consensus        55 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~  130 (207)
T 1vg8_A           55 RLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFP-FVVLGNKIDLE  130 (207)
T ss_dssp             CEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSC-EEEEEECTTSS
T ss_pred             EEEEEEEEeCCCcHHHHHhHHHHHhCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCc-EEEEEECCCCc
Confidence            35679999998632111111122345799999987654 345555444443322       2445 45888999865

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=96.00  E-value=0.0039  Score=61.21  Aligned_cols=69  Identities=10%  Similarity=0.024  Sum_probs=37.2

Q ss_pred             CCCcEEEEcCCCCCCh--------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGD--------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~--------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ....+.|+|||+...+        .......+..+|.+++|+.....--..-....+.+++.+.+++ +|+||++...
T Consensus        49 ~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvD~~~~~~~~d~~~~~~l~~~~~pvi-lv~NK~D~~~  125 (436)
T 2hjg_A           49 LNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKILYRTKKPVV-LAVNKLDNTE  125 (436)
T ss_dssp             CSSCCEEEC---------CHHHHHHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHTTCCSCEE-EEEECCCC--
T ss_pred             CCceEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEE-EEEECccCcc
Confidence            5567899999864210        0111122345799998887654211222456667777777755 8889998643

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.00  E-value=0.0078  Score=52.70  Aligned_cols=39  Identities=18%  Similarity=0.215  Sum_probs=33.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      .++|+|+ |.+|+||||+..+|+..+... +++.+++.|+.
T Consensus        30 ~~~i~i~-G~~g~GKTTl~~~l~~~~~~~-~~~~~i~~d~~   68 (221)
T 2wsm_A           30 TVAVNIM-GAIGSGKTLLIERTIERIGNE-VKIGAMLGDVV   68 (221)
T ss_dssp             CEEEEEE-ECTTSCHHHHHHHHHHHHTTT-SCEEEEECSCC
T ss_pred             ceEEEEE-cCCCCCHHHHHHHHHHHhccC-CeEEEEecCCC
Confidence            3577777 799999999999999988655 89999999885

>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=95.98  E-value=0.039  Score=45.97  Aligned_cols=90  Identities=11%  Similarity=0.069  Sum_probs=49.4

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHH----HcCCCCeEEEEEcCCcCCCCCceec
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMF----SKLKVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l----~~~~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+    ...+.++ -+|+|+++......   
T Consensus        56 ~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl~~~~~---  131 (181)
T 2fn4_A           56 PARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPV-VLVGNKADLESQRQ---  131 (181)
T ss_dssp             EEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCE-EEEEECGGGGGGCC---
T ss_pred             EEEEEEEECCCchhhHHHHHHHHhhCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECcccccccc---
Confidence            4678899998633211111111334688888877655 3455555444433    2235554 48889998643211   


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                       ........+++..+++++.
T Consensus       132 -v~~~~~~~~~~~~~~~~~~  150 (181)
T 2fn4_A          132 -VPRSEASAFGASHHVAYFE  150 (181)
T ss_dssp             -SCHHHHHHHHHHTTCEEEE
T ss_pred             -cCHHHHHHHHHHcCCeEEE
Confidence             1113455666677766543

>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=95.97  E-value=0.091  Score=43.58  Aligned_cols=67  Identities=9%  Similarity=0.030  Sum_probs=39.3

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHc-------CCCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSK-------LKVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~-------~~~~i~gvVlN~~~~~  347 (386)
                      .+.+.|+|+|+...........+..+|.+++|...... +...+...+..+..       .+.++ -+|.|+++..
T Consensus        55 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~-i~v~nK~Dl~  129 (177)
T 1wms_A           55 FVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPF-VILGNKIDIS  129 (177)
T ss_dssp             EEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCE-EEEEECTTCS
T ss_pred             EEEEEEEeCCCchhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcE-EEEEECCccc
Confidence            46799999986432222222234457888888776543 44444444444432       34454 4888999864

>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=95.97  E-value=0.1  Score=44.06  Aligned_cols=69  Identities=10%  Similarity=0.042  Sum_probs=42.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+.+    .+.++ -+|.|+++...
T Consensus        65 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~pi-ilv~NK~Dl~~  138 (188)
T 1zd9_A           65 GNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPV-LVLGNKRDLPG  138 (188)
T ss_dssp             TTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCE-EEEEECTTSTT
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHHccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCE-EEEEECCCCcc
Confidence            46789999998632111111122446799999988754 456666655554432    35554 58889998643

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=95.97  E-value=0.021  Score=50.30  Aligned_cols=37  Identities=14%  Similarity=-0.023  Sum_probs=31.7

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      +++..++ |.-|.||||.+..++..+..+|++|+++-.
T Consensus        28 G~l~vit-G~MgsGKTT~lL~~a~r~~~~g~kVli~k~   64 (214)
T 2j9r_A           28 GWIEVIC-GSMFSGKSEELIRRVRRTQFAKQHAIVFKP   64 (214)
T ss_dssp             CEEEEEE-CSTTSCHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             CEEEEEE-CCCCCcHHHHHHHHHHHHHHCCCEEEEEEe
Confidence            4555555 888999999999999999999999999963

>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=95.88  E-value=0.011  Score=50.12  Aligned_cols=41  Identities=27%  Similarity=0.263  Sum_probs=34.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      ++.|+++ |..|+||||++..|+..+...|.++..+|.|...
T Consensus         5 g~~i~l~-G~~GsGKST~~~~L~~~l~~~g~~~i~~d~~~~~   45 (179)
T 2pez_A            5 GCTVWLT-GLSGAGKTTVSMALEEYLVCHGIPCYTLDGDNIR   45 (179)
T ss_dssp             CEEEEEE-CCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHHT
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHHhhCCCcEEEECChHHH
Confidence            4577777 8899999999999999998889999989877544

>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=95.87  E-value=0.018  Score=53.46  Aligned_cols=66  Identities=14%  Similarity=0.143  Sum_probs=36.7

Q ss_pred             CCCcEEEEcCCCCCC-hHHH---------hhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTG-DIQL---------TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~-~~~~---------~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.++++|||+ .. ....         ....+..+|.+++|+.....+- ......+.+...+.+++ +|+|+++..
T Consensus        54 ~~~~i~~iDTpG-~~~~~~~~l~~~~~~~~~~~l~~~D~vl~Vvd~~~~~~-~~~~i~~~l~~~~~P~i-lvlNK~D~~  129 (301)
T 1ega_A           54 GAYQAIYVDTPG-LHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTRWTP-DDEMVLNKLREGKAPVI-LAVNKVDNV  129 (301)
T ss_dssp             TTEEEEEESSSS-CCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEETTCCCH-HHHHHHHHHHSSSSCEE-EEEESTTTC
T ss_pred             CCeeEEEEECcC-CCccchhhHHHHHHHHHHHHHhcCCEEEEEEeCCCCCH-HHHHHHHHHHhcCCCEE-EEEECcccC
Confidence            455788889874 33 1110         0111234577777776644322 23355566666667765 666998864

>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=95.87  E-value=0.011  Score=51.23  Aligned_cols=43  Identities=30%  Similarity=0.298  Sum_probs=36.0

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      ..+.+|+++ |..|+||||++..||..+...|..+..+|.|...
T Consensus        23 ~~g~~i~l~-G~sGsGKSTl~~~La~~l~~~G~~~~~~d~d~~~   65 (200)
T 3uie_A           23 QKGCVIWVT-GLSGSGKSTLACALNQMLYQKGKLCYILDGDNVR   65 (200)
T ss_dssp             SCCEEEEEE-CSTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHHT
T ss_pred             CCCeEEEEE-CCCCCCHHHHHHHHHHHHHhcCceEEEecCchhh
Confidence            345688887 9999999999999999998888877889987544

>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=95.78  E-value=0.08  Score=44.87  Aligned_cols=91  Identities=11%  Similarity=0.069  Sum_probs=52.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+...   +. .+-+|+|+++.......  
T Consensus        72 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~-piilv~nK~Dl~~~~~~--  148 (193)
T 2oil_A           72 AAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATI-VVMLVGNKSDLSQAREV--  148 (193)
T ss_dssp             EEEEEEEEEESCCCTTCTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTC-EEEEEEECGGGGGGCCS--
T ss_pred             EEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCC-eEEEEEECCCccccccc--
Confidence            35678999998643211122222446788888887654 3455555655555543   33 35588999986432111  


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                        .......+++..+++++.
T Consensus       149 --~~~~~~~~~~~~~~~~~~  166 (193)
T 2oil_A          149 --PTEEARMFAENNGLLFLE  166 (193)
T ss_dssp             --CHHHHHHHHHHTTCEEEE
T ss_pred             --CHHHHHHHHHHcCCEEEE
Confidence              113456667777776554

>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=95.78  E-value=0.0078  Score=54.31  Aligned_cols=42  Identities=24%  Similarity=0.265  Sum_probs=33.7

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHH-----CCCcEEEEEcCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAG-----MGARVGIFDADVYG  214 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~-----~G~rVllID~D~~~  214 (386)
                      .+.+|+|+ |..|+||||+|..|+..|..     .|++|.++|+|-..
T Consensus        21 ~~~iI~I~-G~~GSGKST~a~~L~~~lg~~~~d~~~~~~~~i~~D~~~   67 (252)
T 1uj2_A           21 EPFLIGVS-GGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDSFY   67 (252)
T ss_dssp             CCEEEEEE-CSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGGGB
T ss_pred             CcEEEEEE-CCCCCCHHHHHHHHHHHhhhhcccccCCceEEEecCccc
Confidence            34578887 89999999999999987753     36789999998644

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=95.77  E-value=0.02  Score=58.40  Aligned_cols=86  Identities=12%  Similarity=0.061  Sum_probs=50.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGR  358 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~  358 (386)
                      ..|.+-|+|||+-..........+..+|.+++|+......-......+..+...+++++ +|+|+++......      .
T Consensus        69 ~~~~l~liDTPGh~dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~~~ipiI-vViNKiDl~~a~~------~  141 (599)
T 3cb4_D           69 ETYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAMEMDLEVV-PVLNKIDLPAADP------E  141 (599)
T ss_dssp             CEEEEEEEECCCCGGGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHHTTCEEE-EEEECTTSTTCCH------H
T ss_pred             CeEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCEE-EeeeccCcccccH------H
Confidence            35788999998533222222223445799999988755322334444445556678754 7889998654211      1


Q ss_pred             ChHHHHHHHhCCC
Q 016622          359 GSGSQVVQQFGIP  371 (386)
Q Consensus       359 ~~~~~i~~~~g~p  371 (386)
                      ...+++.+.++.+
T Consensus       142 ~v~~ei~~~lg~~  154 (599)
T 3cb4_D          142 RVAEEIEDIVGID  154 (599)
T ss_dssp             HHHHHHHHHTCCC
T ss_pred             HHHHHHHHHhCCC
Confidence            2345666666653

>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=95.77  E-value=0.17  Score=42.90  Aligned_cols=81  Identities=12%  Similarity=0.161  Sum_probs=47.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      +.+.+.++|+|+...........+..+|.+++|...... ++..+...+..+.+    .+.+ +-+|.||++....    
T Consensus        65 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~NK~Dl~~~----  139 (190)
T 1m2o_B           65 GNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVP-FVILGNKIDAPNA----  139 (190)
T ss_dssp             TTEEEEEEECCCSGGGTTSGGGGCTTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCC-EEEEEECTTSTTC----
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCChHHHHHHHHHHHHHHcchhhcCCC-EEEEEECCCCcCC----
Confidence            346789999986322111111223457899998887554 56666666555433    3455 4588999986431    


Q ss_pred             cccCCChHHHHHHHhC
Q 016622          354 YPFGRGSGSQVVQQFG  369 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g  369 (386)
                           ...+++.+.++
T Consensus       140 -----~~~~~~~~~~~  150 (190)
T 1m2o_B          140 -----VSEAELRSALG  150 (190)
T ss_dssp             -----CCHHHHHHHTT
T ss_pred             -----CCHHHHHHHhC
Confidence                 23455666654

>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=95.76  E-value=0.17  Score=42.73  Aligned_cols=94  Identities=14%  Similarity=0.113  Sum_probs=52.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHH-HHHHHHHcC--CCCeEEEEEcCCcCCCCCce--
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVA-KGVRMFSKL--KVPCIAVVENMCHFDADGKR--  352 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~-~~~~~l~~~--~~~i~gvVlN~~~~~~~~~~--  352 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+. ..+..+.+.  +.++ -+|.|+++.......  
T Consensus        64 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl~~~~~~~~  142 (194)
T 2atx_A           64 KQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPF-LLIGTQIDLRDDPKTLA  142 (194)
T ss_dssp             CEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCE-EEEEECTTSTTCHHHHH
T ss_pred             EEEEEEEEECCCCcchhHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCE-EEEEEChhhcccccchh
Confidence            34678899998643211222222445799999887654 3455655 455555543  5554 488999986432100  


Q ss_pred             ------ecccCCChHHHHHHHhCC-CeE
Q 016622          353 ------YYPFGRGSGSQVVQQFGI-PHL  373 (386)
Q Consensus       353 ------~~~~~~~~~~~i~~~~g~-pvl  373 (386)
                            ..........++++.++. +++
T Consensus       143 ~~~~~~~~~v~~~~~~~~~~~~~~~~~~  170 (194)
T 2atx_A          143 RLNDMKEKPICVEQGQKLAKEIGACCYV  170 (194)
T ss_dssp             HHTTTTCCCCCHHHHHHHHHHHTCSCEE
T ss_pred             hcccccCcccCHHHHHHHHHHcCCcEEE
Confidence                  001112345667777776 554

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=95.76  E-value=0.011  Score=51.88  Aligned_cols=38  Identities=13%  Similarity=0.151  Sum_probs=33.6

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+++++ |..|+||||++..++..++..|.+|++++.+.
T Consensus        24 ~~~~i~-G~~GsGKTtl~~~l~~~~~~~~~~v~~~~~~~   61 (235)
T 2w0m_A           24 FFIALT-GEPGTGKTIFSLHFIAKGLRDGDPCIYVTTEE   61 (235)
T ss_dssp             CEEEEE-CSTTSSHHHHHHHHHHHHHHHTCCEEEEESSS
T ss_pred             CEEEEE-cCCCCCHHHHHHHHHHHHHHCCCeEEEEEccc
Confidence            477776 88999999999999998888888999999876

>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=95.74  E-value=0.074  Score=48.59  Aligned_cols=87  Identities=10%  Similarity=0.054  Sum_probs=51.2

Q ss_pred             CCcEEEEcCCCCCChH------HHhhhhh--cCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCc
Q 016622          280 ELDYLVIDMPPGTGDI------QLTLCQV--VPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGK  351 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~------~~~~~~~--~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~  351 (386)
                      .+.+.|+|||+.....      .+....+  ..+|.+++|.....  ..........+.+.+.+++ +|+||++......
T Consensus        48 ~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~vi~V~D~t~--~e~~~~~~~~l~~~~~p~i-lv~NK~Dl~~~~~  124 (272)
T 3b1v_A           48 NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQRADSILNVVDATN--LERNLYLTTQLIETGIPVT-IALNMIDVLDGQG  124 (272)
T ss_dssp             CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTTCCSEEEEEEEGGG--HHHHHHHHHHHHHTCSCEE-EEEECHHHHHHTT
T ss_pred             CCeEEEEECCCcCccCCCChHHHHHHHHHhcCCCCEEEEEecCCc--hHhHHHHHHHHHhcCCCEE-EEEEChhhCCcCC
Confidence            4578999998643210      1111112  24788888877654  3334445555666677755 8889988532110


Q ss_pred             eecccCCChHHHHHHHhCCCeEE
Q 016622          352 RYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       352 ~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                          . ....+.+++.+|+|++.
T Consensus       125 ----~-~~~~~~l~~~lg~~vi~  142 (272)
T 3b1v_A          125 ----K-KINVDKLSYHLGVPVVA  142 (272)
T ss_dssp             ----C-CCCHHHHHHHHTSCEEE
T ss_pred             ----c-HHHHHHHHHHcCCCEEE
Confidence                0 12467888888887754

>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=95.73  E-value=0.033  Score=53.90  Aligned_cols=67  Identities=13%  Similarity=0.102  Sum_probs=47.6

Q ss_pred             CcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcch-HHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          281 LDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLA-FIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       281 yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s-~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +.+.|+|||+-..........+..+|.+++|+...... ...+.+.+..++..+.+.+-+|+||++..
T Consensus        75 ~~~~iiDtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~  142 (403)
T 3sjy_A           75 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDVV  142 (403)
T ss_dssp             EEEEEEECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGS
T ss_pred             ceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcCCCCEEEEEECcccc
Confidence            67999999863322223333355689999999887753 66777777777777775566899999864

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.73  E-value=0.041  Score=46.66  Aligned_cols=68  Identities=9%  Similarity=0.020  Sum_probs=36.4

Q ss_pred             CCcEEEEcCCCCCC---hHHHhhh-hhcCCCeEEEEeCCC--cchHHHHHHHHHHH-Hc------CCCCeEEEEEcCCcC
Q 016622          280 ELDYLVIDMPPGTG---DIQLTLC-QVVPLTAAVIVTTPQ--KLAFIDVAKGVRMF-SK------LKVPCIAVVENMCHF  346 (386)
Q Consensus       280 ~yD~VIIDtpp~~~---~~~~~~~-~~~~~d~vviV~~~~--~~s~~~~~~~~~~l-~~------~~~~i~gvVlN~~~~  346 (386)
                      .+.+.|+|+|+...   .....+. ....+|.+++|....  ..++..+...+..+ ..      .+.++ -+|+|+++.
T Consensus        90 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl  168 (193)
T 2ged_A           90 GSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDI-LIACNKSEL  168 (193)
T ss_dssp             CTTCSEEEETTCCBSSCCHHHHHHHHGGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCE-EEEEECTTS
T ss_pred             CCeEEEEECCCCchHHHHHHHHHHhhcccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCE-EEEEEchHh
Confidence            56788899985321   1111111 111258888888775  33444444433322 11      24554 488899986


Q ss_pred             CC
Q 016622          347 DA  348 (386)
Q Consensus       347 ~~  348 (386)
                      ..
T Consensus       169 ~~  170 (193)
T 2ged_A          169 FT  170 (193)
T ss_dssp             TT
T ss_pred             cC
Confidence            44

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.72  E-value=0.011  Score=55.32  Aligned_cols=38  Identities=18%  Similarity=0.358  Sum_probs=33.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      ..+.++ +.+|+||||++.++|..++.+|.+|+++.+..
T Consensus        69 ~l~li~-G~pG~GKTtl~l~ia~~~a~~g~~vl~~slE~  106 (315)
T 3bh0_A           69 NFVLIA-ARPSMGKTAFALKQAKNMSDNDDVVNLHSLEM  106 (315)
T ss_dssp             CEEEEE-CCTTSSHHHHHHHHHHHHHTTTCEEEEEESSS
T ss_pred             cEEEEE-eCCCCCHHHHHHHHHHHHHHcCCeEEEEECCC
Confidence            345554 99999999999999999999999999999885

>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=95.69  E-value=0.055  Score=51.45  Aligned_cols=68  Identities=16%  Similarity=0.098  Sum_probs=41.3

Q ss_pred             CCcEEEEcCCCCCCh-------------HHHhhhhhcCCCeEEEEeCCCc--chHHHHHHHHHHHHcCCCCeEEEEEcCC
Q 016622          280 ELDYLVIDMPPGTGD-------------IQLTLCQVVPLTAAVIVTTPQK--LAFIDVAKGVRMFSKLKVPCIAVVENMC  344 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~-------------~~~~~~~~~~~d~vviV~~~~~--~s~~~~~~~~~~l~~~~~~i~gvVlN~~  344 (386)
                      ..++.|+|||+-...             ..+....+..+|.+++|+.+..  ....+..+.++.+...+.+++ +|+||+
T Consensus       135 ~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~~~~~~l~~~~~~~~~~~i-~V~nK~  213 (360)
T 3t34_A          135 VVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLATSDAIKISREVDPSGDRTF-GVLTKI  213 (360)
T ss_dssp             SCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGGCHHHHHHHHSCTTCTTEE-EEEECG
T ss_pred             CCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCCHHHHHHHHHhcccCCCEE-EEEeCC
Confidence            568999999963221             2222233446788888776532  222445556666666677766 667998


Q ss_pred             cCCC
Q 016622          345 HFDA  348 (386)
Q Consensus       345 ~~~~  348 (386)
                      +...
T Consensus       214 Dl~~  217 (360)
T 3t34_A          214 DLMD  217 (360)
T ss_dssp             GGCC
T ss_pred             ccCC
Confidence            8643

>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=95.68  E-value=0.011  Score=51.68  Aligned_cols=35  Identities=23%  Similarity=0.246  Sum_probs=30.2

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+++++ |.+|+||||++.++|.   ..|.+|++++.+.
T Consensus        21 ~~~~i~-G~~GsGKTtl~~~l~~---~~~~~v~~i~~~~   55 (220)
T 2cvh_A           21 VLTQVY-GPYASGKTTLALQTGL---LSGKKVAYVDTEG   55 (220)
T ss_dssp             SEEEEE-CSTTSSHHHHHHHHHH---HHCSEEEEEESSC
T ss_pred             EEEEEE-CCCCCCHHHHHHHHHH---HcCCcEEEEECCC
Confidence            466666 9999999999999998   5688999999876

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.64  E-value=0.0072  Score=51.44  Aligned_cols=41  Identities=22%  Similarity=0.331  Sum_probs=32.7

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      |+++++|++ ..|+||||++..|+..+...|+++..|..|..
T Consensus         1 m~~~v~IvG-~SGsGKSTL~~~L~~~~~~~g~~~G~I~~dg~   41 (171)
T 2f1r_A            1 MSLILSIVG-TSDSGKTTLITRMMPILRERGLRVAVVKRHAH   41 (171)
T ss_dssp             --CEEEEEE-SCHHHHHHHHHHHHHHHHHTTCCEEEEEC---
T ss_pred             CceEEEEEC-CCCCCHHHHHHHHHHHhhhcCCceEEEEEcCc
Confidence            457899995 88999999999999999999988888877753

>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=95.62  E-value=0.049  Score=46.17  Aligned_cols=69  Identities=14%  Similarity=0.144  Sum_probs=42.7

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc------CCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK------LKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~------~~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+.+      .+.++ -+|+|+++...
T Consensus        65 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl~~  140 (190)
T 2h57_A           65 SSLSFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPI-LFFANKMDLRD  140 (190)
T ss_dssp             SSCEEEEEEECCSTTTGGGGGGGGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCE-EEEEECTTSTT
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeE-EEEEeCcCccc
Confidence            35789999998643322222223446799999988765 346666555554433      24554 48899998643

>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=95.60  E-value=0.042  Score=49.43  Aligned_cols=21  Identities=24%  Similarity=0.286  Sum_probs=17.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHH
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLA  195 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA  195 (386)
                      ..|+|+ |..|+||||+.-.|.
T Consensus        23 ~~I~lv-G~~g~GKStl~n~l~   43 (260)
T 2xtp_A           23 LRIILV-GKTGTGKSAAGNSIL   43 (260)
T ss_dssp             EEEEEE-ECTTSCHHHHHHHHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHh
Confidence            467777 899999999987764

>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=95.57  E-value=0.24  Score=41.47  Aligned_cols=69  Identities=6%  Similarity=-0.011  Sum_probs=41.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~  348 (386)
                      +.+.+.|+|||+...........+..+|.+++|..... .++..+...+..+.+    .+.+ +-+|.||++...
T Consensus        60 ~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~  133 (186)
T 1ksh_A           60 RGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGAT-LLIFANKQDLPG  133 (186)
T ss_dssp             TTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCE-EEEEEECTTSTT
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCCCc-EEEEEeCccCCC
Confidence            35678999998532111111122345789999888654 456666665555433    2444 558899998643

>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=95.53  E-value=0.051  Score=50.29  Aligned_cols=68  Identities=15%  Similarity=0.098  Sum_probs=40.2

Q ss_pred             CCcEEEEcCCCCCC-------------hHHHhhhhhcCCCeEEEEeCCC-cc-hHHHHHHHHHHHHcCCCCeEEEEEcCC
Q 016622          280 ELDYLVIDMPPGTG-------------DIQLTLCQVVPLTAAVIVTTPQ-KL-AFIDVAKGVRMFSKLKVPCIAVVENMC  344 (386)
Q Consensus       280 ~yD~VIIDtpp~~~-------------~~~~~~~~~~~~d~vviV~~~~-~~-s~~~~~~~~~~l~~~~~~i~gvVlN~~  344 (386)
                      .++++|+|||+...             ........+..+|.+++|+.+. .. .-.+.....+.+...+.+++ +|+||+
T Consensus       130 ~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~~~~~~~~i-~v~NK~  208 (315)
T 1jwy_B          130 VVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDPEGKRTI-GVITKL  208 (315)
T ss_dssp             SCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCSSCSSEE-EEEECT
T ss_pred             CCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHhCCCCCcEE-EEEcCc
Confidence            47899999996432             0111122244678888877652 21 11223456677777777765 677999


Q ss_pred             cCCC
Q 016622          345 HFDA  348 (386)
Q Consensus       345 ~~~~  348 (386)
                      +...
T Consensus       209 Dl~~  212 (315)
T 1jwy_B          209 DLMD  212 (315)
T ss_dssp             TSSC
T ss_pred             ccCC
Confidence            8643

>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=95.52  E-value=0.087  Score=46.73  Aligned_cols=94  Identities=15%  Similarity=0.125  Sum_probs=44.1

Q ss_pred             CCCcEEEEcCCCCCCh--------HHHhhh---hhcCCCeEEEEeCCCcchHH---HHHHHHHHHHc-CCCCeEEEEEcC
Q 016622          279 GELDYLVIDMPPGTGD--------IQLTLC---QVVPLTAAVIVTTPQKLAFI---DVAKGVRMFSK-LKVPCIAVVENM  343 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~--------~~~~~~---~~~~~d~vviV~~~~~~s~~---~~~~~~~~l~~-~~~~i~gvVlN~  343 (386)
                      ....+.|+|||+-...        ..+...   ....+|.+++|...+.....   .+....+.+.. ...+ +-+|+|+
T Consensus        76 ~~~~i~liDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~l~~~~~~~~~~~~~~-~iiv~nK  154 (239)
T 3lxx_A           76 KETELVVVDTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPLGRYTEEEHKATEKILKMFGERARSF-MILIFTR  154 (239)
T ss_dssp             TTEEEEEEECCSCC-----CHHHHHHHHHHHHHTTTCCSEEEEEEETTCCSSHHHHHHHHHHHHHHHHHGGG-EEEEEEC
T ss_pred             CCceEEEEECCCccCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEeeCCCCCHHHHHHHHHHHHHhhhhccce-EEEEEeC
Confidence            3457889999863211        011111   11135888888875443222   22223333322 2223 5588899


Q ss_pred             CcCCCCCce--ecccCCChHHHHHHHhCCCeE
Q 016622          344 CHFDADGKR--YYPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       344 ~~~~~~~~~--~~~~~~~~~~~i~~~~g~pvl  373 (386)
                      ++.......  +.......++++.+.+|..+.
T Consensus       155 ~D~~~~~~~~~~i~~~~~~l~~l~~~~~~~~~  186 (239)
T 3lxx_A          155 KDDLGDTNLHDYLREAPEDIQDLMDIFGDRYC  186 (239)
T ss_dssp             GGGC------------CHHHHHHHHHHSSSEE
T ss_pred             CccCCcccHHHHHHhchHHHHHHHHHcCCEEE
Confidence            886432111  100111256778888887654

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=95.50  E-value=0.017  Score=49.83  Aligned_cols=37  Identities=22%  Similarity=0.120  Sum_probs=32.1

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +.+.++ |..|+||||++..++..+...|.+++.+++.
T Consensus        55 ~~~~l~-G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~   91 (202)
T 2w58_A           55 KGLYLH-GSFGVGKTYLLAAIANELAKRNVSSLIVYVP   91 (202)
T ss_dssp             CEEEEE-CSTTSSHHHHHHHHHHHHHTTTCCEEEEEHH
T ss_pred             CeEEEE-CCCCCCHHHHHHHHHHHHHHcCCeEEEEEhH
Confidence            356666 8899999999999999999989999998764

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.50  E-value=0.013  Score=51.19  Aligned_cols=41  Identities=24%  Similarity=0.186  Sum_probs=34.8

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVY  213 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~~  213 (386)
                      .+++|.+. |..|+||||++..|+..+. ..|.++..+|.|..
T Consensus        24 ~~~~i~~~-G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~~d~~   65 (211)
T 1m7g_A           24 RGLTIWLT-GLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNI   65 (211)
T ss_dssp             SCEEEEEE-CSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHH
T ss_pred             CCCEEEEE-CCCCCCHHHHHHHHHHHhccccCCcEEEECChHH
Confidence            34677777 8899999999999999998 78999999987653

>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=95.50  E-value=0.093  Score=44.05  Aligned_cols=69  Identities=7%  Similarity=-0.019  Sum_probs=42.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+.+    .+.+ +-+|.||++...
T Consensus        63 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~NK~Dl~~  136 (181)
T 2h17_A           63 NNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAG-LLIFANKQDVKE  136 (181)
T ss_dssp             TTEEEEEEEESSSGGGTCGGGGGGTTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCE-EEEEEECTTSTT
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCe-EEEEEECCCccc
Confidence            34778999998642211111222446799999988655 356666665555433    3444 558899998643

>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=95.50  E-value=0.02  Score=56.13  Aligned_cols=67  Identities=13%  Similarity=0.059  Sum_probs=38.0

Q ss_pred             CCCcEEEEcCCCCCCh---------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcC
Q 016622          279 GELDYLVIDMPPGTGD---------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHF  346 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~---------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~  346 (386)
                      ....+.|+|||+-...         .......+..+|.+++|+.....--..-....+++++.+.+++ +|.||++.
T Consensus        47 ~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~~ad~il~V~D~~~~~~~~d~~i~~~l~~~~~p~i-lv~NK~D~  122 (439)
T 1mky_A           47 YGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRKSTVDTI-LVANKAEN  122 (439)
T ss_dssp             TTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTTCCCHHHHHHHHHHHHHTCCEE-EEEESCCS
T ss_pred             CCeEEEEEECCCccccccchHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEE-EEEeCCCC
Confidence            3446788999863211         0112223456788888887643211111344556666667755 78899874

>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=95.49  E-value=0.29  Score=41.07  Aligned_cols=69  Identities=10%  Similarity=0.031  Sum_probs=41.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHH-Hc---CCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMF-SK---LKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l-~~---~~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.++|+|+...........+..+|.+++|..... .++..+...+..+ +.   .+.+ +-+|.|+++...
T Consensus        58 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~NK~Dl~~  131 (181)
T 1fzq_A           58 QGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVP-VLIFANKQDLLT  131 (181)
T ss_dssp             TTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCC-EEEEEECTTSTT
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhhcCCC-EEEEEECcCccc
Confidence            35678999998533221222222456799999887654 4566665555443 32   2455 458899998643

>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=95.47  E-value=0.076  Score=54.15  Aligned_cols=67  Identities=12%  Similarity=0.062  Sum_probs=44.0

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      .+.+.|+|||+-..-.......+..+|.+++|+.....-...+...++.++..+++++ +++|+++..
T Consensus        69 ~~~i~liDTPGhe~F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~l~~~~vPiI-VViNKiDl~  135 (594)
T 1g7s_A           69 LPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYRTPFV-VAANKIDRI  135 (594)
T ss_dssp             CCEEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHTTCCEE-EEEECGGGS
T ss_pred             cCCEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHHHHHcCCeEE-EEecccccc
Confidence            3469999999632211111122345799999988776333455666677777888855 888999864

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.44  E-value=0.017  Score=54.64  Aligned_cols=38  Identities=16%  Similarity=0.399  Sum_probs=33.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      .+.+ .+.+|+||||++.++|..++..|.+|+++.+...
T Consensus        48 LiiI-aG~pG~GKTt~al~ia~~~a~~g~~Vl~fSlEms   85 (338)
T 4a1f_A           48 LVII-GARPSMGKTSLMMNMVLSALNDDRGVAVFSLEMS   85 (338)
T ss_dssp             EEEE-EECTTSCHHHHHHHHHHHHHHTTCEEEEEESSSC
T ss_pred             EEEE-EeCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCCC
Confidence            5555 5999999999999999999999999999998764

>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=95.43  E-value=0.056  Score=45.98  Aligned_cols=92  Identities=12%  Similarity=0.117  Sum_probs=52.1

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHH-HHHHHHHHcC--CCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDV-AKGVRMFSKL--KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~-~~~~~~l~~~--~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+.|+|+|+.-.........+..+|.+++|..... .++..+ ...+..++..  +.+ +-+|.|+++.......  
T Consensus        69 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ilv~nK~Dl~~~~~~--  145 (194)
T 3reg_A           69 EEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAK-TVLVGLKVDLRKDGSD--  145 (194)
T ss_dssp             EEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSE-EEEEEECGGGCCTTTT--
T ss_pred             EEEEEEEEECCCcHHHHHHhHhhccCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEEChhhccCCCC--
Confidence            35667999998632211122222445789998877654 345554 3444455443  344 4588899986532111  


Q ss_pred             ccCCChHHHHHHHhCCC-eE
Q 016622          355 PFGRGSGSQVVQQFGIP-HL  373 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~p-vl  373 (386)
                      ........++++.++.+ ++
T Consensus       146 ~~~~~~~~~~~~~~~~~~~~  165 (194)
T 3reg_A          146 DVTKQEGDDLCQKLGCVAYI  165 (194)
T ss_dssp             CCCHHHHHHHHHHHTCSCEE
T ss_pred             cccHHHHHHHHHhcCCCEEE
Confidence            11224567788888877 44

>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=95.43  E-value=0.041  Score=47.29  Aligned_cols=90  Identities=11%  Similarity=0.010  Sum_probs=50.2

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc---CCCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK---LKVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~---~~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+..   .+.+ +-+|.|+++.......   
T Consensus        73 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~v---  148 (200)
T 2o52_A           73 TVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIV-VILCGNKKDLDPEREV---  148 (200)
T ss_dssp             EEEEEEECCTTHHHHSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCE-EEEEEECGGGGGGCCS---
T ss_pred             eeEEEEEcCCCcHhHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECCCccccccc---
Confidence            4678999998621100011112445789999887654 345555555554433   2444 5588999986432111   


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       ......++++..+++++.
T Consensus       149 -~~~~~~~~~~~~~~~~~~  166 (200)
T 2o52_A          149 -TFLEASRFAQENELMFLE  166 (200)
T ss_dssp             -CHHHHHHHHHHTTCEEEE
T ss_pred             -CHHHHHHHHHHcCCEEEE
Confidence             112455667777776654

>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=95.41  E-value=0.23  Score=42.17  Aligned_cols=82  Identities=11%  Similarity=0.067  Sum_probs=47.0

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+.+.    +.+ +-+|.|+++....    
T Consensus        71 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~p-iilv~NK~Dl~~~----  145 (192)
T 2b6h_A           71 KNICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAV-LLVFANKQDMPNA----  145 (192)
T ss_dssp             TTEEEEEEECC-----CTTHHHHHHTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCE-EEEEEECTTSTTC----
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCCe-EEEEEECCCCCCC----
Confidence            45789999998642211111122446799999887654 4566666665554332    444 5588999986432    


Q ss_pred             cccCCChHHHHHHHhCC
Q 016622          354 YPFGRGSGSQVVQQFGI  370 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~  370 (386)
                           ...+++.+.++.
T Consensus       146 -----~~~~~i~~~~~~  157 (192)
T 2b6h_A          146 -----MPVSELTDKLGL  157 (192)
T ss_dssp             -----CCHHHHHHHTTG
T ss_pred             -----CCHHHHHHHhCc
Confidence                 224666666654

>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=95.41  E-value=0.13  Score=43.86  Aligned_cols=68  Identities=13%  Similarity=-0.010  Sum_probs=39.9

Q ss_pred             CCCcEEEEcCCCCCChHHHh---hhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHc-----CCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLT---LCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSK-----LKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~---~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~-----~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|+|+........   ...+..+|.+++|...............+++.+     .+.+ +-+|.||++..
T Consensus        67 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~~~p-iilv~nK~Dl~  142 (196)
T 3llu_A           67 SFVNFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMN-FEVFIHKVDGL  142 (196)
T ss_dssp             TSCCEEEEECCSSCCTTCTTCCHHHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHCTTCE-EEEEEECGGGS
T ss_pred             CeeEEEEEECCCCHHHHhhhhhcccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcCCCCc-EEEEEeccccC
Confidence            56789999998643211111   122446799999988776433333443344332     2444 45888998853

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=95.37  E-value=0.021  Score=54.46  Aligned_cols=38  Identities=26%  Similarity=0.353  Sum_probs=33.7

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .++.|+ |-.|+||||++.+++..++..|.+|++||...
T Consensus        62 ~i~~I~-GppGsGKSTLal~la~~~~~~gg~VlyId~E~   99 (356)
T 3hr8_A           62 RIVEIF-GQESSGKTTLALHAIAEAQKMGGVAAFIDAEH   99 (356)
T ss_dssp             EEEEEE-ESTTSSHHHHHHHHHHHHHHTTCCEEEEESSC
T ss_pred             cEEEEE-CCCCCCHHHHHHHHHHHHHhcCCeEEEEeccc
Confidence            567776 67999999999999999999999999999874

>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=95.37  E-value=0.064  Score=45.44  Aligned_cols=41  Identities=15%  Similarity=0.140  Sum_probs=26.1

Q ss_pred             CeEEEEeCCCcc-hHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          306 TAAVIVTTPQKL-AFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       306 d~vviV~~~~~~-s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      |.+++|...... +..+ ....+++...+.+++ +|+|+++...
T Consensus       107 ~~~i~v~d~~~~~~~~~-~~~~~~~~~~~~p~i-~v~nK~Dl~~  148 (195)
T 1svi_A          107 KAVVQIVDLRHAPSNDD-VQMYEFLKYYGIPVI-VIATKADKIP  148 (195)
T ss_dssp             EEEEEEEETTSCCCHHH-HHHHHHHHHTTCCEE-EEEECGGGSC
T ss_pred             CEEEEEEECCCCCCHHH-HHHHHHHHHcCCCEE-EEEECcccCC
Confidence            778888775542 3322 345566666677755 8889988643

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.37  E-value=0.01  Score=51.32  Aligned_cols=39  Identities=23%  Similarity=0.379  Sum_probs=29.6

Q ss_pred             ccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          169 LQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       169 ~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      +..++++|+++ |-.|+||||++..|+..+   |  ..++|.|..
T Consensus        14 m~~~~~~I~l~-G~~GsGKSTla~~L~~~l---g--~~~i~~d~~   52 (202)
T 3t61_A           14 VRRFPGSIVVM-GVSGSGKSSVGEAIAEAC---G--YPFIEGDAL   52 (202)
T ss_dssp             -CCCSSCEEEE-CSTTSCHHHHHHHHHHHH---T--CCEEEGGGG
T ss_pred             cCCCCeEEEEE-CCCCCCHHHHHHHHHHHh---C--CEEEeCCcC
Confidence            44566788887 899999999999999887   4  346777753

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.37  E-value=0.014  Score=57.39  Aligned_cols=39  Identities=13%  Similarity=0.222  Sum_probs=33.8

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      +.+.++.+|+||||++.++|..++.+|.+|+++.+....
T Consensus       199 liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fSlEms~  237 (444)
T 3bgw_A          199 FVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLEMGK  237 (444)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEECSSSCT
T ss_pred             EEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEECCCCH
Confidence            444459999999999999999999889999999988644

>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=95.36  E-value=0.11  Score=45.18  Aligned_cols=95  Identities=9%  Similarity=0.032  Sum_probs=53.7

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHH-HHHHHHHHHcC--CCCeEEEEEcCCcCCCCCc---
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFID-VAKGVRMFSKL--KVPCIAVVENMCHFDADGK---  351 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~-~~~~~~~l~~~--~~~i~gvVlN~~~~~~~~~---  351 (386)
                      ..+.+.|+|+++......+....+..+|.+++|..... .++.. ....+..+.+.  +.+ +-+|.|+++......   
T Consensus        73 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~Dl~~~~~~~~  151 (214)
T 3q3j_B           73 QRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTR-VLLIGCKTDLRTDLSTLM  151 (214)
T ss_dssp             CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHHCTTSE-EEEEEECGGGGGCHHHHH
T ss_pred             EEEEEEEEECCCCHhHHHHHHHHcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEEChhhccchhhhh
Confidence            45778999998632211122222445799999887654 45555 45555656543  444 458889998643100   


Q ss_pred             -----eecccCCChHHHHHHHhCC-CeEE
Q 016622          352 -----RYYPFGRGSGSQVVQQFGI-PHLF  374 (386)
Q Consensus       352 -----~~~~~~~~~~~~i~~~~g~-pvl~  374 (386)
                           ............+++.+++ +++.
T Consensus       152 ~~~~~~~~~v~~~~~~~~~~~~~~~~~~e  180 (214)
T 3q3j_B          152 ELSHQKQAPISYEQGCAIAKQLGAEIYLE  180 (214)
T ss_dssp             HHHHTTCCCCCHHHHHHHHHHHTCSEEEE
T ss_pred             hhcccccCccCHHHHHHHHHHcCCCEEEE
Confidence                 0001122356778888887 5543

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=95.32  E-value=0.013  Score=49.63  Aligned_cols=36  Identities=28%  Similarity=0.309  Sum_probs=30.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEc
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDA  210 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~  210 (386)
                      +.+.++ |..|+||||++..++..+. ..|.++..+++
T Consensus        39 ~~~~l~-G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~   75 (180)
T 3ec2_A           39 KGLTFV-GSPGVGKTHLAVATLKAIYEKKGIRGYFFDT   75 (180)
T ss_dssp             CEEEEC-CSSSSSHHHHHHHHHHHHHHHSCCCCCEEEH
T ss_pred             CEEEEE-CCCCCCHHHHHHHHHHHHHHHcCCeEEEEEH
Confidence            467776 8999999999999999998 78888877654

>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=95.28  E-value=0.22  Score=43.64  Aligned_cols=91  Identities=14%  Similarity=0.080  Sum_probs=54.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+-|+||++.-....+.-.-...++.+++|...+ ..++..+...+..+.+.   +++ +-+|.|+++......   
T Consensus        60 ~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~p-iilVgNK~Dl~~~r~---  135 (216)
T 4dkx_A           60 RTIRLQLWDTAGLERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVI-IMLVGNKTDLADKRQ---  135 (216)
T ss_dssp             CEEEEEEECCSCTTTCGGGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSE-EEEEEECTTCGGGCC---
T ss_pred             eEEEEEEEECCCchhhhhHHHHHhccccEEEEEeecchhHHHHHHHHHHHHHHHhcCCCCe-EEEEeeccchHhcCc---
Confidence            4567889999864322222222244578888876544 45677777666666442   333 558889988643221   


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                       .....++++++.+|++++.
T Consensus       136 -V~~~e~~~~a~~~~~~~~e  154 (216)
T 4dkx_A          136 -VSIEEGERKAKELNVMFIE  154 (216)
T ss_dssp             -SCHHHHHHHHHHHTCEEEE
T ss_pred             -ccHHHHhhHHHHhCCeeEE
Confidence             1224567888888887653

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.26  E-value=0.025  Score=48.15  Aligned_cols=34  Identities=29%  Similarity=0.345  Sum_probs=28.8

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      +|+++ |-.|+||||++..|+..+...|..++-.|
T Consensus         2 ~I~l~-G~~GsGKsT~~~~L~~~l~~~g~~~i~~d   35 (195)
T 2pbr_A            2 LIAFE-GIDGSGKTTQAKKLYEYLKQKGYFVSLYR   35 (195)
T ss_dssp             EEEEE-CSTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            56776 88999999999999999988898876554

>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=95.25  E-value=0.16  Score=44.32  Aligned_cols=89  Identities=15%  Similarity=0.130  Sum_probs=47.6

Q ss_pred             CCcEEEEcCCCCCC-hHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCcee
Q 016622          280 ELDYLVIDMPPGTG-DIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       280 ~yD~VIIDtpp~~~-~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      .+.++++|+++..+ ...+.......+|.+++|..- +..++..+......+.+.    +.++ -+|.||++....... 
T Consensus        86 ~~~l~~~Dt~g~~~~~~~l~~~~~~~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~pi-ilVgNK~DL~~~r~v-  163 (211)
T 2g3y_A           86 SATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPI-ILVGNKSDLVRCREV-  163 (211)
T ss_dssp             EEEEEEECCTTTTHHHHHHHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCE-EEEEECTTCGGGCCS-
T ss_pred             eeEEEEeecCCCcchhhhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcE-EEEEEChHHhcCceE-
Confidence            45678889874322 111111112235777777554 445667666665555442    4554 488899986432111 


Q ss_pred             cccCCChHHHHHHHhCCCeE
Q 016622          354 YPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl  373 (386)
                         .....+.+++.++++++
T Consensus       164 ---~~~e~~~~a~~~~~~~~  180 (211)
T 2g3y_A          164 ---SVSEGRACAVVFDCKFI  180 (211)
T ss_dssp             ---CHHHHHHHHHHHTCEEE
T ss_pred             ---eHHHHHHHHHHcCCEEE
Confidence               11234456667776654

>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=95.23  E-value=0.038  Score=60.25  Aligned_cols=68  Identities=18%  Similarity=0.279  Sum_probs=46.3

Q ss_pred             CCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|||+ ..+. ......+..+|.+++|+.........+.+.+..+...+++.+-+++||++..
T Consensus       357 ~~~kI~IIDTPG-HedF~~~mi~gas~AD~aILVVDAtdGv~~QTrEhL~ll~~lgIP~IIVVINKiDLv  425 (1289)
T 3avx_A          357 PTRHYAHVDCPG-HADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNKCDMV  425 (1289)
T ss_dssp             SSCEEEEEECCC-HHHHHHHHHHTSCCCSEEEEEEETTTCSCTTHHHHHHHHHHHTCSCEEEEEECCTTC
T ss_pred             CCEEEEEEECCC-hHHHHHHHHHHHhhCCEEEEEEcCCccCcHHHHHHHHHHHHcCCCeEEEEEeecccc
Confidence            567899999985 3322 1222234457999999887664444556666677777888666889999864

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=95.23  E-value=0.49  Score=39.51  Aligned_cols=88  Identities=8%  Similarity=-0.027  Sum_probs=51.8

Q ss_pred             CCCcEEEEcCCCCCCh--------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCC
Q 016622          279 GELDYLVIDMPPGTGD--------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADG  350 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~--------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~  350 (386)
                      ..+.+.|+|||+....        ..........+|.+++|.....  .......+..+.+.+.+++ +|.|+++.....
T Consensus        52 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~--~~~~~~~~~~~~~~~~pii-lv~nK~Dl~~~~  128 (188)
T 2wjg_A           52 NGEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATA--LERNLYLTLQLMEMGANLL-LALNKMDLAKSL  128 (188)
T ss_dssp             TTEEEEEEECCCCSCCSSSSHHHHHHHHHHHHHCCSEEEEEEEGGG--HHHHHHHHHHHHTTTCCEE-EEEECHHHHHHT
T ss_pred             CCcEEEEEECCCcCccccccHHHHHHHHHHhccCCCEEEEEecchh--HHHHHHHHHHHHhcCCCEE-EEEEhhhccccc
Confidence            3467889999864321        1111111123688888877553  4555566666666677755 788998853211


Q ss_pred             ceecccCCChHHHHHHHhCCCeEE
Q 016622          351 KRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       351 ~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ..     ....+++++.++.+++.
T Consensus       129 ~~-----~~~~~~~~~~~~~~~~~  147 (188)
T 2wjg_A          129 GI-----EIDVDKLEKILGVKVVP  147 (188)
T ss_dssp             TC-----CCCHHHHHHHHTSCEEE
T ss_pred             cc-----hHHHHHHHHHhCCCeEE
Confidence            10     13467888888877653

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.23  E-value=0.02  Score=50.15  Aligned_cols=39  Identities=18%  Similarity=0.155  Sum_probs=32.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      ..+|+|+ |.+|+||||+..+|+..+... +++..|+.|+.
T Consensus        38 ~~~i~iv-G~~gvGKTtl~~~l~~~~~~~-~~~~~i~~d~~   76 (226)
T 2hf9_A           38 VVAFDFM-GAIGSGKTLLIEKLIDNLKDK-YKIACIAGDVI   76 (226)
T ss_dssp             CEEEEEE-ESTTSSHHHHHHHHHHHHTTT-CCEEEEEEETT
T ss_pred             CeEEEEE-cCCCCCHHHHHHHHHHHhccC-CeEEEEECCCC
Confidence            3577777 779999999999999887655 78999999875

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=95.15  E-value=0.076  Score=55.22  Aligned_cols=65  Identities=14%  Similarity=0.054  Sum_probs=40.7

Q ss_pred             CcEEEEcCCCCCCh----HHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          281 LDYLVIDMPPGTGD----IQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       281 yD~VIIDtpp~~~~----~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +++.|+|||+ ..+    .......+..+|.+++|+.++.. +..+.....+.+...+.+ +-+|+|+++..
T Consensus       174 ~~l~LiDTPG-l~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~~~~~~-iiiVlNK~Dl~  243 (695)
T 2j69_A          174 KGIEIVDSPG-LNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKGRGLT-VFFLVNAWDQV  243 (695)
T ss_dssp             TTEEEEECCC-HHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTTTSCCC-EEEEEECGGGG
T ss_pred             CCeEEEECCC-CCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHHhhCCC-EEEEEECcccc
Confidence            6899999985 322    12222234467999999887543 334443333456656666 55888998854

>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=95.12  E-value=0.11  Score=44.43  Aligned_cols=68  Identities=7%  Similarity=0.105  Sum_probs=40.1

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~  347 (386)
                      ..+++.++|||+...........+..+|.+++|..... .++..+...+..+.+    .+.++ -+|.||++..
T Consensus        67 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~pi-ilv~NK~Dl~  139 (198)
T 1f6b_A           67 AGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPI-LILGNKIDRP  139 (198)
T ss_dssp             TTEEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCE-EEEEECTTST
T ss_pred             CCEEEEEEECCCcHhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcE-EEEEECCCcc
Confidence            34678999998632211111122345799999887654 456666665555433    35554 5888999864

>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=95.10  E-value=0.016  Score=49.27  Aligned_cols=37  Identities=22%  Similarity=0.228  Sum_probs=30.1

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +.|.|+ |-.|+||||++..|+..+...|.+.-.+|.|
T Consensus         4 ~~I~i~-G~~GsGKsT~~~~L~~~l~~~g~~~~~i~~~   40 (192)
T 1kht_A            4 KVVVVT-GVPGVGSTTSSQLAMDNLRKEGVNYKMVSFG   40 (192)
T ss_dssp             CEEEEE-CCTTSCHHHHHHHHHHHHHTTTCCCEEEEHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHHhcCcceEEEehH
Confidence            466666 8899999999999999998888666667654

>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=95.07  E-value=0.12  Score=43.82  Aligned_cols=90  Identities=11%  Similarity=0.111  Sum_probs=52.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHc------CCCCeEEEEEcCCcCCCCCc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSK------LKVPCIAVVENMCHFDADGK  351 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~------~~~~i~gvVlN~~~~~~~~~  351 (386)
                      ..+.+.|+|+|+......+ ...+..+|.+++|...+ ..++..+...+..+.+      .+.++ -+|.|+++......
T Consensus        67 ~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~pi-ilv~nK~Dl~~~~~  144 (187)
T 3c5c_A           67 QPVHLRVMDTADLDTPRNC-ERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPA-LLLGNKLDMAQYRQ  144 (187)
T ss_dssp             EEEEEEEEECCC---CCCT-HHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCE-EEEEECGGGGGGCS
T ss_pred             EEEEEEEEECCCCCcchhH-HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCE-EEEEECcchhhcCc
Confidence            3567889999863211111 11244578888887765 3466666665555543      35554 48899998643211


Q ss_pred             eecccCCChHHHHHHHhCCCeEE
Q 016622          352 RYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       352 ~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                          .......++++.++++++.
T Consensus       145 ----v~~~~~~~~~~~~~~~~~e  163 (187)
T 3c5c_A          145 ----VTKAEGVALAGRFGCLFFE  163 (187)
T ss_dssp             ----SCHHHHHHHHHHHTCEEEE
T ss_pred             ----cCHHHHHHHHHHcCCcEEE
Confidence                1113467788888876654

>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=95.03  E-value=0.051  Score=47.17  Aligned_cols=22  Identities=14%  Similarity=0.194  Sum_probs=17.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHH
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAY  196 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~  196 (386)
                      ..|+|+ |..|+||||+...|..
T Consensus        13 ~~i~~~-G~~g~GKTsl~~~l~~   34 (218)
T 1nrj_B           13 PSIIIA-GPQNSGKTSLLTLLTT   34 (218)
T ss_dssp             CEEEEE-CSTTSSHHHHHHHHHH
T ss_pred             CEEEEE-CCCCCCHHHHHHHHhc
Confidence            467777 8999999999877653

>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=95.02  E-value=0.048  Score=45.65  Aligned_cols=68  Identities=12%  Similarity=0.035  Sum_probs=40.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHH-HHHHHHHcC--CCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVA-KGVRMFSKL--KVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~-~~~~~l~~~--~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+. ..+..+.+.  +.++ -+|.|+++..
T Consensus        51 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl~  122 (186)
T 1mh1_A           51 KPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTKLDLR  122 (186)
T ss_dssp             EEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCE-EEEEECHHHH
T ss_pred             EEEEEEEEECCCCHhHHHHHHHhccCCcEEEEEEECCChhhHHHHHHHHHHHHHHhCCCCCE-EEEeEccccc
Confidence            34678899998532211111122345789998888654 4555554 345555443  5554 4888998854

>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=95.00  E-value=0.065  Score=46.23  Aligned_cols=69  Identities=12%  Similarity=0.001  Sum_probs=41.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHH-HHHHHHHcC--CCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVA-KGVRMFSKL--KVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~-~~~~~l~~~--~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.|+|+|+.-.........+..+|.+++|..... .++..+. ..+..+.+.  +.++ -+|.|+++...
T Consensus        76 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl~~  148 (204)
T 4gzl_A           76 KPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTKLDLRD  148 (204)
T ss_dssp             CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCCE-EEEEECHHHHT
T ss_pred             EEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCE-EEEEechhhcc
Confidence            45677899998632211122222446799999887654 4555554 455555543  5554 48889988543

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.00  E-value=0.015  Score=49.44  Aligned_cols=35  Identities=23%  Similarity=0.206  Sum_probs=26.1

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +++.|.++ |-.|+||||++..||..+   |.  -++|.|.
T Consensus         4 ~~~~i~l~-G~~GsGKst~a~~La~~l---~~--~~i~~d~   38 (185)
T 3trf_A            4 NLTNIYLI-GLMGAGKTSVGSQLAKLT---KR--ILYDSDK   38 (185)
T ss_dssp             -CCEEEEE-CSTTSSHHHHHHHHHHHH---CC--CEEEHHH
T ss_pred             CCCEEEEE-CCCCCCHHHHHHHHHHHh---CC--CEEEChH
Confidence            35577777 779999999999999877   44  3566664

>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=95.00  E-value=0.18  Score=42.05  Aligned_cols=67  Identities=15%  Similarity=0.116  Sum_probs=38.6

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~  347 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+.+    .+.+ +-+|.|+++..
T Consensus        61 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~  132 (183)
T 1moz_A           61 NLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAA-LLVFANKQDQP  132 (183)
T ss_dssp             TEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCE-EEEEEECTTST
T ss_pred             CEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhCCCe-EEEEEECCCCC
Confidence            4678899998642211111122345688888887643 456666666555543    2344 55889999864

>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=94.98  E-value=0.049  Score=54.14  Aligned_cols=67  Identities=13%  Similarity=0.217  Sum_probs=46.1

Q ss_pred             CCCcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|||+ ..+. ......+..+|.+++|+...........+.+..++..++++ -+++|+++..
T Consensus        71 ~~~~i~iiDtPG-h~~~~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~~ip~-IvviNK~Dl~  138 (482)
T 1wb1_A           71 ENYRITLVDAPG-HADLIRAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHFNIPI-IVVITKSDNA  138 (482)
T ss_dssp             TTEEEEECCCSS-HHHHHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHHTTCCB-CEEEECTTSS
T ss_pred             CCEEEEEEECCC-hHHHHHHHHHHHhhCCEEEEEEecCCCccHHHHHHHHHHHHcCCCE-EEEEECCCcc
Confidence            356899999985 3221 22223345679999999876644445666667777888888 6888999864

>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=94.98  E-value=0.035  Score=55.39  Aligned_cols=68  Identities=12%  Similarity=0.068  Sum_probs=43.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|||+-..........+..+|.+++|+..+......+...+..+...++++ -+++|+++..
T Consensus        49 ~~~~i~~iDTPGhe~f~~~~~~~~~~aD~aILVVda~~g~~~qT~e~l~~~~~~~vPi-IVviNKiDl~  116 (501)
T 1zo1_I           49 ENGMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQHAKAAQVPV-VVAVNKIDKP  116 (501)
T ss_dssp             TSSCCCEECCCTTTCCTTSBCSSSBSCSSEEEEEETTTBSCTTTHHHHHHHHHTTCCE-EEEEECSSSS
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHhhCCEEEEEeecccCccHHHHHHHHHHHhcCceE-EEEEEecccc
Confidence            3456789999863221112222244578999998776544444556666777778884 5888999864

>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=94.97  E-value=0.05  Score=47.22  Aligned_cols=67  Identities=15%  Similarity=0.165  Sum_probs=38.8

Q ss_pred             CcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHc---CCCCeEEEEEcCCcCCC
Q 016622          281 LDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSK---LKVPCIAVVENMCHFDA  348 (386)
Q Consensus       281 yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~---~~~~i~gvVlN~~~~~~  348 (386)
                      +.+.|+|+|+...........+..+|.+++|...... +...+...+..+..   .+.++ -+|.|+++...
T Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl~~  131 (218)
T 4djt_A           61 IKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPI-VVCANKIDIKN  131 (218)
T ss_dssp             EEEEEEEECSGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCE-EEEEECTTCC-
T ss_pred             EEEEEEecCCchhhchHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCE-EEEEECCCCcc
Confidence            6799999986321111111224457888888876543 44555544444433   24554 48889998643

>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=94.96  E-value=0.058  Score=45.04  Aligned_cols=94  Identities=12%  Similarity=0.122  Sum_probs=49.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHH-HHHHHHHcC--CCCeEEEEEcCCcCCCCCce--
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVA-KGVRMFSKL--KVPCIAVVENMCHFDADGKR--  352 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~-~~~~~l~~~--~~~i~gvVlN~~~~~~~~~~--  352 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+. ..+..+++.  +.++ -+|.|+++.......  
T Consensus        54 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl~~~~~~~~  132 (182)
T 3bwd_D           54 ATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPI-VLVGTKLDLRDDKQFFI  132 (182)
T ss_dssp             ----CEEECCCC-CTTTTTGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCE-EEEEECHHHHTCHHHHH
T ss_pred             EEEEEEEEECCCChhhhhhHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCE-EEEEechhhhcCccccc
Confidence            34567799998643221222222445799999988754 4555655 455555542  4554 488899885432110  


Q ss_pred             ----ecccCCChHHHHHHHhCC-CeE
Q 016622          353 ----YYPFGRGSGSQVVQQFGI-PHL  373 (386)
Q Consensus       353 ----~~~~~~~~~~~i~~~~g~-pvl  373 (386)
                          ..........++++.++. +++
T Consensus       133 ~~~~~~~v~~~~~~~~~~~~~~~~~~  158 (182)
T 3bwd_D          133 DHPGAVPITTVQGEELKKLIGAPAYI  158 (182)
T ss_dssp             HC--CCCCCHHHHHHHHHHHTCSEEE
T ss_pred             ccccCCCCCHHHHHHHHHHcCCCEEE
Confidence                000111245677777775 443

>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=94.94  E-value=0.068  Score=51.81  Aligned_cols=66  Identities=12%  Similarity=0.124  Sum_probs=42.6

Q ss_pred             CcEEEEcCCCCCChH-HHhhhhhcCCCeEEEEeCCCcch-HHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          281 LDYLVIDMPPGTGDI-QLTLCQVVPLTAAVIVTTPQKLA-FIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       281 yD~VIIDtpp~~~~~-~~~~~~~~~~d~vviV~~~~~~s-~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      +.+.|+|||+ ..+. ......+..+|.+++|+...... ...+.+.+..++..+.+.+-+++||++..
T Consensus        83 ~~i~iiDtPG-h~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~~~~~~iivviNK~Dl~  150 (410)
T 1kk1_A           83 RRVSFIDAPG-HEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELV  150 (410)
T ss_dssp             EEEEEEECSS-HHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGS
T ss_pred             cEEEEEECCC-hHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHHHHHcCCCcEEEEEECccCC
Confidence            5789999985 3221 12222234579999999887532 34555555666666766566889999864

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=94.94  E-value=0.066  Score=53.84  Aligned_cols=67  Identities=13%  Similarity=0.003  Sum_probs=41.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCC--CCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLK--VPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~--~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.|+|+|+.-.........+..+|.+++|......  ......+..+.+.+  .+++ +|.||++...
T Consensus        96 ~~~~~~i~Dt~G~e~~~~~~~~~l~~~d~ii~V~D~s~~--~~~~~~~~~l~~~~~~~pvi-lV~NK~Dl~~  164 (535)
T 3dpu_A           96 KECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSRTD--SNKHYWLRHIEKYGGKSPVI-VVMNKIDENP  164 (535)
T ss_dssp             TTCEEEEECCCSCCTTTTTCHHHHHSSEEEEEEECGGGG--GGHHHHHHHHHHHSSSCCEE-EEECCTTTCT
T ss_pred             ceEEEEEEECCcHHHHHHHHHHHccCCcEEEEEEeCCCc--hhHHHHHHHHHHhCCCCCEE-EEEECCCccc
Confidence            468899999997322111111123357888888876443  45555666665543  6654 8999998643

>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=94.92  E-value=0.35  Score=39.81  Aligned_cols=86  Identities=8%  Similarity=-0.036  Sum_probs=49.1

Q ss_pred             CCcEEEEcCCCCCChH------H--HhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCc
Q 016622          280 ELDYLVIDMPPGTGDI------Q--LTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGK  351 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~------~--~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~  351 (386)
                      .+.+.++|||+.....      .  ........+|.+++|......  ......+..+.+.+.+++ +|.|+++......
T Consensus        49 ~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~--~~~~~~~~~~~~~~~p~i-lv~nK~Dl~~~~~  125 (165)
T 2wji_A           49 GEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATAL--ERNLYLTLQLMEMGANLL-LALNKMDLAKSLG  125 (165)
T ss_dssp             TEEEEEEECCCCSCSSSSSHHHHHHHHHHHHHCCSEEEEEEETTCH--HHHHHHHHHHHHTTCCEE-EEEECHHHHHHTT
T ss_pred             CcEEEEEECCCcccCCCcchhHHHHHHHHhcCCCCEEEEEecCCch--hHhHHHHHHHHhcCCCEE-EEEEchHhccccC
Confidence            4568899998633210      1  111111257888888887653  333444555555567654 8889988532111


Q ss_pred             eecccCCChHHHHHHHhCCCeE
Q 016622          352 RYYPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       352 ~~~~~~~~~~~~i~~~~g~pvl  373 (386)
                      .    . ...+++++.++.+++
T Consensus       126 ~----~-~~~~~~~~~~~~~~~  142 (165)
T 2wji_A          126 I----E-IDVDKLEKILGVKVV  142 (165)
T ss_dssp             C----C-CCHHHHHHHHTSCEE
T ss_pred             h----h-hHHHHHHHHhCCCEE
Confidence            0    1 136788888887764

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=94.92  E-value=0.029  Score=56.70  Aligned_cols=65  Identities=14%  Similarity=0.096  Sum_probs=41.6

Q ss_pred             cEEEEcCCCCCCh-----------HHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          282 DYLVIDMPPGTGD-----------IQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       282 D~VIIDtpp~~~~-----------~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      .++|||||+-...           .......+..+|.+++|+.+... ........++.+.+.+.+ +-+|+||++..
T Consensus       155 ~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~~~~p-vilVlNK~Dl~  231 (550)
T 2qpt_A          155 SISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRGHEDK-IRVVLNKADMV  231 (550)
T ss_dssp             HCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTTCGGG-EEEEEECGGGS
T ss_pred             CEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHhcCCC-EEEEEECCCcc
Confidence            5899999964321           01111223457999999988663 334556667777766666 45888998864

>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=94.91  E-value=0.034  Score=51.18  Aligned_cols=38  Identities=26%  Similarity=0.414  Sum_probs=33.0

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHC-CCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~-G~rVllID~D~  212 (386)
                      .+++++ |..|+||||++.++|..++.. |.+|++++.+.
T Consensus        36 ~~~~i~-G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~~e~   74 (296)
T 1cr0_A           36 EVIMVT-SGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEE   74 (296)
T ss_dssp             CEEEEE-ESTTSSHHHHHHHHHHHHHHTSCCCEEEEESSS
T ss_pred             eEEEEE-eCCCCCHHHHHHHHHHHHHHHcCCeEEEEeCcC
Confidence            467776 999999999999999999865 88999998875

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=94.88  E-value=0.028  Score=46.46  Aligned_cols=37  Identities=22%  Similarity=0.234  Sum_probs=32.0

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +.+.++ |..|+||||++..++..+...|+++..++..
T Consensus        37 ~~~~l~-G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~   73 (149)
T 2kjq_A           37 QFIYVW-GEEGAGKSHLLQAWVAQALEAGKNAAYIDAA   73 (149)
T ss_dssp             SEEEEE-SSSTTTTCHHHHHHHHHHHTTTCCEEEEETT
T ss_pred             CEEEEE-CCCCCCHHHHHHHHHHHHHhcCCcEEEEcHH
Confidence            467776 8899999999999999998889889888764

>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=94.88  E-value=0.037  Score=48.61  Aligned_cols=38  Identities=5%  Similarity=-0.027  Sum_probs=33.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +.+.++ |..|+||||++..++..+...|.++..++++.
T Consensus        53 ~~~ll~-G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~   90 (242)
T 3bos_A           53 QAIYLW-GPVKSGRTHLIHAACARANELERRSFYIPLGI   90 (242)
T ss_dssp             SEEEEE-CSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGG
T ss_pred             CeEEEE-CCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHH
Confidence            466666 88999999999999999999999999999854

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=94.85  E-value=0.18  Score=42.51  Aligned_cols=69  Identities=13%  Similarity=0.082  Sum_probs=40.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.|+|||+...........+..+|.+++|..... .++..+...+..+.+.    +.+ +-+|.|+++...
T Consensus        64 ~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~  137 (189)
T 2x77_A           64 KNISFEVWDLGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSL-LLIFANKQDLPD  137 (189)
T ss_dssp             TTEEEEEEEECCSSSSCCCCSSSSTTCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCE-EEEEEECTTSTT
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCe-EEEEEECCCCcC
Confidence            35678999998632211111112345788999887654 3566666555444332    344 558899998643

>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=94.82  E-value=0.019  Score=48.09  Aligned_cols=35  Identities=29%  Similarity=0.438  Sum_probs=27.2

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      |+++|.++ |-.|+||||++..||..|   |.  -++|.|.
T Consensus         1 m~~~I~l~-G~~GsGKsT~a~~La~~l---g~--~~id~d~   35 (173)
T 1e6c_A            1 MTEPIFMV-GARGCGMTTVGRELARAL---GY--EFVDTDI   35 (173)
T ss_dssp             CCCCEEEE-SCTTSSHHHHHHHHHHHH---TC--EEEEHHH
T ss_pred             CCceEEEE-CCCCCCHHHHHHHHHHHh---CC--cEEcccH
Confidence            45678887 889999999999998876   44  4677763

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=94.81  E-value=0.027  Score=56.95  Aligned_cols=40  Identities=35%  Similarity=0.341  Sum_probs=35.2

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+.+|.++ |..|+||||++..|+..|..+|+++.++|.|.
T Consensus       371 ~~~~I~l~-G~~GsGKSTia~~La~~L~~~G~~~~~ld~D~  410 (546)
T 2gks_A          371 QGFCVWLT-GLPCAGKSTIAEILATMLQARGRKVTLLDGDV  410 (546)
T ss_dssp             CCEEEEEE-CSTTSSHHHHHHHHHHHHHHTTCCEEEECHHH
T ss_pred             cceEEEcc-CCCCCCHHHHHHHHHHHhhhcCCeEEEECchH
Confidence            34577776 88999999999999999999999999999885

>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=94.79  E-value=0.19  Score=44.06  Aligned_cols=69  Identities=9%  Similarity=-0.035  Sum_probs=39.1

Q ss_pred             CCCcEEEEcCCCCCC----hH----HHhhhh-hcCCCeEEEEeCCCcc---hHHHHHHHHHHHHcC--CCCeEEEEEcCC
Q 016622          279 GELDYLVIDMPPGTG----DI----QLTLCQ-VVPLTAAVIVTTPQKL---AFIDVAKGVRMFSKL--KVPCIAVVENMC  344 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~----~~----~~~~~~-~~~~d~vviV~~~~~~---s~~~~~~~~~~l~~~--~~~i~gvVlN~~  344 (386)
                      ..+.+.|+|||+...    +.    ...... ...+|.+++|......   ........+..+...  +.++ -+|+|++
T Consensus        74 ~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~~~~pi-ilv~nK~  152 (228)
T 2qu8_A           74 KLNKYQIIDTPGLLDRAFENRNTIEMTTITALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVFSNKSI-VIGFNKI  152 (228)
T ss_dssp             TTEEEEEEECTTTTTSCGGGCCHHHHHHHHHHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC-CCCE-EEEEECG
T ss_pred             CCCeEEEEECCCCcCcccchhhhHHHHHHHHhhccccEEEEEEecccccCcchHHHHHHHHHHHHhhcCCcE-EEEEeCc
Confidence            346789999986521    10    011111 3345788888776542   223334555666554  5554 5888999


Q ss_pred             cCCC
Q 016622          345 HFDA  348 (386)
Q Consensus       345 ~~~~  348 (386)
                      +...
T Consensus       153 Dl~~  156 (228)
T 2qu8_A          153 DKCN  156 (228)
T ss_dssp             GGCC
T ss_pred             ccCC
Confidence            8643

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=94.79  E-value=0.028  Score=56.55  Aligned_cols=67  Identities=10%  Similarity=0.123  Sum_probs=46.0

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      .+.+.|+|||+--.........+..+|.+++|+..+..........+..+...+.++ -+++|+++..
T Consensus        51 g~~i~~iDTPGhe~f~~~~~~~~~~aD~vILVVDa~dg~~~qt~e~l~~~~~~~vPi-IVViNKiDl~  117 (537)
T 3izy_P           51 GEKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADDGVMKQTVESIQHAKDAHVPI-VLAINKCDKA  117 (537)
T ss_dssp             SSCCBCEECSSSCCTTTSBBSSSBSBSSCEEECBSSSCCCHHHHHHHHHHHTTTCCE-EECCBSGGGT
T ss_pred             CCEEEEEECCChHHHHHHHHHHHccCCEEEEEEECCCCccHHHHHHHHHHHHcCCcE-EEEEeccccc
Confidence            345788999863221112222234479999999887766667778888888888885 4888999864

>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=94.77  E-value=0.041  Score=47.68  Aligned_cols=36  Identities=22%  Similarity=0.345  Sum_probs=30.3

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      +++|+|+ |-.|+||||++..|+..|...|.+|..++
T Consensus         9 ~~~I~l~-G~~GsGKsT~~~~L~~~l~~~~~~v~~~~   44 (215)
T 1nn5_A            9 GALIVLE-GVDRAGKSTQSRKLVEALCAAGHRAELLR   44 (215)
T ss_dssp             CCEEEEE-ESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHHHHcCCcEEEee
Confidence            3577777 88899999999999999998899985553

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=94.75  E-value=0.032  Score=49.46  Aligned_cols=39  Identities=21%  Similarity=0.210  Sum_probs=31.3

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVY  213 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~~  213 (386)
                      .+.+..+.+|+|||+++.++|...+ +.|.+|+++.++..
T Consensus        31 ~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~E~~   70 (251)
T 2zts_A           31 TTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTLEER   70 (251)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSC
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeecccCC
Confidence            3444459999999999999998754 56889999998753

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=94.69  E-value=0.05  Score=47.31  Aligned_cols=39  Identities=33%  Similarity=0.389  Sum_probs=33.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +.+|+|. |..|+||||++..|+..+...|.++..|..|.
T Consensus        22 g~~v~I~-G~sGsGKSTl~~~l~~~~~~~g~~~g~v~~d~   60 (208)
T 3c8u_A           22 RQLVALS-GAPGSGKSTLSNPLAAALSAQGLPAEVVPMDG   60 (208)
T ss_dssp             CEEEEEE-CCTTSCTHHHHHHHHHHHHHTTCCEEEEESGG
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHhhcCCceEEEecCC
Confidence            3588887 89999999999999999986677788888774

>3do6_A Formate--tetrahydrofolate ligase; TM1766, putative formyltetrahydrofolate synthetase, structural genomics; HET: MSE; 1.85A {Thermotoga maritima} SCOP: c.37.1.0

Probab=94.68  E-value=0.026  Score=54.96  Aligned_cols=51  Identities=22%  Similarity=0.395  Sum_probs=41.0

Q ss_pred             CCceEEEEEeC---cCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCc
Q 016622          171 KISNIVAVSSC---KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPE  224 (386)
Q Consensus       171 ~~~kvI~v~s~---kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~  224 (386)
                      ..+|.|.|++-   .-|+||||++..|+.+|.+.|+++.+.   ++.||+.-.||..
T Consensus        41 ~~GklIlVTaItPTPaGEGKtTttiGL~~aL~~lgk~~~~~---lRePSlGP~FGiK   94 (543)
T 3do6_A           41 EDGKLILVTAVTPTPAGEGKTTTSIGLSMSLNRIGKKSIVT---LREPSLGPTLGLK   94 (543)
T ss_dssp             CCCEEEEEEESSCCTTCCCHHHHHHHHHHHHHHTTCCEEEE---ECCCCHHHHHHSC
T ss_pred             CCCeEEEEEecCCCCCCCCccchHHHHHHHHHhcCCeeEEE---EecCCCCCcCCcc
Confidence            34678877764   559999999999999999999999765   6788876666554

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=94.67  E-value=0.029  Score=52.22  Aligned_cols=89  Identities=13%  Similarity=0.086  Sum_probs=48.3

Q ss_pred             CCCcEEEEcCCCCCChH------HHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC-----CCCeEEEEEcCCcC
Q 016622          279 GELDYLVIDMPPGTGDI------QLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL-----KVPCIAVVENMCHF  346 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~------~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~-----~~~i~gvVlN~~~~  346 (386)
                      +.+.+.|+|+|+. ...      ......+..+|.+++|..... .+..++....+.+.+.     +.+ +-+|.||++.
T Consensus        50 ~~~~l~i~Dt~G~-~~~~~~~~~~~~~~~~~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~p-iilv~NK~Dl  127 (307)
T 3r7w_A           50 GNMTLNLWDCGGQ-DVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAK-IFVLLHKMDL  127 (307)
T ss_dssp             TTEEEEEEEECCS-HHHHHHHHTTTHHHHHTTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCE-EEEEEECGGG
T ss_pred             CceEEEEEECCCc-HHHhhhhhhhHHHHHhccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCe-EEEEEecccc
Confidence            4567899999853 211      111112345799999987654 4556665544444332     444 5588899986


Q ss_pred             CCCCcee--cccCCChHHHHHHHhC
Q 016622          347 DADGKRY--YPFGRGSGSQVVQQFG  369 (386)
Q Consensus       347 ~~~~~~~--~~~~~~~~~~i~~~~g  369 (386)
                      .....+.  +.......+++++.+|
T Consensus       128 ~~~~~r~~~~~v~~~~~~~~~~~~g  152 (307)
T 3r7w_A          128 VQLDKREELFQIMMKNLSETSSEFG  152 (307)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             cchhhhhHHHHHHHHHHHHHHHHcC
Confidence            4311110  0011134566777777

>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=94.63  E-value=0.024  Score=47.73  Aligned_cols=35  Identities=20%  Similarity=0.215  Sum_probs=26.2

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      ++|.++ |-.|+||||++..||..+   |.....++.|.
T Consensus         4 ~~i~l~-G~~GsGKST~a~~La~~l---~~~~~~~~~D~   38 (178)
T 1qhx_A            4 RMIILN-GGSSAGKSGIVRCLQSVL---PEPWLAFGVDS   38 (178)
T ss_dssp             CEEEEE-CCTTSSHHHHHHHHHHHS---SSCEEEEEHHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHhc---CCCeEEeccch
Confidence            455555 999999999999988766   45566667763

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=94.61  E-value=0.043  Score=54.03  Aligned_cols=39  Identities=28%  Similarity=0.522  Sum_probs=33.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHH-CCCcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAG-MGARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~-~G~rVllID~D~~  213 (386)
                      ..+.++ |.+|+||||++.++|..++. .|.+|+++++...
T Consensus       204 ~liiI~-G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~E~s  243 (454)
T 2r6a_A          204 DLIIVA-ARPSVGKTAFALNIAQNVATKTNENVAIFSLEMS  243 (454)
T ss_dssp             CEEEEE-CCTTSCHHHHHHHHHHHHHHHSSCCEEEEESSSC
T ss_pred             CEEEEE-CCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCCC
Confidence            455555 99999999999999999986 6899999998753

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=94.59  E-value=0.2  Score=46.93  Aligned_cols=83  Identities=8%  Similarity=0.089  Sum_probs=46.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHH-HcC---CCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMF-SKL---KVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l-~~~---~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+.+.|+|||+...........+..+|.+++|.... ..++..+...+..+ ...   +.+ +-+|.||++....    
T Consensus       207 ~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilV~NK~Dl~~~----  281 (329)
T 3o47_A          207 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAV-LLVFANKQDLPNA----  281 (329)
T ss_dssp             TTEEEEEEECC-----CCSHHHHHTTEEEEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCE-EEEEEECTTSTTC----
T ss_pred             CcEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCchHHHHHHHHHHHHHHhhhccCCCe-EEEEEECccCCcc----
Confidence            4578999999963321111112234568888888765 34566655544433 332   444 4588899986432    


Q ss_pred             cccCCChHHHHHHHhCCC
Q 016622          354 YPFGRGSGSQVVQQFGIP  371 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~p  371 (386)
                           ...+++.+.++..
T Consensus       282 -----~~~~~i~~~~~~~  294 (329)
T 3o47_A          282 -----MNAAEITDKLGLH  294 (329)
T ss_dssp             -----CCHHHHHHHHTCT
T ss_pred             -----cCHHHHHHHhchh
Confidence                 2356677777654

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=94.54  E-value=0.049  Score=47.10  Aligned_cols=36  Identities=19%  Similarity=0.100  Sum_probs=30.3

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      +++|+|+ |-.|+||||++..|+..+...+.++.++.
T Consensus        10 ~~~I~l~-G~~GsGKST~~~~L~~~l~~~~~~~~~~~   45 (212)
T 2wwf_A           10 GKFIVFE-GLDRSGKSTQSKLLVEYLKNNNVEVKHLY   45 (212)
T ss_dssp             SCEEEEE-ESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCEEEEE-cCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence            4577777 88899999999999999988888885544

>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=94.54  E-value=0.06  Score=46.94  Aligned_cols=69  Identities=14%  Similarity=0.180  Sum_probs=40.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC--CCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL--KVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.|+|+|+.-.........+..+|.+++|..... .++..+...+..+.+.  +.++ -+|.|+++...
T Consensus        62 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl~~  133 (221)
T 3gj0_A           62 GPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPI-VLCGNKVDIKD  133 (221)
T ss_dssp             EEEEEEEEEECSGGGTSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSTTCCE-EEEEECTTSSS
T ss_pred             EEEEEEEEeCCChHHHhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCE-EEEEECCcccc
Confidence            45678999998632111111112345788888887655 3455555555555442  4554 48889998643

>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=94.54  E-value=0.13  Score=49.80  Aligned_cols=67  Identities=13%  Similarity=0.151  Sum_probs=43.3

Q ss_pred             CcEEEEcCCCCCChHH-HhhhhhcCCCeEEEEeCCCcch-HHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          281 LDYLVIDMPPGTGDIQ-LTLCQVVPLTAAVIVTTPQKLA-FIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       281 yD~VIIDtpp~~~~~~-~~~~~~~~~d~vviV~~~~~~s-~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      +.+.|+|||+ ..+.. .....+..+|.+++|+...... ...+.+.+..++..+.+.+-+++||++...
T Consensus        81 ~~i~iiDtPG-h~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~l~~~~iivv~NK~Dl~~  149 (408)
T 1s0u_A           81 RRVSFVDSPG-HETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMALEILGIDKIIIVQNKIDLVD  149 (408)
T ss_dssp             EEEEEEECSS-HHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECTTSSC
T ss_pred             cEEEEEECCC-HHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHHcCCCeEEEEEEccCCCC
Confidence            6799999985 32211 1122233469999999887532 344555666667777765668999998643

>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=94.50  E-value=0.14  Score=44.23  Aligned_cols=68  Identities=9%  Similarity=-0.006  Sum_probs=39.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHH-HHHHHHHHcC--CCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDV-AKGVRMFSKL--KVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~-~~~~~~l~~~--~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|+|+......+....+..+|.+++|..... .++..+ ...+..+++.  +.+ +-+|.|+++..
T Consensus        74 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~Dl~  145 (205)
T 1gwn_A           74 QRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTK-MLLVGCKSDLR  145 (205)
T ss_dssp             SEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCE-EEEEEECGGGG
T ss_pred             EEEEEEEEeCCCcHhhhHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCC-EEEEEechhhc
Confidence            35678999998632111111122345788888887654 345555 3444555442  344 55888999864

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=94.50  E-value=0.022  Score=47.95  Aligned_cols=34  Identities=32%  Similarity=0.338  Sum_probs=26.0

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      |++|+++ |..|+||||++..||..+   |  ..++|.|.
T Consensus         4 m~~i~i~-G~~GsGKsTla~~La~~l---~--~~~~d~d~   37 (175)
T 1via_A            4 AKNIVFI-GFMGSGKSTLARALAKDL---D--LVFLDSDF   37 (175)
T ss_dssp             -CCEEEE-CCTTSCHHHHHHHHHHHH---T--CEEEEHHH
T ss_pred             CCEEEEE-cCCCCCHHHHHHHHHHHc---C--CCEEcccH
Confidence            4567776 899999999999999876   3  35677764

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=94.48  E-value=0.039  Score=47.34  Aligned_cols=37  Identities=14%  Similarity=0.161  Sum_probs=30.9

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +++.++ |-.|+||||++..++..+..+|++|+++-..
T Consensus         4 ~i~vi~-G~~gsGKTT~ll~~~~~~~~~g~~v~~~~~~   40 (184)
T 2orw_A            4 KLTVIT-GPMYSGKTTELLSFVEIYKLGKKKVAVFKPK   40 (184)
T ss_dssp             CEEEEE-ESTTSSHHHHHHHHHHHHHHTTCEEEEEEEC
T ss_pred             EEEEEE-CCCCCCHHHHHHHHHHHHHHCCCeEEEEeec
Confidence            355555 8889999999999999999999999998543

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=94.46  E-value=0.038  Score=46.37  Aligned_cols=35  Identities=23%  Similarity=0.135  Sum_probs=25.6

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +++|.+. |-.|+||||++..|+..    ......++.|.
T Consensus         2 ~~~I~i~-G~~GsGKST~a~~L~~~----~~~~~~i~~d~   36 (181)
T 1ly1_A            2 KKIILTI-GCPGSGKSTWAREFIAK----NPGFYNINRDD   36 (181)
T ss_dssp             CEEEEEE-CCTTSSHHHHHHHHHHH----STTEEEECHHH
T ss_pred             CeEEEEe-cCCCCCHHHHHHHHHhh----cCCcEEecHHH
Confidence            3456665 99999999999988872    23466777764

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=94.45  E-value=0.042  Score=53.97  Aligned_cols=38  Identities=24%  Similarity=0.461  Sum_probs=32.6

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHH-CCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAG-MGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~-~G~rVllID~D~  212 (386)
                      ..+.|+ +.+|+||||++.++|..++. .|.+|+++++..
T Consensus       201 ~l~ii~-G~pg~GKT~lal~ia~~~a~~~g~~vl~~slE~  239 (444)
T 2q6t_A          201 SLNIIA-ARPAMGKTAFALTIAQNAALKEGVGVGIYSLEM  239 (444)
T ss_dssp             CEEEEE-ECTTSCHHHHHHHHHHHHHHTTCCCEEEEESSS
T ss_pred             cEEEEE-eCCCCCHHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence            355554 99999999999999999996 589999999875

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=94.43  E-value=0.044  Score=54.99  Aligned_cols=41  Identities=15%  Similarity=0.251  Sum_probs=34.7

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .++.+|.++ |..|+||||++..||..|...+.++.+++.|-
T Consensus        33 ~~~~lIvlv-GlpGSGKSTia~~La~~L~~~~~d~~v~s~D~   73 (520)
T 2axn_A           33 NSPTVIVMV-GLPARGKTYISKKLTRYLNWIGVPTKVFNVGE   73 (520)
T ss_dssp             CCCEEEEEE-CCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHH
T ss_pred             CCCeEEEEE-CCCCCCHHHHHHHHHHHHhhcCCCeEEecccH
Confidence            344455555 99999999999999999998899999999885

>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=94.43  E-value=0.016  Score=49.23  Aligned_cols=34  Identities=35%  Similarity=0.474  Sum_probs=26.6

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +++|+++ |..|+||||++..||..+   |..  ++|.|.
T Consensus         2 ~~~I~l~-G~~GsGKsT~a~~La~~l---g~~--~id~D~   35 (184)
T 2iyv_A            2 APKAVLV-GLPGSGKSTIGRRLAKAL---GVG--LLDTDV   35 (184)
T ss_dssp             CCSEEEE-CSTTSSHHHHHHHHHHHH---TCC--EEEHHH
T ss_pred             CCeEEEE-CCCCCCHHHHHHHHHHHc---CCC--EEeCch
Confidence            3467777 899999999999998876   443  678774

>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=94.32  E-value=0.11  Score=51.08  Aligned_cols=68  Identities=9%  Similarity=0.028  Sum_probs=43.0

Q ss_pred             CCcEEEEcCCCC---------CChH-H-HhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          280 ELDYLVIDMPPG---------TGDI-Q-LTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       280 ~yD~VIIDtpp~---------~~~~-~-~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ...+.|+|||+-         .... . .....+..+|.+++|+...........+...++.+.+.+++ +|+||++...
T Consensus       242 ~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llviD~~~~~~~~~~~~~~~~~~~~~~~i-lv~NK~Dl~~  320 (456)
T 4dcu_A          242 QQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQDKRIAGYAHEAGKAVV-IVVNKWDAVD  320 (456)
T ss_dssp             TEEEEETTGGGTTTBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEE-EEEECGGGSC
T ss_pred             CceEEEEECCCCCcCcccchHHHHHHHHHHHHHHhhCCEEEEEEeCCCCcCHHHHHHHHHHHHcCCCEE-EEEEChhcCC
Confidence            447889999852         1111 1 11122345788999888766444555667777777776654 8889998654

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=94.32  E-value=0.17  Score=43.59  Aligned_cols=94  Identities=13%  Similarity=0.100  Sum_probs=51.3

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHH-HHHHHHHcC--CCCeEEEEEcCCcCCCCCce--
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVA-KGVRMFSKL--KVPCIAVVENMCHFDADGKR--  352 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~-~~~~~l~~~--~~~i~gvVlN~~~~~~~~~~--  352 (386)
                      ..+.+.|+|+|+.-....+....+..+|.+++|..... .++..+. ..+..+...  +.++ -+|.|+++.......  
T Consensus        55 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl~~~~~~~~  133 (212)
T 2j0v_A           55 QIVNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVPI-VLVGTKLDLRDDKGYLA  133 (212)
T ss_dssp             CEEEEEEECCCCCCCCCC--CGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCE-EEEEECHHHHTCHHHHH
T ss_pred             EEEEEEEEECCCcHHHHHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCE-EEEEeCHHhhhCccccc
Confidence            45678999998643211121222445799999887654 4555554 455555543  5554 488999885332100  


Q ss_pred             --ecccCCChHHHHHHHhCC-CeE
Q 016622          353 --YYPFGRGSGSQVVQQFGI-PHL  373 (386)
Q Consensus       353 --~~~~~~~~~~~i~~~~g~-pvl  373 (386)
                        ..........++++.++. +++
T Consensus       134 ~~~~~v~~~~~~~~~~~~~~~~~~  157 (212)
T 2j0v_A          134 DHTNVITSTQGEELRKQIGAAAYI  157 (212)
T ss_dssp             TCSSCCCHHHHHHHHHHHTCSEEE
T ss_pred             cccCCCCHHHHHHHHHHcCCceEE
Confidence              000011345667777775 443

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=94.29  E-value=0.052  Score=46.81  Aligned_cols=34  Identities=24%  Similarity=0.150  Sum_probs=27.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      +.|+|. |-.|+||||++..|+..+...| +|...+
T Consensus         5 ~~I~i~-G~~GsGKsT~~~~L~~~l~~~g-~~~~~~   38 (213)
T 2plr_A            5 VLIAFE-GIDGSGKSSQATLLKDWIELKR-DVYLTE   38 (213)
T ss_dssp             EEEEEE-CCTTSSHHHHHHHHHHHHTTTS-CEEEEE
T ss_pred             eEEEEE-cCCCCCHHHHHHHHHHHHhhcC-CEEEec
Confidence            466666 8899999999999999997777 665443

>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=94.26  E-value=0.2  Score=42.03  Aligned_cols=68  Identities=9%  Similarity=-0.006  Sum_probs=39.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHH-HHHHHHHHcC--CCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDV-AKGVRMFSKL--KVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~-~~~~~~l~~~--~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+ ...+..+++.  +.+ +-+|.|+++..
T Consensus        53 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~Dl~  124 (184)
T 1m7b_A           53 QRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTK-MLLVGCKSDLR  124 (184)
T ss_dssp             CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCE-EEEEEECGGGG
T ss_pred             EEEEEEEEECCCChhhhhhHHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCC-EEEEEEcchhh
Confidence            45678999998632111111122345788888877654 455555 3444445442  444 45889999864

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=94.24  E-value=0.0094  Score=60.91  Aligned_cols=69  Identities=16%  Similarity=0.073  Sum_probs=35.0

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcch-------HHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLA-------FIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s-------~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|||+-..-.......+..+|.+++|+......       .......+..+...+++.+-+|+||++..
T Consensus       253 ~~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~lgip~iIvviNKiDl~  328 (592)
T 3mca_A          253 DKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRALGISEIVVSVNKLDLM  328 (592)
T ss_dssp             ------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHSSCCCEEEEEECGGGG
T ss_pred             CCeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHHcCCCeEEEEEeccccc
Confidence            4578999999853211111112233468888887765421       23456666777788887566889999854

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=94.23  E-value=0.046  Score=55.97  Aligned_cols=43  Identities=26%  Similarity=0.231  Sum_probs=36.4

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGP  215 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~  215 (386)
                      .+++|.|+ |-.|+||||++..|+..|..+|.++..+|.|..+.
T Consensus        51 ~g~lIvLt-GlsGSGKSTlAr~La~~L~~~G~~~v~lDgD~iR~   93 (630)
T 1x6v_B           51 RGCTVWLT-GLSGAGKTTVSMALEEYLVCHGIPCYTLDGDNIRQ   93 (630)
T ss_dssp             CCEEEEEE-CSTTSSHHHHHHHHHHHHHHTTCCEEEESHHHHTT
T ss_pred             CCCEEEEE-eCCCCCHHHHHHHHHHHHHhcCCeEEEechHHhhh
Confidence            34567776 89999999999999999999999999998876543

>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=94.16  E-value=0.1  Score=55.45  Aligned_cols=68  Identities=13%  Similarity=0.040  Sum_probs=44.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|||+-..-.......+..+|.+++|+......-......+..+...+++++ +|+||++..
T Consensus        96 ~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~~~~p~i-lviNK~D~~  163 (842)
T 1n0u_A           96 NSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPV-VVINKVDRA  163 (842)
T ss_dssp             SEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHHTTCEEE-EEEECHHHH
T ss_pred             CCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCeE-EEEECCCcc
Confidence            46789999999643322222333556799999988776533344555566666677765 788998854

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=94.12  E-value=0.063  Score=50.01  Aligned_cols=38  Identities=18%  Similarity=0.215  Sum_probs=33.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDAD  211 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D  211 (386)
                      .+.+.++ |..|+|||+++..+|..+. +.|++|..+.+.
T Consensus       152 ~~~lll~-G~~GtGKT~La~aia~~~~~~~g~~v~~~~~~  190 (308)
T 2qgz_A          152 QKGLYLY-GDMGIGKSYLLAAMAHELSEKKGVSTTLLHFP  190 (308)
T ss_dssp             CCEEEEE-CSTTSSHHHHHHHHHHHHHHHSCCCEEEEEHH
T ss_pred             CceEEEE-CCCCCCHHHHHHHHHHHHHHhcCCcEEEEEHH
Confidence            3566666 8899999999999999999 999999998764

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=94.10  E-value=0.058  Score=50.21  Aligned_cols=41  Identities=29%  Similarity=0.298  Sum_probs=33.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHH--HCCCcEEEEEcCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLA--GMGARVGIFDADVYG  214 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La--~~G~rVllID~D~~~  214 (386)
                      +.+|+++ |..|+||||++..|+..+.  -.+.+|.++++|-..
T Consensus        80 g~iigI~-G~~GsGKSTl~~~L~~~l~~~~~~G~i~vi~~d~~~  122 (308)
T 1sq5_A           80 PYIISIA-GSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFL  122 (308)
T ss_dssp             CEEEEEE-ECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGB
T ss_pred             CEEEEEE-CCCCCCHHHHHHHHHHHHhhCCCCCeEEEEecCCcc
Confidence            4588888 8899999999999998886  345579999988543

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=94.06  E-value=0.047  Score=55.43  Aligned_cols=40  Identities=23%  Similarity=0.229  Sum_probs=34.7

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCC-CcEEEEEcCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMG-ARVGIFDADV  212 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G-~rVllID~D~  212 (386)
                      .+.+|.|+ |-.|+||||++..|+..|..+| +++.++|.|.
T Consensus       395 ~~~~I~l~-GlsGSGKSTiA~~La~~L~~~G~~~~~~lD~D~  435 (573)
T 1m8p_A          395 QGFTIFLT-GYMNSGKDAIARALQVTLNQQGGRSVSLLLGDT  435 (573)
T ss_dssp             CCEEEEEE-CSTTSSHHHHHHHHHHHHHHHCSSCEEEEEHHH
T ss_pred             cceEEEee-cCCCCCHHHHHHHHHHHhcccCCceEEEECcHH
Confidence            44577777 8899999999999999999888 8999999875

>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=94.05  E-value=0.44  Score=40.46  Aligned_cols=89  Identities=15%  Similarity=0.146  Sum_probs=43.8

Q ss_pred             CCcEEEEcCCCCCC-hHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCcee
Q 016622          280 ELDYLVIDMPPGTG-DIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       280 ~yD~VIIDtpp~~~-~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      .+.++++|++...+ ...+.......+|.+++|..- +..++..+......+.+    .+.++ -+|.|+++......  
T Consensus        55 ~~~l~~~Dt~~~~~~~~~~~~~~~~~~~~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~pi-ilV~NK~Dl~~~r~--  131 (192)
T 2cjw_A           55 SATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPI-ILVGNKSDLVRXRE--  131 (192)
T ss_dssp             EEEEEEECCCCC----CTTGGGHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCE-EEEEECTTCGGGCC--
T ss_pred             EEEEEEEEeccCcchhhhHHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeE-EEEEechhhhcccc--
Confidence            34567888875322 111111112235777776554 44566666655554443    24554 48889988543111  


Q ss_pred             cccCCChHHHHHHHhCCCeE
Q 016622          354 YPFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl  373 (386)
                        ........++..++.+++
T Consensus       132 --v~~~~~~~~a~~~~~~~~  149 (192)
T 2cjw_A          132 --VSVSEGRAXAVVFDXKFI  149 (192)
T ss_dssp             --SCHHHHHHHHHHTTCEEE
T ss_pred             --ccHHHHHHHHHHhCCceE
Confidence              111223455566676554

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=94.04  E-value=0.03  Score=55.92  Aligned_cols=38  Identities=21%  Similarity=0.213  Sum_probs=33.0

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHC-CCcEEEEEcCCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFDADVY  213 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~-G~rVllID~D~~  213 (386)
                      +.+..+.+|+||||++.++|..++.. |.+|+++++...
T Consensus       244 l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s~E~s  282 (503)
T 1q57_A          244 VIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAMLEES  282 (503)
T ss_dssp             EEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEESSSC
T ss_pred             EEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEeccCC
Confidence            44445999999999999999999986 999999999763

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=94.02  E-value=0.038  Score=51.84  Aligned_cols=39  Identities=13%  Similarity=0.130  Sum_probs=32.6

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHC------CCcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM------GARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~------G~rVllID~D~~  213 (386)
                      .++.|+ |..|+||||++.++|..++..      |.+|++||++..
T Consensus       108 ~i~~i~-G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~  152 (324)
T 2z43_A          108 TMTEFF-GEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGT  152 (324)
T ss_dssp             SEEEEE-ESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSC
T ss_pred             cEEEEE-CCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCC
Confidence            466666 889999999999999987655      789999999853

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=94.01  E-value=0.068  Score=50.14  Aligned_cols=41  Identities=24%  Similarity=0.251  Sum_probs=33.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHH--CCCcEEEEEcCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAG--MGARVGIFDADVYG  214 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~--~G~rVllID~D~~~  214 (386)
                      +.+|+++ |..|+||||++..|+..+..  .+.+|.++..|...
T Consensus        92 p~iigI~-GpsGSGKSTl~~~L~~ll~~~~~~~~v~~i~~D~f~  134 (321)
T 3tqc_A           92 PYIIGIA-GSVAVGKSTTSRVLKALLSRWPDHPNVEVITTDGFL  134 (321)
T ss_dssp             CEEEEEE-CCTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGB
T ss_pred             CEEEEEE-CCCCCCHHHHHHHHHHHhcccCCCCeEEEEeecccc
Confidence            4578887 88999999999999988864  35689999998643

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=94.00  E-value=0.03  Score=46.87  Aligned_cols=35  Identities=29%  Similarity=0.372  Sum_probs=26.6

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      |+++|+++ |..|+||||++..||..+   |  ..++|.|.
T Consensus         3 ~~~~i~l~-G~~GsGKSTl~~~La~~l---~--~~~id~d~   37 (173)
T 1kag_A            3 EKRNIFLV-GPMGAGKSTIGRQLAQQL---N--MEFYDSDQ   37 (173)
T ss_dssp             CCCCEEEE-CCTTSCHHHHHHHHHHHT---T--CEEEEHHH
T ss_pred             CCCeEEEE-CCCCCCHHHHHHHHHHHh---C--CCEEeccH
Confidence            34578887 889999999998888765   3  35677763

>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=93.96  E-value=0.029  Score=48.21  Aligned_cols=36  Identities=36%  Similarity=0.391  Sum_probs=26.9

Q ss_pred             cCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          170 QKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       170 ~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+.+++|+++ |..|+||||++..||..    |.  .++|+|.
T Consensus         5 ~~~~~~I~i~-G~~GsGKST~~~~La~~----g~--~~id~d~   40 (203)
T 1uf9_A            5 AKHPIIIGIT-GNIGSGKSTVAALLRSW----GY--PVLDLDA   40 (203)
T ss_dssp             -CCCEEEEEE-ECTTSCHHHHHHHHHHT----TC--CEEEHHH
T ss_pred             ccCceEEEEE-CCCCCCHHHHHHHHHHC----CC--EEEcccH
Confidence            3445688887 88999999999888764    54  4678874

>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=93.85  E-value=0.13  Score=44.71  Aligned_cols=68  Identities=12%  Similarity=0.054  Sum_probs=34.6

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHH-HHHHHHHcC--CCCeEEEEEcCCcCCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVA-KGVRMFSKL--KVPCIAVVENMCHFDA  348 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~-~~~~~l~~~--~~~i~gvVlN~~~~~~  348 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+. ..++.+.+.  +.++ -+|.|+++...
T Consensus        81 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi-ilv~nK~Dl~~  152 (214)
T 2j1l_A           81 PVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKKVPI-IVVGCKTDLRK  152 (214)
T ss_dssp             EEEEEEEEC---------------CEEEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCCE-EEEEECGGGGS
T ss_pred             EEEEEEEECCCchhhhHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCE-EEEEEChhhhc
Confidence            4678899998632211111112335688888877654 4555554 344445432  4554 58889998654

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=93.82  E-value=0.048  Score=51.14  Aligned_cols=37  Identities=19%  Similarity=0.262  Sum_probs=28.7

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      +|.++|.++ |-.|+||||++..||..+     ...+||+|-.
T Consensus         3 ~m~~~i~i~-GptGsGKTtla~~La~~l-----~~~iis~Ds~   39 (323)
T 3crm_A            3 SLPPAIFLM-GPTAAGKTDLAMALADAL-----PCELISVDSA   39 (323)
T ss_dssp             CCCEEEEEE-CCTTSCHHHHHHHHHHHS-----CEEEEEECTT
T ss_pred             CCCcEEEEE-CCCCCCHHHHHHHHHHHc-----CCcEEeccch
Confidence            455666666 889999999999998765     3678898854

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=93.76  E-value=0.062  Score=50.86  Aligned_cols=38  Identities=18%  Similarity=0.183  Sum_probs=31.7

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHH------CCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAG------MGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~------~G~rVllID~D~  212 (386)
                      .++.|+ |..|+||||++.++|...+.      .|.+|++||++.
T Consensus       123 ~i~~I~-G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~  166 (343)
T 1v5w_A          123 AITEAF-GEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTEN  166 (343)
T ss_dssp             EEEEEE-CCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSS
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            455555 99999999999999998654      578999999975

>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=93.76  E-value=0.048  Score=47.12  Aligned_cols=34  Identities=35%  Similarity=0.515  Sum_probs=26.2

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      |+.+|+++ |..|+||||++..||.    .|..  ++|+|.
T Consensus         1 m~~~i~l~-G~~GsGKST~~~~La~----lg~~--~id~d~   34 (206)
T 1jjv_A            1 MTYIVGLT-GGIGSGKTTIANLFTD----LGVP--LVDADV   34 (206)
T ss_dssp             CCEEEEEE-CSTTSCHHHHHHHHHT----TTCC--EEEHHH
T ss_pred             CCcEEEEE-CCCCCCHHHHHHHHHH----CCCc--ccchHH
Confidence            34678888 8899999999988875    4654  568875

>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=93.75  E-value=0.035  Score=47.95  Aligned_cols=32  Identities=38%  Similarity=0.453  Sum_probs=24.9

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      ++|+++ |..|+||||++..||. +   |  +-++|+|.
T Consensus         2 ~~i~i~-G~~GsGKSTl~~~L~~-~---g--~~~i~~d~   33 (204)
T 2if2_A            2 KRIGLT-GNIGCGKSTVAQMFRE-L---G--AYVLDADK   33 (204)
T ss_dssp             CEEEEE-ECTTSSHHHHHHHHHH-T---T--CEEEEHHH
T ss_pred             eEEEEE-CCCCcCHHHHHHHHHH-C---C--CEEEEccH
Confidence            478888 8899999999988887 4   5  45567664

>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=93.73  E-value=0.41  Score=41.07  Aligned_cols=68  Identities=16%  Similarity=0.075  Sum_probs=36.9

Q ss_pred             CCcEEEEcCCCCCChHH-HhhhhhcCCCeEEEEeCCCcc--hHHHHHHHH-HHHHc-----CCCCeEEEEEcCCcCCC
Q 016622          280 ELDYLVIDMPPGTGDIQ-LTLCQVVPLTAAVIVTTPQKL--AFIDVAKGV-RMFSK-----LKVPCIAVVENMCHFDA  348 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~-~~~~~~~~~d~vviV~~~~~~--s~~~~~~~~-~~l~~-----~~~~i~gvVlN~~~~~~  348 (386)
                      .+.+.|+|||+...... +.......+|.+++|......  +.......+ +.+..     .+.+ +-+|.|+++...
T Consensus        53 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~  129 (214)
T 2fh5_B           53 GNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPS-LLIACNKQDIAM  129 (214)
T ss_dssp             CCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCE-EEEEEECTTSTT
T ss_pred             ccEEEEEECCCChhHHHHHHHHHHhhCCEEEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCC-EEEEEECCCCCC
Confidence            57899999985322111 111113456888999887652  222332222 22221     2344 558899998654

>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=93.69  E-value=0.049  Score=46.78  Aligned_cols=35  Identities=11%  Similarity=0.221  Sum_probs=27.8

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      ++.|+++ |-.|+||||++..|+..+  .|.++..++.
T Consensus         4 ~~~I~l~-G~~GsGKsT~~~~L~~~l--~g~~~~~~~~   38 (204)
T 2v54_A            4 GALIVFE-GLDKSGKTTQCMNIMESI--PANTIKYLNF   38 (204)
T ss_dssp             CCEEEEE-CCTTSSHHHHHHHHHHTS--CGGGEEEEES
T ss_pred             CcEEEEE-cCCCCCHHHHHHHHHHHH--CCCceEEEec
Confidence            3577777 889999999999998877  4677776653

>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=93.65  E-value=0.056  Score=45.78  Aligned_cols=34  Identities=29%  Similarity=0.303  Sum_probs=26.5

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      |+++|+++ |..|+||||++..|+..+   |  ...+|.|
T Consensus         5 ~~~~I~l~-G~~GsGKsT~~~~L~~~l---~--~~~i~~d   38 (194)
T 1qf9_A            5 KPNVVFVL-GGPGSGKGTQCANIVRDF---G--WVHLSAG   38 (194)
T ss_dssp             CCEEEEEE-ESTTSSHHHHHHHHHHHH---C--CEEEEHH
T ss_pred             cCcEEEEE-CCCCCCHHHHHHHHHHHh---C--CeEeeHH
Confidence            55677777 889999999999998876   4  3567775

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=93.63  E-value=0.094  Score=43.82  Aligned_cols=36  Identities=31%  Similarity=0.380  Sum_probs=27.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHH-------CCCcEEEEEc
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAG-------MGARVGIFDA  210 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~-------~G~rVllID~  210 (386)
                      +.+.++ |..|+|||+++..++..+..       .+.++..+++
T Consensus        44 ~~~ll~-G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (195)
T 1jbk_A           44 NNPVLI-GEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDM   86 (195)
T ss_dssp             CEEEEE-CCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECH
T ss_pred             CceEEE-CCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeH
Confidence            356565 99999999999999999876       3555555554

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=93.62  E-value=0.076  Score=45.97  Aligned_cols=38  Identities=32%  Similarity=0.431  Sum_probs=31.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      +.+|+++ |..|+||||++..|+..+..   ++.+++.|...
T Consensus         6 ~~~i~i~-G~~GsGKSTl~~~l~~~~~~---~i~~v~~d~~~   43 (211)
T 3asz_A            6 PFVIGIA-GGTASGKTTLAQALARTLGE---RVALLPMDHYY   43 (211)
T ss_dssp             CEEEEEE-ESTTSSHHHHHHHHHHHHGG---GEEEEEGGGCB
T ss_pred             cEEEEEE-CCCCCCHHHHHHHHHHHhCC---CeEEEecCccc
Confidence            4588888 77899999999999887742   68999998754

>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=93.62  E-value=0.081  Score=48.23  Aligned_cols=38  Identities=34%  Similarity=0.414  Sum_probs=29.9

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHC----------CCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM----------GARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~----------G~rVllID~D~  212 (386)
                      .+++++ |.+|+||||++..++..++..          +.+|++++...
T Consensus        31 ~i~~i~-G~~GsGKTtl~~~l~~~~~~g~~~~g~~~~~~~~v~~~~~e~   78 (279)
T 1nlf_A           31 TVGALV-SPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAED   78 (279)
T ss_dssp             SEEEEE-ESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSS
T ss_pred             CEEEEE-cCCCCCHHHHHHHHHHHHhcCCCcCCCccCCCccEEEEECCC
Confidence            477777 999999999999999977642          35788877653

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=93.55  E-value=0.058  Score=46.46  Aligned_cols=36  Identities=19%  Similarity=0.147  Sum_probs=27.4

Q ss_pred             cCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          170 QKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       170 ~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      ...+++|+|+ |..|+||||++..|+..+   |.  ..+|+|
T Consensus        12 ~~~~~~I~l~-G~~GsGKsT~~~~L~~~~---g~--~~i~~d   47 (203)
T 1ukz_A           12 PDQVSVIFVL-GGPGAGKGTQCEKLVKDY---SF--VHLSAG   47 (203)
T ss_dssp             TTTCEEEEEE-CSTTSSHHHHHHHHHHHS---SC--EEEEHH
T ss_pred             CCCCcEEEEE-CCCCCCHHHHHHHHHHHc---Cc--eEEeHH
Confidence            3445678777 889999999999988764   54  567776

>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=93.54  E-value=0.088  Score=44.09  Aligned_cols=34  Identities=32%  Similarity=0.425  Sum_probs=26.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +++|+++ |..|+||||++..|+..+   |  ..++|.|.
T Consensus         8 g~~i~l~-G~~GsGKSTl~~~l~~~~---g--~~~i~~d~   41 (175)
T 1knq_A            8 HHIYVLM-GVSGSGKSAVASEVAHQL---H--AAFLDGDF   41 (175)
T ss_dssp             SEEEEEE-CSTTSCHHHHHHHHHHHH---T--CEEEEGGG
T ss_pred             CcEEEEE-cCCCCCHHHHHHHHHHhh---C--cEEEeCcc
Confidence            4577777 899999999999998876   4  35678774

>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=93.50  E-value=0.056  Score=49.93  Aligned_cols=40  Identities=18%  Similarity=0.157  Sum_probs=31.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCC--CcEEEE-EcCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMG--ARVGIF-DADVY  213 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G--~rVllI-D~D~~  213 (386)
                      +.+|+|+ |..|+||||++..|+..+...|  .++..+ ..|..
T Consensus        31 ~~ii~I~-G~sGsGKSTla~~L~~~l~~~g~~~~~~~iv~~D~f   73 (290)
T 1odf_A           31 PLFIFFS-GPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   73 (290)
T ss_dssp             CEEEEEE-CCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHhhhcCCCCceEEEeccccc
Confidence            3578887 8899999999999999998654  444444 88864

>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=93.50  E-value=1  Score=37.72  Aligned_cols=87  Identities=15%  Similarity=0.120  Sum_probs=51.4

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCceec
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      .+.+.|+|+++... ..    .+..+|.+++|..... .++..+...+..+...    +.++ -+|.|+++.......  
T Consensus        66 ~~~l~i~Dt~G~~~-~~----~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi-ilv~nK~Dl~~~~~~--  137 (184)
T 3ihw_A           66 SYLLLIRDEGGPPE-LQ----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPM-VLVGTQDAISAANPR--  137 (184)
T ss_dssp             EEEEEEEECSSSCC-HH----HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCE-EEEEECTTCBTTBCC--
T ss_pred             EEEEEEEECCCChh-hh----eecCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCE-EEEEECccccccccc--
Confidence            46678899985432 22    1334688888876554 4566666666666553    3454 488899886321111  


Q ss_pred             ccCCChHHHHHHHhC-CCeEE
Q 016622          355 PFGRGSGSQVVQQFG-IPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g-~pvl~  374 (386)
                      ........++++.++ .+++.
T Consensus       138 ~v~~~~~~~~~~~~~~~~~~e  158 (184)
T 3ihw_A          138 VIDDSRARKLSTDLKRCTYYE  158 (184)
T ss_dssp             CSCHHHHHHHHHHTTTCEEEE
T ss_pred             ccCHHHHHHHHHHcCCCeEEE
Confidence            112234667778876 66543

>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=93.47  E-value=0.063  Score=47.40  Aligned_cols=38  Identities=18%  Similarity=0.110  Sum_probs=31.1

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHH------CCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAG------MGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~------~G~rVllID~D~  212 (386)
                      .+++++ |..|+||||++..+|...+.      .+.+|++++.+.
T Consensus        25 ~~~~i~-G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~   68 (243)
T 1n0w_A           25 SITEMF-GEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEG   68 (243)
T ss_dssp             SEEEEE-CCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             eEEEEE-CCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCC
Confidence            477777 89999999999999986443      367999999875

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=93.46  E-value=0.054  Score=47.16  Aligned_cols=39  Identities=18%  Similarity=0.222  Sum_probs=28.6

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHH-----HCC-CcEEEEEcC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLA-----GMG-ARVGIFDAD  211 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La-----~~G-~rVllID~D  211 (386)
                      |+.++.|+ |..|+|||+.|..++..++     +.| +++.+..+|
T Consensus         4 ~~mi~l~t-G~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~   48 (199)
T 2r2a_A            4 MAEICLIT-GTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIK   48 (199)
T ss_dssp             CCCEEEEE-CCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCT
T ss_pred             ceeEEEEE-eCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCC
Confidence            44566666 9999999999998877765     567 666556544

>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=93.43  E-value=0.023  Score=49.36  Aligned_cols=35  Identities=23%  Similarity=0.373  Sum_probs=30.0

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      +|+|. |-.|+||||++..|+..|...|.+|.++.-
T Consensus         2 ~I~i~-G~~GsGKsTl~~~L~~~l~~~g~~v~~~~~   36 (214)
T 1gtv_A            2 LIAIE-GVDGAGKRTLVEKLSGAFRAAGRSVATLAF   36 (214)
T ss_dssp             EEEEE-EEEEEEHHHHHHHHHHHHHEEEEEEEEEES
T ss_pred             EEEEE-cCCCCCHHHHHHHHHHHHHhcCCeEEEEee
Confidence            56666 788999999999999999888888887753

>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=93.39  E-value=0.14  Score=50.10  Aligned_cols=68  Identities=13%  Similarity=0.144  Sum_probs=47.7

Q ss_pred             CCCcEEEEcCCCCCCh-HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGD-IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~-~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|||+ ..+ .......+..+|.+++|+...........+.+..+...+.+.+-+|+||++..
T Consensus       102 ~~~~~~iiDtpG-h~~f~~~~~~~~~~aD~~ilVvDa~~g~~~qt~~~l~~~~~~~~~~iIvviNK~Dl~  170 (434)
T 1zun_B          102 AKRKFIIADTPG-HEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSYIASLLGIKHIVVAINKMDLN  170 (434)
T ss_dssp             SSEEEEEEECCC-SGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEEECTTTT
T ss_pred             CCceEEEEECCC-hHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEEcCcCC
Confidence            456799999985 433 22222335568999999988765445566666777777887667889999864

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=93.38  E-value=0.071  Score=50.33  Aligned_cols=34  Identities=15%  Similarity=0.284  Sum_probs=27.9

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      ++|+|+ |-.|+||||+|..||..+     .+.+|++|-.
T Consensus         8 ~lI~I~-GptgSGKTtla~~La~~l-----~~~iis~Ds~   41 (340)
T 3d3q_A            8 FLIVIV-GPTASGKTELSIEVAKKF-----NGEIISGDSM   41 (340)
T ss_dssp             EEEEEE-CSTTSSHHHHHHHHHHHT-----TEEEEECCSS
T ss_pred             ceEEEE-CCCcCcHHHHHHHHHHHc-----CCceeccccc
Confidence            466666 889999999999998876     2789999965

>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=93.37  E-value=0.062  Score=45.63  Aligned_cols=33  Identities=24%  Similarity=0.369  Sum_probs=24.8

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      ++.|.++ |-.|+||||++..|+..+   |..  ++|.|
T Consensus         5 ~~~I~l~-G~~GsGKST~~~~L~~~l---~~~--~i~~D   37 (193)
T 2rhm_A            5 PALIIVT-GHPATGKTTLSQALATGL---RLP--LLSKD   37 (193)
T ss_dssp             CEEEEEE-ESTTSSHHHHHHHHHHHH---TCC--EEEHH
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHc---CCe--EecHH
Confidence            3466665 889999999999999877   544  45655

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=93.35  E-value=0.068  Score=48.22  Aligned_cols=33  Identities=18%  Similarity=0.185  Sum_probs=25.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      ++|+|+ |..|+||||+|..||..+   |.  .+++.|-
T Consensus         2 ~li~I~-G~~GSGKSTla~~La~~~---~~--~~i~~D~   34 (253)
T 2ze6_A            2 LLHLIY-GPTCSGKTDMAIQIAQET---GW--PVVALDR   34 (253)
T ss_dssp             EEEEEE-CCTTSSHHHHHHHHHHHH---CC--CEEECCS
T ss_pred             eEEEEE-CCCCcCHHHHHHHHHhcC---CC--eEEeccH
Confidence            466665 899999999999998866   33  4577775

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=93.34  E-value=0.072  Score=49.83  Aligned_cols=37  Identities=11%  Similarity=0.152  Sum_probs=31.4

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHC--CCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGM--GARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~--G~rVllID~D~  212 (386)
                      ++.| .+-.|+||||++.+++..+++.  |.+|++||+.-
T Consensus        30 iteI-~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~   68 (333)
T 3io5_A           30 LLIL-AGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEF   68 (333)
T ss_dssp             EEEE-EESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSC
T ss_pred             eEEE-ECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccc
Confidence            4444 4889999999999999999876  88999999864

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=93.33  E-value=0.053  Score=46.74  Aligned_cols=34  Identities=24%  Similarity=0.249  Sum_probs=26.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      ++.|+++ |-.|+||||++..||..+   |..  ++|.|.
T Consensus        25 ~~~i~l~-G~~GsGKsTl~~~La~~l---~~~--~i~~d~   58 (199)
T 3vaa_A           25 MVRIFLT-GYMGAGKTTLGKAFARKL---NVP--FIDLDW   58 (199)
T ss_dssp             CCEEEEE-CCTTSCHHHHHHHHHHHH---TCC--EEEHHH
T ss_pred             CCEEEEE-cCCCCCHHHHHHHHHHHc---CCC--EEcchH
Confidence            3577776 899999999999999887   443  456653

>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=93.25  E-value=1.1  Score=36.80  Aligned_cols=86  Identities=14%  Similarity=0.117  Sum_probs=47.3

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC------CCCeEEEEEcCCcCCCCCce
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL------KVPCIAVVENMCHFDADGKR  352 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~------~~~i~gvVlN~~~~~~~~~~  352 (386)
                      .+.+.|+|+|+... .  ..  +..+|.+++|..... .++..+...++.+...      +.+ +-+|.|+++......+
T Consensus        53 ~~~l~i~Dt~G~~~-~--~~--~~~~d~~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~p-iilv~nK~Dl~~~~~~  126 (178)
T 2iwr_A           53 THLVLIREEAGAPD-A--KF--SGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLA-LALVGTQDRISASSPR  126 (178)
T ss_dssp             EEEEEEEECSSSCC-H--HH--HHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCE-EEEEEECTTCBTTBCC
T ss_pred             EEEEEEEECCCCch-h--HH--HHhCCEEEEEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccccccccC
Confidence            45688999986433 1  11  334688898887654 4566666644444332      344 5588999886321111


Q ss_pred             ecccCCChHHHHHHHh-CCCeE
Q 016622          353 YYPFGRGSGSQVVQQF-GIPHL  373 (386)
Q Consensus       353 ~~~~~~~~~~~i~~~~-g~pvl  373 (386)
                        ........++++.+ +.+++
T Consensus       127 --~v~~~~~~~~~~~~~~~~~~  146 (178)
T 2iwr_A          127 --VVGDARARALXADMKRCSYY  146 (178)
T ss_dssp             --CSCHHHHHHHHHHHSSEEEE
T ss_pred             --cCCHHHHHHHHHhhcCCeEE
Confidence              01112345566665 45544

>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=93.24  E-value=0.052  Score=47.01  Aligned_cols=37  Identities=27%  Similarity=0.376  Sum_probs=28.2

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      .+.+|+++ |..|+||||++..|+..+.    .+.+++.|..
T Consensus        20 ~~~~i~i~-G~~GsGKSTl~~~L~~~~~----~~~~i~~D~~   56 (207)
T 2qt1_A           20 KTFIIGIS-GVTNSGKTTLAKNLQKHLP----NCSVISQDDF   56 (207)
T ss_dssp             CCEEEEEE-ESTTSSHHHHHHHHHTTST----TEEEEEGGGG
T ss_pred             CCeEEEEE-CCCCCCHHHHHHHHHHhcC----CcEEEeCCcc
Confidence            34688888 7889999999887765431    5889999853

>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=93.21  E-value=0.048  Score=46.94  Aligned_cols=33  Identities=33%  Similarity=0.473  Sum_probs=26.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      ++|+++ |..|+||||++..||..+   |  .-++|.|.
T Consensus         3 ~~i~i~-G~~GsGKst~~~~la~~l---g--~~~~d~d~   35 (208)
T 3ake_A            3 GIVTID-GPSASGKSSVARRVAAAL---G--VPYLSSGL   35 (208)
T ss_dssp             SEEEEE-CSTTSSHHHHHHHHHHHH---T--CCEEEHHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHhc---C--Cceeccch
Confidence            478887 888999999999998876   3  45677774

>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=93.15  E-value=0.2  Score=49.24  Aligned_cols=69  Identities=16%  Similarity=0.081  Sum_probs=47.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHH-------HHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFI-------DVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~-------~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|||+-..-.......+..+|.+++|+........       ...+.+..+...+++.+-+++|+++..
T Consensus        83 ~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~~~v~~iivviNK~Dl~  158 (458)
T 1f60_A           83 PKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDSV  158 (458)
T ss_dssp             SSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTCCEEEEEEECGGGG
T ss_pred             CCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHHcCCCeEEEEEEccccc
Confidence            567899999996332222233334568999999998765333       556666667777887666889999864

>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=93.15  E-value=0.076  Score=45.88  Aligned_cols=34  Identities=32%  Similarity=0.408  Sum_probs=27.0

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      .+|+++ |..|+||||++..|+..+   |  .-+||+|-.
T Consensus        13 ~iIglt-G~~GSGKSTva~~L~~~l---g--~~vid~D~~   46 (192)
T 2grj_A           13 MVIGVT-GKIGTGKSTVCEILKNKY---G--AHVVNVDRI   46 (192)
T ss_dssp             EEEEEE-CSTTSSHHHHHHHHHHHH---C--CEEEEHHHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHhc---C--CEEEECcHH
Confidence            478888 889999999999888764   5  456888854

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=93.13  E-value=0.099  Score=45.63  Aligned_cols=36  Identities=22%  Similarity=0.216  Sum_probs=29.4

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      |++-|+|= |--|+||||.+..|+..|. +|++|.+.-
T Consensus         1 M~kFI~~E-G~dGsGKsTq~~~L~~~L~-~~~~v~~~~   36 (205)
T 4hlc_A            1 MSAFITFE-GPEGSGKTTVINEVYHRLV-KDYDVIMTR   36 (205)
T ss_dssp             -CEEEEEE-CCTTSCHHHHHHHHHHHHT-TTSCEEEEE
T ss_pred             CCCEEEEE-CCCCCcHHHHHHHHHHHHH-CCCCEEEee
Confidence            55677777 7789999999999999996 588888763

>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=93.09  E-value=0.068  Score=44.37  Aligned_cols=33  Identities=24%  Similarity=0.211  Sum_probs=25.2

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      ++|+++ |-.|+||||++..|+..+   |+.  ++|.|.
T Consensus         2 ~~i~l~-G~~GsGKsT~~~~L~~~l---~~~--~i~~d~   34 (173)
T 3kb2_A            2 TLIILE-GPDCCFKSTVAAKLSKEL---KYP--IIKGSS   34 (173)
T ss_dssp             CEEEEE-CSSSSSHHHHHHHHHHHH---CCC--EEECCC
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHh---CCe--eecCcc
Confidence            466666 899999999999988776   443  577774

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=93.01  E-value=0.069  Score=53.32  Aligned_cols=40  Identities=15%  Similarity=0.159  Sum_probs=33.4

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHH-C-CCcEEEEEcCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAG-M-GARVGIFDADV  212 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~-~-G~rVllID~D~  212 (386)
                      .+.+|.++ |-.|+||||++..||..|.. + |+.+-++|.|.
T Consensus       394 ~~~~I~l~-GlsGsGKSTIa~~La~~L~~~~g~r~~~~lDgD~  435 (511)
T 1g8f_A          394 QGFSIVLG-NSLTVSREQLSIALLSTFLQFGGGRYYKIFEHNN  435 (511)
T ss_dssp             CCEEEEEC-TTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCTT
T ss_pred             cceEEEec-ccCCCCHHHHHHHHHHHHHHhhcCcceEEecCCC
Confidence            34567776 88899999999999999986 5 47788999987

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=92.99  E-value=0.46  Score=41.74  Aligned_cols=37  Identities=16%  Similarity=0.018  Sum_probs=30.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      +.+..++ |--|+||||....++..+..+|++|+++-.
T Consensus        28 G~I~vit-G~M~sGKTT~Llr~~~r~~~~g~kvli~kp   64 (219)
T 3e2i_A           28 GWIECIT-GSMFSGKSEELIRRLRRGIYAKQKVVVFKP   64 (219)
T ss_dssp             CEEEEEE-ECTTSCHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             ceEEEEE-CCCCCCHHHHHHHHHHHHHHcCCceEEEEe
Confidence            3455555 778999999999999999999999999954

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=92.98  E-value=0.053  Score=46.31  Aligned_cols=33  Identities=21%  Similarity=0.270  Sum_probs=26.0

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +++|+++ |..|+||||++..||..+   |  ...+|.|
T Consensus        12 ~~~I~l~-G~~GsGKsT~a~~L~~~l---~--~~~i~~d   44 (199)
T 2bwj_A           12 CKIIFII-GGPGSGKGTQCEKLVEKY---G--FTHLSTG   44 (199)
T ss_dssp             SCEEEEE-ECTTSSHHHHHHHHHHHH---T--CEEEEHH
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHHh---C--CeEEcHH
Confidence            4577777 889999999999999877   3  4567765

>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=92.83  E-value=0.093  Score=44.58  Aligned_cols=34  Identities=21%  Similarity=0.269  Sum_probs=25.7

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +.|.++ |..|+||||++..||..+  .|  .-++|+|-
T Consensus        11 ~~I~l~-G~~GsGKSTv~~~La~~l--~g--~~~id~d~   44 (184)
T 1y63_A           11 INILIT-GTPGTGKTSMAEMIAAEL--DG--FQHLEVGK   44 (184)
T ss_dssp             CEEEEE-CSTTSSHHHHHHHHHHHS--TT--EEEEEHHH
T ss_pred             CEEEEE-CCCCCCHHHHHHHHHHhc--CC--CEEeeHHH
Confidence            467776 889999999999888753  24  56688773

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=92.79  E-value=0.068  Score=48.11  Aligned_cols=39  Identities=18%  Similarity=0.295  Sum_probs=29.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGP  215 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~  215 (386)
                      +++|.++ |..|+||||++..|+..+   +..+.++|.|..+.
T Consensus        32 ~~~i~l~-G~~GsGKSTla~~L~~~l---~~~~~~~~~D~~r~   70 (253)
T 2p5t_B           32 PIAILLG-GQSGAGKTTIHRIKQKEF---QGNIVIIDGDSFRS   70 (253)
T ss_dssp             CEEEEEE-SCGGGTTHHHHHHHHHHT---TTCCEEECGGGGGT
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHhc---CCCcEEEecHHHHH
Confidence            3456665 899999999999998765   34567889986543

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=92.75  E-value=0.1  Score=43.50  Aligned_cols=26  Identities=27%  Similarity=0.339  Sum_probs=21.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHH
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAG  200 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~  200 (386)
                      +.+.++ |..|+||||++..++..+..
T Consensus        44 ~~vll~-G~~G~GKT~la~~~~~~~~~   69 (187)
T 2p65_A           44 NNPILL-GDPGVGKTAIVEGLAIKIVQ   69 (187)
T ss_dssp             CEEEEE-SCGGGCHHHHHHHHHHHHHT
T ss_pred             CceEEE-CCCCCCHHHHHHHHHHHHHh
Confidence            355555 88999999999999999876

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=92.75  E-value=1.2  Score=41.91  Aligned_cols=67  Identities=16%  Similarity=0.130  Sum_probs=38.8

Q ss_pred             CCcEEEEcCCCCCChH---------HHhhhhhcCCCeEEEEeCCCcc---hHHHHHHHHHHHHc-C-CCCeEEEEEcCCc
Q 016622          280 ELDYLVIDMPPGTGDI---------QLTLCQVVPLTAAVIVTTPQKL---AFIDVAKGVRMFSK-L-KVPCIAVVENMCH  345 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~---------~~~~~~~~~~d~vviV~~~~~~---s~~~~~~~~~~l~~-~-~~~i~gvVlN~~~  345 (386)
                      .+++.++|||+.....         .........+|.+++|...+..   +.....+.+..+.. . +.++ -+|.|+++
T Consensus       213 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~~~pi-ilV~NK~D  291 (357)
T 2e87_A          213 YFRYQIIDTPGLLDRPISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFKDLPF-LVVINKID  291 (357)
T ss_dssp             TEEEEEEECTTTSSSCSTTSCHHHHHHHHGGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTTTSCE-EEEECCTT
T ss_pred             CceEEEEeCCCccccchhhhhHHHHHHHHHHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcCCCCE-EEEEECcc
Confidence            4578899998643210         1111112246888888885543   45555555555544 2 4554 48889988


Q ss_pred             CC
Q 016622          346 FD  347 (386)
Q Consensus       346 ~~  347 (386)
                      ..
T Consensus       292 l~  293 (357)
T 2e87_A          292 VA  293 (357)
T ss_dssp             TC
T ss_pred             cC
Confidence            64

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=92.74  E-value=0.11  Score=44.71  Aligned_cols=34  Identities=32%  Similarity=0.406  Sum_probs=27.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +++|+++ |..|+||||++..|+..+   |  ..++|.|.
T Consensus        29 g~~i~l~-G~~GsGKSTl~~~L~~~~---g--~~~i~~d~   62 (200)
T 4eun_A           29 TRHVVVM-GVSGSGKTTIAHGVADET---G--LEFAEADA   62 (200)
T ss_dssp             CCEEEEE-CCTTSCHHHHHHHHHHHH---C--CEEEEGGG
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHhh---C--CeEEcccc
Confidence            3577777 999999999999999877   5  35677765

>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=92.73  E-value=0.15  Score=44.73  Aligned_cols=35  Identities=31%  Similarity=0.268  Sum_probs=30.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      +.|+|. |-.|+||||.+..|+..|...|++|.+..
T Consensus         7 ~~i~~e-G~~gsGKsT~~~~l~~~l~~~~~~v~~~~   41 (213)
T 4edh_A            7 LFVTLE-GPEGAGKSTNRDYLAERLRERGIEVQLTR   41 (213)
T ss_dssp             EEEEEE-CSTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             eEEEEE-cCCCCCHHHHHHHHHHHHHHcCCCccccc
Confidence            466666 88999999999999999999999997664

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=92.66  E-value=0.11  Score=46.90  Aligned_cols=20  Identities=50%  Similarity=0.604  Sum_probs=16.8

Q ss_pred             EEEEEeCcCCCCHHHHHHHHH
Q 016622          175 IVAVSSCKGGVGKSTVAVNLA  195 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA  195 (386)
                      .|++. |..|+||||+.-.|.
T Consensus        38 ~I~lv-G~~g~GKSSLin~l~   57 (262)
T 3def_A           38 TVLVL-GKGGVGKSSTVNSLI   57 (262)
T ss_dssp             EEEEE-ECTTSSHHHHHHHHH
T ss_pred             EEEEE-CCCCCCHHHHHHHHh
Confidence            56776 999999999987775

>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=92.40  E-value=0.21  Score=47.14  Aligned_cols=80  Identities=14%  Similarity=0.109  Sum_probs=47.3

Q ss_pred             CcEEEEcCCCCC-------ChHHHhhhhhcCCCeEEEEeCCC----cchHHHHHHHHHHHHcC-----CCCeEEEEEcCC
Q 016622          281 LDYLVIDMPPGT-------GDIQLTLCQVVPLTAAVIVTTPQ----KLAFIDVAKGVRMFSKL-----KVPCIAVVENMC  344 (386)
Q Consensus       281 yD~VIIDtpp~~-------~~~~~~~~~~~~~d~vviV~~~~----~~s~~~~~~~~~~l~~~-----~~~i~gvVlN~~  344 (386)
                      +.++|+|+|+-.       +-....+..+..+|.+++|+...    ..++.+.....+.+...     +.+ .-+|+||+
T Consensus       206 ~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p-~ilV~NK~  284 (342)
T 1lnz_A          206 RSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERP-QIIVANKM  284 (342)
T ss_dssp             CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSC-BCBEEECT
T ss_pred             ceEEEecCCCCcccccccchhHHHHHHHHHhccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCC-EEEEEECc
Confidence            578999998511       00111122233468889888875    35677777777777653     344 45889999


Q ss_pred             cCCCCCceecccCCChHHHHHHHhC
Q 016622          345 HFDADGKRYYPFGRGSGSQVVQQFG  369 (386)
Q Consensus       345 ~~~~~~~~~~~~~~~~~~~i~~~~g  369 (386)
                      +.....        ...+++.+.++
T Consensus       285 Dl~~~~--------e~~~~l~~~l~  301 (342)
T 1lnz_A          285 DMPEAA--------ENLEAFKEKLT  301 (342)
T ss_dssp             TSTTHH--------HHHHHHHHHCC
T ss_pred             cCCCCH--------HHHHHHHHHhh
Confidence            854210        13455666665

>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=92.38  E-value=0.11  Score=44.68  Aligned_cols=34  Identities=32%  Similarity=0.282  Sum_probs=26.0

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +++.|.++ |-.|+||||++..|+..+   |..  ++|+|
T Consensus        19 ~~~~I~l~-G~~GsGKST~a~~La~~l---~~~--~i~~d   52 (201)
T 2cdn_A           19 SHMRVLLL-GPPGAGKGTQAVKLAEKL---GIP--QISTG   52 (201)
T ss_dssp             SCCEEEEE-CCTTSSHHHHHHHHHHHH---TCC--EEEHH
T ss_pred             CCeEEEEE-CCCCCCHHHHHHHHHHHh---CCc--EEehh
Confidence            44577776 889999999999999877   554  46654

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=92.28  E-value=0.11  Score=43.92  Aligned_cols=32  Identities=25%  Similarity=0.241  Sum_probs=24.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      ++|+++ |..|+||||++..|+..+   |.  ..+|.|
T Consensus         4 ~~I~l~-G~~GsGKsT~a~~L~~~~---~~--~~i~~d   35 (196)
T 1tev_A            4 LVVFVL-GGPGAGKGTQCARIVEKY---GY--THLSAG   35 (196)
T ss_dssp             EEEEEE-CCTTSSHHHHHHHHHHHH---CC--EEEEHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHh---CC--eEEeHH
Confidence            466666 899999999999998776   44  457765

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=92.27  E-value=0.18  Score=43.65  Aligned_cols=33  Identities=30%  Similarity=0.247  Sum_probs=28.9

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      |+|= |--|+||||.+..|+..|..+|++|.+..
T Consensus         3 I~~E-G~DGsGKsTq~~~L~~~L~~~g~~v~~tr   35 (197)
T 3hjn_A            3 ITFE-GIDGSGKSTQIQLLAQYLEKRGKKVILKR   35 (197)
T ss_dssp             EEEE-CSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            4454 77899999999999999999999998874

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=92.25  E-value=0.11  Score=43.30  Aligned_cols=34  Identities=26%  Similarity=0.362  Sum_probs=26.3

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +.+|+++ |-.|+||||++..||..|   |.+  ++|+|.
T Consensus         7 ~~~i~l~-G~~GsGKSTva~~La~~l---g~~--~id~D~   40 (168)
T 1zuh_A            7 MQHLVLI-GFMGSGKSSLAQELGLAL---KLE--VLDTDM   40 (168)
T ss_dssp             -CEEEEE-SCTTSSHHHHHHHHHHHH---TCC--EEEHHH
T ss_pred             cceEEEE-CCCCCCHHHHHHHHHHHh---CCC--EEEChH
Confidence            4578887 889999999999998876   554  467764

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=92.25  E-value=0.16  Score=45.32  Aligned_cols=39  Identities=28%  Similarity=0.271  Sum_probs=30.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHC-----CCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGM-----GARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~-----G~rVllID~D~  212 (386)
                      +.+|+++ |..|+||||++..|+..+...     ..++.+++.|.
T Consensus        25 g~iigI~-G~~GsGKSTl~k~L~~~lG~~~~~~~~~~i~~v~~d~   68 (245)
T 2jeo_A           25 PFLIGVS-GGTASGKSTVCEKIMELLGQNEVEQRQRKVVILSQDR   68 (245)
T ss_dssp             SEEEEEE-CSTTSSHHHHHHHHHHHHTGGGSCGGGCSEEEEEGGG
T ss_pred             CEEEEEE-CCCCCCHHHHHHHHHHHhchhcccccCCceEEEeCCc
Confidence            3589998 889999999999998877321     24678888874

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=92.21  E-value=0.36  Score=43.59  Aligned_cols=20  Identities=40%  Similarity=0.591  Sum_probs=16.4

Q ss_pred             EEEEEeCcCCCCHHHHHHHHH
Q 016622          175 IVAVSSCKGGVGKSTVAVNLA  195 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA  195 (386)
                      .|++. |..|+||||+.-.|.
T Consensus        41 ~I~vv-G~~g~GKSSLin~l~   60 (270)
T 1h65_A           41 TILVM-GKGGVGKSSTVNSII   60 (270)
T ss_dssp             EEEEE-ESTTSSHHHHHHHHH
T ss_pred             EEEEE-CCCCCCHHHHHHHHh
Confidence            67777 899999999987665

>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=92.21  E-value=0.088  Score=43.55  Aligned_cols=28  Identities=32%  Similarity=0.414  Sum_probs=21.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEE
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGI  207 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVll  207 (386)
                      +|+++ |..|+||||++..|    .+.|..++-
T Consensus         3 ~I~l~-G~~GsGKsT~a~~L----~~~g~~~i~   30 (179)
T 3lw7_A            3 VILIT-GMPGSGKSEFAKLL----KERGAKVIV   30 (179)
T ss_dssp             EEEEE-CCTTSCHHHHHHHH----HHTTCEEEE
T ss_pred             EEEEE-CCCCCCHHHHHHHH----HHCCCcEEE
Confidence            56666 99999999999988    556776543

>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=92.14  E-value=0.12  Score=47.29  Aligned_cols=34  Identities=35%  Similarity=0.453  Sum_probs=26.4

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+++|+|+ |..|+||||++..|+ .   .|.  -+||+|.
T Consensus        74 ~~~iI~I~-G~~GSGKSTva~~La-~---lg~--~~id~D~  107 (281)
T 2f6r_A           74 GLYVLGLT-GISGSGKSSVAQRLK-N---LGA--YIIDSDH  107 (281)
T ss_dssp             TCEEEEEE-ECTTSCHHHHHHHHH-H---HTC--EEEEHHH
T ss_pred             CCEEEEEE-CCCCCCHHHHHHHHH-H---CCC--cEEehhH
Confidence            45688888 888999999999998 3   365  4588874

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=92.13  E-value=0.15  Score=45.16  Aligned_cols=40  Identities=23%  Similarity=0.200  Sum_probs=33.0

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHH-CCCcEEEEEcCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAG-MGARVGIFDADVY  213 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~-~G~rVllID~D~~  213 (386)
                      ++.|+|. |-.|+||||++..|+..|.. .|++|.++--.|.
T Consensus        21 ~~~i~~~-G~~g~GKst~~~~l~~~l~~~~g~~v~~~treP~   61 (223)
T 3ld9_A           21 SMFITFE-GIDGSGKTTQSHLLAEYLSEIYGVNNVVLTREPG   61 (223)
T ss_dssp             CEEEEEE-CSTTSSHHHHHHHHHHHHHHHHCGGGEEEEESSC
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHhhccCceeeEeeeCCC
Confidence            4566666 88999999999999999998 9999988444553

>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=92.12  E-value=0.12  Score=51.28  Aligned_cols=69  Identities=6%  Similarity=-0.093  Sum_probs=34.3

Q ss_pred             CCCcEEEEcCCCCCChHH---------HhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQ---------LTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~---------~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.|+|||+. .+..         .....+..+|.+++|+..... +........++++......+-+|+||++...
T Consensus       279 ~g~~l~liDT~G~-~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~~~piIvV~NK~Dl~~  357 (476)
T 3gee_A          279 DKTMFRLTDTAGL-REAGEEIEHEGIRRSRMKMAEADLILYLLDLGTERLDDELTEIRELKAAHPAAKFLTVANKLDRAA  357 (476)
T ss_dssp             TTEEEEEEC---------------------CCCSSCSEEEEEEETTTCSSGGGHHHHHHHHHHCTTSEEEEEEECTTSCT
T ss_pred             CCeEEEEEECCCC-CcchhHHHHHHHHHHHhhcccCCEEEEEEECCCCcchhhhHHHHHHHHhcCCCCEEEEEECcCCCC
Confidence            4567999999863 2211         111224457999999887653 2221222333333332334558889998644

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=92.08  E-value=0.1  Score=48.64  Aligned_cols=39  Identities=15%  Similarity=0.210  Sum_probs=30.6

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHH------------HCC----CcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLA------------GMG----ARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La------------~~G----~rVllID~D~~  213 (386)
                      .++.|+ |..|+||||++.++|...+            +.|    .+|++||++..
T Consensus        99 ~i~~i~-G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~  153 (322)
T 2i1q_A           99 SVTEFA-GVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGT  153 (322)
T ss_dssp             EEEEEE-ESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSC
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCC
Confidence            455555 8899999999999998743            245    79999998753

>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=92.07  E-value=0.19  Score=44.87  Aligned_cols=34  Identities=24%  Similarity=0.251  Sum_probs=29.1

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCc-EEEE
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGAR-VGIF  208 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~r-VllI  208 (386)
                      +.|+|. |-.|+||||++..|+..|...|++ |.+.
T Consensus        28 ~~i~~e-G~~GsGKsT~~~~l~~~l~~~~~~~~~~~   62 (236)
T 3lv8_A           28 KFIVIE-GLEGAGKSTAIQVVVETLQQNGIDHITRT   62 (236)
T ss_dssp             CEEEEE-ESTTSCHHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHHhcCCCeeeee
Confidence            567766 888999999999999999999999 5554

>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=92.04  E-value=0.12  Score=43.86  Aligned_cols=34  Identities=41%  Similarity=0.451  Sum_probs=25.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      ++|+++ |..|+||||++..|+..   .+...+.+|.|
T Consensus        10 ~~i~l~-G~~GsGKSTl~~~La~~---~~~g~i~i~~d   43 (191)
T 1zp6_A           10 NILLLS-GHPGSGKSTIAEALANL---PGVPKVHFHSD   43 (191)
T ss_dssp             EEEEEE-ECTTSCHHHHHHHHHTC---SSSCEEEECTT
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHhc---cCCCeEEEccc
Confidence            567776 89999999999888764   34445667665

>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=91.98  E-value=0.39  Score=39.92  Aligned_cols=90  Identities=12%  Similarity=0.197  Sum_probs=48.7

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+.+.   +.+ +-+|.|+++.......   
T Consensus        56 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~Dl~~~~~v---  131 (183)
T 2fu5_C           56 RIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVE-KMILGNKCDVNDKRQV---  131 (183)
T ss_dssp             EEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE-EEEEEEC--CCSCCCS---
T ss_pred             EEEEEEEcCCCChhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECccCCccCcC---
Confidence            4678999998643211122222445789999888755 3556666666555442   344 4588999986432111   


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       .....+++++.++++++.
T Consensus       132 -~~~~~~~~~~~~~~~~~~  149 (183)
T 2fu5_C          132 -SKERGEKLALDYGIKFME  149 (183)
T ss_dssp             -CHHHHHHHHHHHTCEEEE
T ss_pred             -CHHHHHHHHHHcCCeEEE
Confidence             113466777888876653

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=91.96  E-value=0.11  Score=47.83  Aligned_cols=37  Identities=16%  Similarity=0.234  Sum_probs=27.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      .+.+.+|-.|+||||++..|+..+   +.....||+|..+
T Consensus        34 ~livl~G~sGsGKSTla~~L~~~~---~~~~~~Is~D~~R   70 (287)
T 1gvn_B           34 TAFLLGGQPGSGKTSLRSAIFEET---QGNVIVIDNDTFK   70 (287)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHHHT---TTCCEEECTHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh---CCCeEEEechHhH
Confidence            455566999999999999998755   2346778887544

>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=91.96  E-value=2.2  Score=40.53  Aligned_cols=37  Identities=16%  Similarity=0.214  Sum_probs=29.7

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHC-CCcEEEEEc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFDA  210 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~-G~rVllID~  210 (386)
                      ..+|+|+ |..|+||||+...|+..+... ..+++.++-
T Consensus       136 g~~i~iv-G~~GsGKTTll~~l~~~~~~~~~g~I~~~e~  173 (372)
T 2ewv_A          136 MGLILVT-GPTGSGKSTTIASMIDYINQTKSYHIITIED  173 (372)
T ss_dssp             SEEEEEE-CSSSSSHHHHHHHHHHHHHHHSCCEEEEEES
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHhhcCcCCCcEEEEecc
Confidence            4578887 888999999999999988754 457777763

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=91.94  E-value=0.18  Score=46.80  Aligned_cols=36  Identities=22%  Similarity=0.151  Sum_probs=31.7

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      .+.++ |..|+||||++..++..+...|.+++.++++
T Consensus        39 ~lll~-G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~   74 (324)
T 1l8q_A           39 PIFIY-GSVGTGKTHLLQAAGNEAKKRGYRVIYSSAD   74 (324)
T ss_dssp             SEEEE-CSSSSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             eEEEE-CCCCCcHHHHHHHHHHHHHHCCCEEEEEEHH
Confidence            56666 8889999999999999999889999999875

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=91.94  E-value=0.23  Score=44.10  Aligned_cols=39  Identities=13%  Similarity=-0.054  Sum_probs=32.7

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      .++++..++ |.-|.||||-+..++..+..+|++|+++..
T Consensus        17 ~~g~l~v~~-G~MgsGKTT~lL~~~~r~~~~g~kvli~kp   55 (234)
T 2orv_A           17 TRGQIQVIL-GPMFSGKSTELMRRVRRFQIAQYKCLVIKY   55 (234)
T ss_dssp             -CCEEEEEE-CCTTSCHHHHHHHHHHHHHTTTCCEEEEEE
T ss_pred             CceEEEEEE-CCCCCcHHHHHHHHHHHHHHCCCeEEEEee
Confidence            355655555 888999999999999999999999999984

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=91.79  E-value=0.22  Score=43.70  Aligned_cols=34  Identities=21%  Similarity=0.270  Sum_probs=28.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCC-cEEEE
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGA-RVGIF  208 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~-rVllI  208 (386)
                      +.|+|. |-.|+||||.+..|+..|...|+ .|.+.
T Consensus         4 ~~i~~e-G~~gsGKsT~~~~l~~~l~~~~~~~v~~~   38 (213)
T 4tmk_A            4 KYIVIE-GLEGAGKTTARNVVVETLEQLGIRDMVFT   38 (213)
T ss_dssp             CEEEEE-ECTTSCHHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHHHcCCCcceee
Confidence            467776 88899999999999999999998 66544

>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=91.79  E-value=0.12  Score=43.45  Aligned_cols=32  Identities=25%  Similarity=0.343  Sum_probs=24.2

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +.|.++ |-.|+||||++..||..+   |.  ..+|.|
T Consensus        12 ~~i~i~-G~~GsGKst~~~~l~~~~---~~--~~~~~d   43 (180)
T 3iij_A           12 PNILLT-GTPGVGKTTLGKELASKS---GL--KYINVG   43 (180)
T ss_dssp             CCEEEE-CSTTSSHHHHHHHHHHHH---CC--EEEEHH
T ss_pred             CeEEEE-eCCCCCHHHHHHHHHHHh---CC--eEEEHH
Confidence            456666 899999999999998876   43  445655

>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=91.76  E-value=0.19  Score=44.53  Aligned_cols=35  Identities=23%  Similarity=0.227  Sum_probs=29.1

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEE
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIF  208 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllI  208 (386)
                      +++.|+|. |-.|+||||++..|+..+.. |.+|+..
T Consensus        25 ~g~~i~i~-G~~GsGKsT~~~~l~~~l~~-~~~~~~~   59 (229)
T 4eaq_A           25 MSAFITFE-GPEGSGKTTVINEVYHRLVK-DYDVIMT   59 (229)
T ss_dssp             CCEEEEEE-CCTTSCHHHHHHHHHHHHTT-TSCEEEE
T ss_pred             CCeEEEEE-cCCCCCHHHHHHHHHHHHhc-CCCceee
Confidence            34577776 88999999999999999988 8888654

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=91.55  E-value=0.22  Score=45.71  Aligned_cols=40  Identities=28%  Similarity=0.207  Sum_probs=33.7

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      ..+.++ |..|+||||+|..+|..+...+..+..+|+....
T Consensus        48 ~~~ll~-G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~   87 (311)
T 4fcw_A           48 GSFLFL-GPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYM   87 (311)
T ss_dssp             EEEEEE-SCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCC
T ss_pred             eEEEEE-CCCCcCHHHHHHHHHHHHcCCCcceEEeeccccc
Confidence            366776 8899999999999999998878889999986543

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=91.52  E-value=0.076  Score=49.77  Aligned_cols=34  Identities=24%  Similarity=0.358  Sum_probs=28.2

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +++.+ .|.+|+||||++.++|..   .|.+|++++++
T Consensus       124 sviLI-~GpPGsGKTtLAlqlA~~---~G~~VlyIs~~  157 (331)
T 2vhj_A          124 GMVIV-TGKGNSGKTPLVHALGEA---LGGKDKYATVR  157 (331)
T ss_dssp             EEEEE-ECSCSSSHHHHHHHHHHH---HHTTSCCEEEE
T ss_pred             cEEEE-EcCCCCCHHHHHHHHHHh---CCCCEEEEEec
Confidence            35544 599999999999999987   67899999983

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=91.42  E-value=0.15  Score=43.37  Aligned_cols=33  Identities=24%  Similarity=0.301  Sum_probs=25.7

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +++|+++ |-.|+||||++..||..+   |.  ..+|.|
T Consensus         9 ~~~I~l~-G~~GsGKsT~~~~La~~l---~~--~~i~~d   41 (196)
T 2c95_A            9 TNIIFVV-GGPGSGKGTQCEKIVQKY---GY--THLSTG   41 (196)
T ss_dssp             SCEEEEE-ECTTSSHHHHHHHHHHHH---CC--EEEEHH
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHHh---CC--eEEcHH
Confidence            3577777 889999999999999877   44  356765

>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=91.35  E-value=0.16  Score=44.90  Aligned_cols=35  Identities=23%  Similarity=0.140  Sum_probs=26.5

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      ..++.|.|. |..|+||||++..||..+   |  ...+|+|
T Consensus        14 ~~~~~I~l~-G~~GsGKsT~a~~La~~l---~--~~~i~~d   48 (233)
T 1ak2_A           14 PKGVRAVLL-GPPGAGKGTQAPKLAKNF---C--VCHLATG   48 (233)
T ss_dssp             CCCCEEEEE-CCTTSSHHHHHHHHHHHH---T--CEEEEHH
T ss_pred             CCCeEEEEE-CCCCCCHHHHHHHHHHHh---C--CceecHH
Confidence            344567777 889999999999999887   3  3456664

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=91.33  E-value=0.071  Score=52.12  Aligned_cols=67  Identities=9%  Similarity=0.037  Sum_probs=38.9

Q ss_pred             CCcEEEEcCCCCC---------ChHH--HhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGT---------GDIQ--LTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~---------~~~~--~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ...+.|+|||+-.         ....  .....+..+|.+++|...... +.++ .+.+..+...+.+++ +|+||++..
T Consensus       222 ~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llv~D~~~~~s~~~-~~~~~~~~~~~~~ii-iv~NK~Dl~  299 (436)
T 2hjg_A          222 QQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQD-KRIAGYAHEAGKAVV-IVVNKWDAV  299 (436)
T ss_dssp             TEEEEETTHHHHTCBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTCCCHHH-HHHHHHHHHTTCEEE-EEEECGGGS
T ss_pred             CeEEEEEECCCcCcCccccchHHHHHHHHHHHHHHhCCEEEEEEcCCcCCcHHH-HHHHHHHHHcCCcEE-EEEECccCC
Confidence            3457888887521         1110  111223457888888877553 3333 355666666666644 888998864


Q ss_pred             C
Q 016622          348 A  348 (386)
Q Consensus       348 ~  348 (386)
                      .
T Consensus       300 ~  300 (436)
T 2hjg_A          300 D  300 (436)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=91.33  E-value=0.16  Score=44.41  Aligned_cols=33  Identities=27%  Similarity=0.218  Sum_probs=25.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      ++.|.|. |..|+||||++..||..+   |.  ..+|+|
T Consensus         4 ~~~I~l~-G~~GsGKsT~a~~La~~l---~~--~~i~~d   36 (220)
T 1aky_A            4 SIRMVLI-GPPGAGKGTQAPNLQERF---HA--AHLATG   36 (220)
T ss_dssp             CCEEEEE-CCTTSSHHHHHHHHHHHH---CC--EEEEHH
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHc---Cc--eEEehh
Confidence            3467777 889999999999999877   43  456663

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=91.29  E-value=0.16  Score=42.74  Aligned_cols=32  Identities=31%  Similarity=0.302  Sum_probs=24.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +.|+++ |-.|+||||++..||..+   |.  ..+|+|
T Consensus         5 ~~I~l~-G~~GsGKST~~~~La~~l---~~--~~i~~d   36 (186)
T 3cm0_A            5 QAVIFL-GPPGAGKGTQASRLAQEL---GF--KKLSTG   36 (186)
T ss_dssp             EEEEEE-CCTTSCHHHHHHHHHHHH---TC--EEECHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHh---CC--eEecHH
Confidence            467776 889999999999998876   43  456665

>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=91.23  E-value=0.17  Score=44.20  Aligned_cols=32  Identities=22%  Similarity=0.416  Sum_probs=25.0

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      .+|+++ |..|+||||++..|+..+   |  .-.+|.|
T Consensus         6 ~~i~i~-G~~GsGKSTl~~~L~~~~---g--~~~~d~g   37 (227)
T 1cke_A            6 PVITID-GPSGAGKGTLCKAMAEAL---Q--WHLLDSG   37 (227)
T ss_dssp             CEEEEE-CCTTSSHHHHHHHHHHHH---T--CEEEEHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHh---C--CCcccCc
Confidence            578888 889999999999988765   3  3456655

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=91.22  E-value=0.21  Score=56.72  Aligned_cols=41  Identities=20%  Similarity=0.235  Sum_probs=35.6

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      +.++.|+ +.+|+||||++.++|...++.|.+|++||++...
T Consensus       383 G~lilI~-G~pGsGKTtLaLq~a~~~~~~G~~vlyis~E~s~  423 (1706)
T 3cmw_A          383 GRIVEIY-GPESSGKTTLTLQVIAAAQREGKTCAFIDAEHAL  423 (1706)
T ss_dssp             TSEEEEE-CSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCC
T ss_pred             CcEEEEE-eCCCCCHHHHHHHHHHHHHHhCCCeEEEEccCch
Confidence            3466665 9999999999999999999999999999998643

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=91.14  E-value=0.21  Score=56.61  Aligned_cols=39  Identities=21%  Similarity=0.281  Sum_probs=34.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      .+|.++ +..|+||||++.++|..+++.|.+|+++++...
T Consensus       733 ~lVlI~-G~PG~GKTtLal~lA~~aa~~g~~VlyiS~Ees  771 (1706)
T 3cmw_A          733 RIVEIY-GPESSGKTTLTLQVIAAAQREGKTCAFIDAEHA  771 (1706)
T ss_dssp             SEEEEE-CSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSC
T ss_pred             ceEEEE-CCCCCCcHHHHHHHHHHHHHcCCCeEEEeccch
Confidence            456665 999999999999999999999999999998754

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=91.09  E-value=0.2  Score=44.49  Aligned_cols=35  Identities=20%  Similarity=0.212  Sum_probs=26.9

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHC----CCcEEEEE
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM----GARVGIFD  209 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~----G~rVllID  209 (386)
                      +.|+|. |-.|+||||++..|+..|...    |++|.+.-
T Consensus        26 ~~I~~e-G~~GsGKsT~~~~l~~~l~~~~~~~g~~v~~~r   64 (227)
T 3v9p_A           26 KFITFE-GIDGAGKTTHLQWFCDRLQERLGPAGRHVVVTR   64 (227)
T ss_dssp             CEEEEE-CCC---CHHHHHHHHHHHHHHHGGGTCCEEEEE
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHHHhhccccceeeeeec
Confidence            466666 899999999999999999988    99997653

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=91.07  E-value=0.12  Score=42.17  Aligned_cols=36  Identities=17%  Similarity=-0.006  Sum_probs=28.3

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      -|.++ |..|+|||++|..++....+.+...+ +++..
T Consensus        26 ~vll~-G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~~   61 (145)
T 3n70_A           26 AVWLY-GAPGTGRMTGARYLHQFGRNAQGEFV-YRELT   61 (145)
T ss_dssp             CEEEE-SSTTSSHHHHHHHHHHSSTTTTSCCE-EEECC
T ss_pred             CEEEE-CCCCCCHHHHHHHHHHhCCccCCCEE-EECCC
Confidence            35555 88999999999999887766677777 87753

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=91.01  E-value=0.73  Score=43.34  Aligned_cols=35  Identities=20%  Similarity=0.422  Sum_probs=27.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      ++|.|+ |-.|+||||++..||..+     ..-+||+|-.+
T Consensus        41 ~lIvI~-GPTgsGKTtLa~~LA~~l-----~~eiIs~Ds~q   75 (339)
T 3a8t_A           41 KLLVLM-GATGTGKSRLSIDLAAHF-----PLEVINSDKMQ   75 (339)
T ss_dssp             EEEEEE-CSTTSSHHHHHHHHHTTS-----CEEEEECCSST
T ss_pred             ceEEEE-CCCCCCHHHHHHHHHHHC-----CCcEEcccccc
Confidence            466665 889999999999888754     46789999653

>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=90.38  E-value=0.042  Score=47.25  Aligned_cols=69  Identities=13%  Similarity=0.041  Sum_probs=37.9

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHH-HHHHHHHcC--CCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVA-KGVRMFSKL--KVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~-~~~~~l~~~--~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.|+|+|+...........+..+|.+++|..... .++..+. ..+..+...  +.+ +-+|.|+++...
T Consensus        76 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~~l~~~~~~~p-iilv~NK~Dl~~  148 (204)
T 3th5_A           76 KPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTP-IILVGTKLDLRD  148 (204)
Confidence            34567789998633211111122334688888877543 3444444 344444443  444 448889988643

>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=90.92  E-value=0.17  Score=46.37  Aligned_cols=35  Identities=23%  Similarity=0.077  Sum_probs=25.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +++|.+. |-.|+||||++..|+..+  .  ....+|.|.
T Consensus         2 ~~~I~l~-G~~GsGKST~a~~L~~~~--~--~~~~i~~D~   36 (301)
T 1ltq_A            2 KKIILTI-GCPGSGKSTWAREFIAKN--P--GFYNINRDD   36 (301)
T ss_dssp             CEEEEEE-CCTTSSHHHHHHHHHHHS--T--TEEEECHHH
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHhC--C--CcEEecccH
Confidence            3456665 999999999999888732  2  356777763

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=90.89  E-value=0.22  Score=47.04  Aligned_cols=37  Identities=11%  Similarity=0.074  Sum_probs=30.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHC--------CCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM--------GARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~--------G~rVllID~D  211 (386)
                      +.+.++ |.+|+||||++..++..+...        +..++.+++.
T Consensus        46 ~~vll~-G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~   90 (384)
T 2qby_B           46 FSNLFL-GLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCR   90 (384)
T ss_dssp             CEEEEE-ECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHH
T ss_pred             CcEEEE-CCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECc
Confidence            456666 999999999999999998765        7888888864

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=90.80  E-value=0.25  Score=50.06  Aligned_cols=34  Identities=29%  Similarity=0.440  Sum_probs=29.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEE
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIF  208 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllI  208 (386)
                      +.+.|+ |-+|+||||++..++..+...|++|+++
T Consensus       205 ~~~~I~-G~pGTGKTt~i~~l~~~l~~~g~~Vl~~  238 (574)
T 3e1s_A          205 RLVVLT-GGPGTGKSTTTKAVADLAESLGLEVGLC  238 (574)
T ss_dssp             SEEEEE-CCTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CEEEEE-cCCCCCHHHHHHHHHHHHHhcCCeEEEe
Confidence            355554 9999999999999999999999999988

>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=90.79  E-value=0.22  Score=43.36  Aligned_cols=38  Identities=26%  Similarity=0.240  Sum_probs=30.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHH------CCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAG------MGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~------~G~rVllID~D~  212 (386)
                      .++++. |..|+||||++..|+..+..      .+.++++++...
T Consensus        26 ~~~~l~-G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~   69 (231)
T 4a74_A           26 AITEVF-GEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTEN   69 (231)
T ss_dssp             EEEEEE-ESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSS
T ss_pred             cEEEEE-CCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCC
Confidence            577777 89999999999999986654      356788888754

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=90.76  E-value=0.15  Score=44.48  Aligned_cols=32  Identities=16%  Similarity=0.145  Sum_probs=24.6

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +.|.|. |..|+||||++..||..+   |..  .+|+|
T Consensus         6 ~~I~l~-G~~GsGKsT~a~~La~~l---~~~--~i~~d   37 (217)
T 3be4_A            6 HNLILI-GAPGSGKGTQCEFIKKEY---GLA--HLSTG   37 (217)
T ss_dssp             CEEEEE-ECTTSSHHHHHHHHHHHH---CCE--EEEHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHh---Cce--EEehh
Confidence            467776 888999999999999887   543  45553

>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=90.71  E-value=0.37  Score=44.85  Aligned_cols=40  Identities=35%  Similarity=0.356  Sum_probs=32.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHC-C-CcEEEEEcCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGM-G-ARVGIFDADVY  213 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~-G-~rVllID~D~~  213 (386)
                      +.+|+|. |..|+||||++..|+..+... | .++.+|-.|..
T Consensus        90 g~ivgI~-G~sGsGKSTL~~~L~gll~~~~G~~~v~~v~qd~~  131 (312)
T 3aez_A           90 PFIIGVA-GSVAVGKSTTARVLQALLARWDHHPRVDLVTTDGF  131 (312)
T ss_dssp             CEEEEEE-CCTTSCHHHHHHHHHHHHHTSTTCCCEEEEEGGGG
T ss_pred             CEEEEEE-CCCCchHHHHHHHHHhhccccCCCCeEEEEecCcc
Confidence            4588887 899999999999999988743 4 57888887753

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=90.70  E-value=0.23  Score=45.73  Aligned_cols=33  Identities=21%  Similarity=0.157  Sum_probs=27.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      +.+.++ |.+|+|||++|..+|..+   |.+++.+++
T Consensus        37 ~~lLl~-GppGtGKT~la~aiA~~l---~~~~i~v~~   69 (293)
T 3t15_A           37 LILGIW-GGKGQGKSFQCELVFRKM---GINPIMMSA   69 (293)
T ss_dssp             SEEEEE-ECTTSCHHHHHHHHHHHH---TCCCEEEEH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHh---CCCEEEEeH
Confidence            466666 899999999999999988   778888876

>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=90.63  E-value=0.35  Score=47.61  Aligned_cols=67  Identities=10%  Similarity=0.008  Sum_probs=34.8

Q ss_pred             CCCcEEEEcCCCCCC--hH------HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTG--DI------QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~--~~------~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      +.+.+.|+|||+-..  +.      ......+..+|.+++|+......-......++.+..  .+ +-+|+||++...
T Consensus       270 ~g~~v~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~~~~~~~i~~~l~~--~p-iivV~NK~Dl~~  344 (462)
T 3geh_A          270 GGIPVQVLDTAGIRETSDQVEKIGVERSRQAANTADLVLLTIDAATGWTTGDQEIYEQVKH--RP-LILVMNKIDLVE  344 (462)
T ss_dssp             TTEEEEECC--------------------CCCCSCSEEEEEEETTTCSCHHHHHHHHHHTT--SC-EEEEEECTTSSC
T ss_pred             CCEEEEEEECCccccchhHHHHHHHHHHhhhhhcCCEEEEEeccCCCCCHHHHHHHHhccC--Cc-EEEEEECCCCCc
Confidence            566789999986321  00      011112345799999988765322333445555543  34 558889998643

>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=90.45  E-value=0.23  Score=43.16  Aligned_cols=32  Identities=47%  Similarity=0.595  Sum_probs=24.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+|+|+ |..|+||||++..|+.    .|.  -++|+|.
T Consensus         5 ~~I~i~-G~~GSGKST~~~~L~~----lg~--~~id~D~   36 (218)
T 1vht_A            5 YIVALT-GGIGSGKSTVANAFAD----LGI--NVIDADI   36 (218)
T ss_dssp             EEEEEE-CCTTSCHHHHHHHHHH----TTC--EEEEHHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHH----cCC--EEEEccH
Confidence            577777 8899999999988875    464  5678863

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=90.42  E-value=0.33  Score=44.44  Aligned_cols=38  Identities=26%  Similarity=0.330  Sum_probs=30.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCC----cEEEEEcC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGA----RVGIFDAD  211 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~----rVllID~D  211 (386)
                      ...+.++ |..|+|||+++..+|..+...+.    .++.+++.
T Consensus        67 ~~~vll~-G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~  108 (309)
T 3syl_A           67 TLHMSFT-GNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRD  108 (309)
T ss_dssp             CCEEEEE-ECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGG
T ss_pred             CceEEEE-CCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHH
Confidence            3467776 88999999999999999987655    67777653

>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=90.39  E-value=2.5  Score=39.89  Aligned_cols=35  Identities=23%  Similarity=0.224  Sum_probs=27.7

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHC-CCcEEEEE
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFD  209 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~-G~rVllID  209 (386)
                      .+|+|+ |..|+||||+...|+..+... |.+++.++
T Consensus       124 g~i~I~-GptGSGKTTlL~~l~g~~~~~~~~~i~t~e  159 (356)
T 3jvv_A          124 GLVLVT-GPTGSGKSTTLAAMLDYLNNTKYHHILTIE  159 (356)
T ss_dssp             EEEEEE-CSTTSCHHHHHHHHHHHHHHHCCCEEEEEE
T ss_pred             CEEEEE-CCCCCCHHHHHHHHHhcccCCCCcEEEEcc
Confidence            467777 899999999999999888754 66666554

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=90.39  E-value=0.11  Score=43.75  Aligned_cols=30  Identities=30%  Similarity=0.254  Sum_probs=18.8

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVG  206 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVl  206 (386)
                      +++|.++ |-.|+||||++..|+..+   |..++
T Consensus         5 ~~~I~l~-G~~GsGKST~a~~La~~l---~~~~i   34 (183)
T 2vli_A            5 SPIIWIN-GPFGVGKTHTAHTLHERL---PGSFV   34 (183)
T ss_dssp             CCEEEEE-CCC----CHHHHHHHHHS---TTCEE
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHhc---CCCEE
Confidence            3467776 999999999999887655   55544

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=90.37  E-value=0.32  Score=41.39  Aligned_cols=89  Identities=15%  Similarity=0.198  Sum_probs=50.3

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+...   +.+ +-+|.||++.......   
T Consensus        81 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ilv~nK~Dl~~~~~v---  156 (199)
T 3l0i_B           81 TIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVN-KLLVGNKCDLTTKKVV---  156 (199)
T ss_dssp             EEEEEEECCTTCTTCCCCSCC--CCCSEEEECC-CCCSHHHHHHHHHHHHHHSCC-CCSE-EEEC-CCSSCC--CCC---
T ss_pred             EEEEEEEECCCcHhHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccCCCC-EEEEEECccCCccccC---
Confidence            4678999998643211111222445788999887654 4566677766666654   344 4588899986432211   


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                       .....+.+++.++++++
T Consensus       157 -~~~~~~~~~~~~~~~~~  173 (199)
T 3l0i_B          157 -DYTTAKEFADSLGIPFL  173 (199)
T ss_dssp             -CSCC-CHHHHTTTCCBC
T ss_pred             -CHHHHHHHHHHcCCeEE
Confidence             12345677777887653

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=90.14  E-value=0.24  Score=46.65  Aligned_cols=37  Identities=16%  Similarity=0.104  Sum_probs=30.9

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHC---CCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM---GARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~---G~rVllID~D  211 (386)
                      +.+.|+ |..|+||||++..++..+...   +..++.+++.
T Consensus        46 ~~vli~-G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~   85 (386)
T 2qby_A           46 NNIFIY-GLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTR   85 (386)
T ss_dssp             CCEEEE-ECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHH
T ss_pred             CeEEEE-CCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECC
Confidence            466666 999999999999999988765   7888888874

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=90.13  E-value=0.23  Score=41.04  Aligned_cols=32  Identities=28%  Similarity=0.234  Sum_probs=24.8

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .|+|+ |..|+||||++..|+..+   |..  ++|+|.
T Consensus         2 ~I~l~-G~~GsGKsT~a~~L~~~l---~~~--~i~~d~   33 (168)
T 2pt5_A            2 RIYLI-GFMCSGKSTVGSLLSRSL---NIP--FYDVDE   33 (168)
T ss_dssp             EEEEE-SCTTSCHHHHHHHHHHHH---TCC--EEEHHH
T ss_pred             eEEEE-CCCCCCHHHHHHHHHHHh---CCC--EEECcH
Confidence            56666 889999999999998876   444  467664

>3nva_A CTP synthase; rossman fold, nucleotide binding, LIG; 2.50A {Sulfolobus solfataricus}

Probab=90.10  E-value=0.43  Score=47.36  Aligned_cols=45  Identities=22%  Similarity=0.268  Sum_probs=40.4

Q ss_pred             CceEEEEEeCc-CCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCC
Q 016622          172 ISNIVAVSSCK-GGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPS  216 (386)
Q Consensus       172 ~~kvI~v~s~k-GGvGKTTla~~LA~~La~~G~rVllID~D~~~~s  216 (386)
                      ++|-|.|++|- .|.||-.+|+.|+..|..+|+||..+..||+-+-
T Consensus         2 ~~k~i~vtggv~s~lgkgi~~as~g~ll~~~g~~v~~~k~dpylnv   47 (535)
T 3nva_A            2 PNKYIVVTGGVLSSVGKGTLVASIGMLLKRRGYNVTAVKIDPYINV   47 (535)
T ss_dssp             CCEEEEEECCCSTTTTHHHHHHHHHHHHHHTTCCEEEEEEECSSSS
T ss_pred             CceEEEEeCccccCcchHHHHHHHHHHHHHCCceEEEEecCcceee
Confidence            36889999876 8999999999999999999999999999997643

>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=90.07  E-value=2  Score=40.80  Aligned_cols=21  Identities=14%  Similarity=0.205  Sum_probs=17.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHH
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLA  195 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA  195 (386)
                      ++|+++ |..|+||||+.-.|+
T Consensus       180 ~~V~lv-G~~naGKSTLln~L~  200 (364)
T 2qtf_A          180 PSIGIV-GYTNSGKTSLFNSLT  200 (364)
T ss_dssp             CEEEEE-CBTTSSHHHHHHHHH
T ss_pred             cEEEEE-CCCCCCHHHHHHHHH
Confidence            467787 899999999987765

>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=90.04  E-value=0.21  Score=42.35  Aligned_cols=35  Identities=26%  Similarity=0.431  Sum_probs=24.4

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +.+|+++ |..|+||||++..|+.   ..+ -...+|.|.
T Consensus         2 g~ii~l~-G~~GaGKSTl~~~L~~---~~~-g~~~i~~d~   36 (189)
T 2bdt_A            2 KKLYIIT-GPAGVGKSTTCKRLAA---QLD-NSAYIEGDI   36 (189)
T ss_dssp             EEEEEEE-CSTTSSHHHHHHHHHH---HSS-SEEEEEHHH
T ss_pred             CeEEEEE-CCCCCcHHHHHHHHhc---ccC-CeEEEcccc
Confidence            3566776 8899999999999975   222 235566653

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=90.04  E-value=0.25  Score=46.73  Aligned_cols=39  Identities=26%  Similarity=0.192  Sum_probs=31.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHC------CCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGM------GARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~------G~rVllID~D~  212 (386)
                      +.++.++ |..|+||||++..++..++..      |.+|++||...
T Consensus       131 G~i~~I~-G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~  175 (349)
T 1pzn_A          131 QAITEVF-GEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTEN  175 (349)
T ss_dssp             SEEEEEE-ESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSS
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCC
Confidence            3577777 889999999999999887432      35889999854

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=90.02  E-value=0.22  Score=42.37  Aligned_cols=23  Identities=30%  Similarity=0.447  Sum_probs=20.0

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      .|++. |-.|+||||++..||..|
T Consensus         2 ~I~i~-G~~GsGKsT~~~~L~~~l   24 (205)
T 2jaq_A            2 KIAIF-GTVGAGKSTISAEISKKL   24 (205)
T ss_dssp             EEEEE-CCTTSCHHHHHHHHHHHH
T ss_pred             EEEEE-CCCccCHHHHHHHHHHhc
Confidence            56666 889999999999999887

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=89.96  E-value=0.22  Score=48.07  Aligned_cols=39  Identities=21%  Similarity=0.098  Sum_probs=31.3

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHH------CCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAG------MGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~------~G~rVllID~D~  212 (386)
                      +.++.|+ |..|+||||++.+|+.....      .+.+|++||...
T Consensus       178 Gei~~I~-G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~  222 (400)
T 3lda_A          178 GSITELF-GEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEG  222 (400)
T ss_dssp             TSEEEEE-ESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             CcEEEEE-cCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCC
Confidence            3577776 89999999999999876653      467899999864

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=89.93  E-value=0.51  Score=48.17  Aligned_cols=70  Identities=10%  Similarity=0.077  Sum_probs=49.0

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcch-------HHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLA-------FIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s-------~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.|+|||+--.-.......+..+|.+++|+......       .......+..+...+++.+-+|+|+++...
T Consensus       243 ~~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lgi~~iIVVvNKiDl~~  319 (611)
T 3izq_1          243 HRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVD  319 (611)
T ss_dssp             SSCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTTCCEEEEEEECTTTTT
T ss_pred             CCceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHcCCCeEEEEEecccccc
Confidence            5678999999864333333333355689999999887632       235666777777888886778899998643

>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=89.76  E-value=0.52  Score=43.43  Aligned_cols=67  Identities=12%  Similarity=0.001  Sum_probs=38.8

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHH-HHHHHHHcC--CCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVA-KGVRMFSKL--KVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~-~~~~~l~~~--~~~i~gvVlN~~~~~  347 (386)
                      .+.+.|+|+|+.-.........+..+|.+++|..... .++..+. ..+..+...  +.++ -+|.||++..
T Consensus       202 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl~  272 (332)
T 2wkq_A          202 PVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPI-ILVGTKLDLR  272 (332)
T ss_dssp             EEEEEEEEECCCGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSCE-EEEEECHHHH
T ss_pred             EEEEEEEeCCCchhhhHHHHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhCCCCcE-EEEEEchhcc
Confidence            4567799998632211112222445789998887654 4555554 344444433  5554 4888998853

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=89.60  E-value=0.32  Score=55.99  Aligned_cols=40  Identities=20%  Similarity=0.238  Sum_probs=34.9

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      .++.++ +.+|+||||++.++|..+++.|.+|++||+....
T Consensus       384 ~lilI~-G~pGsGKTtLaLqia~~~a~~G~~vlyis~E~s~  423 (2050)
T 3cmu_A          384 RIVEIY-GPESSGKTTLTLQVIAAAQREGKTCAFIDAEHAL  423 (2050)
T ss_dssp             SEEEEE-CCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCC
T ss_pred             cEEEEE-eCCCCCHHHHHHHHHHHHHhcCCeEEEEEcCCCH
Confidence            456665 9999999999999999999999999999998633

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=89.58  E-value=0.21  Score=43.61  Aligned_cols=25  Identities=20%  Similarity=0.085  Sum_probs=20.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      ++.|.|. |-.|+||||++..||..+
T Consensus         5 ~~~I~l~-G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            5 PLKVMIS-GAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             SCCEEEE-ESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHh
Confidence            3467676 889999999999999877

>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=89.45  E-value=0.42  Score=47.07  Aligned_cols=39  Identities=15%  Similarity=0.218  Sum_probs=31.5

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +..+|.++ |-.|+||||++..|+..+...+.++..++.|
T Consensus        38 ~~~~Ivlv-GlpGsGKSTia~~La~~l~~~~~~t~~~~~d   76 (469)
T 1bif_A           38 CPTLIVMV-GLPARGKTYISKKLTRYLNFIGVPTREFNVG   76 (469)
T ss_dssp             CCEEEEEE-CCTTSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             CcEEEEEE-CCCCCCHHHHHHHHHHHHhccCCCceEEecc
Confidence            33455555 9999999999999999998888888887754

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=89.44  E-value=0.33  Score=55.83  Aligned_cols=39  Identities=21%  Similarity=0.303  Sum_probs=34.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      ++.+.++ |-.|+|||++|.++|....++|.+|++||++-
T Consensus      1427 g~~vll~-GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e~ 1465 (2050)
T 3cmu_A         1427 GRIVEIY-GPESSGKTTLTLQVIAAAQREGKTCAFIDAEH 1465 (2050)
T ss_dssp             TSEEEEE-CCTTSSHHHHHHHHHHHHHTTTCCEEEECTTS
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHHcCCcEEEEEccc
Confidence            4566666 99999999999999999999999999999874

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=89.43  E-value=0.55  Score=40.50  Aligned_cols=43  Identities=14%  Similarity=-0.004  Sum_probs=32.8

Q ss_pred             cccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          168 GLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       168 ~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      ....|+++..++ |.-|+||||-....+..+..+|++|+++...
T Consensus        15 ~~~~~g~l~fiy-G~MgsGKTt~Ll~~i~n~~~~~~kvl~~kp~   57 (195)
T 1w4r_A           15 GSKTRGQIQVIL-GPMFSGKSTELMRRVRRFQIAQYKCLVIKYA   57 (195)
T ss_dssp             ----CCEEEEEE-ECTTSCHHHHHHHHHHHHHHTTCCEEEEEET
T ss_pred             CCCCceEEEEEE-CCCCCcHHHHHHHHHHHHHHcCCeEEEEccc
Confidence            344567766666 7789999999888888888899999999744

>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=89.38  E-value=0.28  Score=43.61  Aligned_cols=25  Identities=24%  Similarity=0.222  Sum_probs=21.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      +.+|++. |..|+||||++..|+..+
T Consensus        27 ~~~i~l~-G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           27 LLRAVIL-GPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCEEEEE-CCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHh
Confidence            4588888 999999999999999776

>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=89.30  E-value=0.32  Score=45.33  Aligned_cols=34  Identities=29%  Similarity=0.329  Sum_probs=25.7

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      ++|+ .+|-.|+||||++..||..+     ..-+|.+|-.
T Consensus         4 ~~i~-i~GptgsGKt~la~~La~~~-----~~~iis~Ds~   37 (322)
T 3exa_A            4 KLVA-IVGPTAVGKTKTSVMLAKRL-----NGEVISGDSM   37 (322)
T ss_dssp             EEEE-EECCTTSCHHHHHHHHHHTT-----TEEEEECCGG
T ss_pred             cEEE-EECCCcCCHHHHHHHHHHhC-----ccceeecCcc
Confidence            3454 45889999999999988754     4578888853

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=89.23  E-value=0.52  Score=43.79  Aligned_cols=36  Identities=19%  Similarity=0.303  Sum_probs=27.0

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      ++++|.| +|-.|+||||++..||..+     ..-+|.+|-.
T Consensus         9 ~~~~i~i-~GptgsGKt~la~~La~~~-----~~~iis~Ds~   44 (316)
T 3foz_A            9 LPKAIFL-MGPTASGKTALAIELRKIL-----PVELISVDSA   44 (316)
T ss_dssp             CCEEEEE-ECCTTSCHHHHHHHHHHHS-----CEEEEECCTT
T ss_pred             CCcEEEE-ECCCccCHHHHHHHHHHhC-----CCcEEecccc
Confidence            3455555 4899999999999998764     3567888753

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=89.04  E-value=0.21  Score=43.77  Aligned_cols=32  Identities=16%  Similarity=0.171  Sum_probs=24.1

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +.|.|. |..|+||||++..||..+   |.  ..+|.|
T Consensus         8 ~~I~l~-G~~GsGKsT~a~~La~~l---~~--~~i~~d   39 (227)
T 1zd8_A            8 LRAVIM-GAPGSGKGTVSSRITTHF---EL--KHLSSG   39 (227)
T ss_dssp             CEEEEE-ECTTSSHHHHHHHHHHHS---SS--EEEEHH
T ss_pred             cEEEEE-CCCCCCHHHHHHHHHHHc---CC--eEEech
Confidence            467776 889999999999988765   44  456654

>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=88.89  E-value=0.22  Score=42.59  Aligned_cols=35  Identities=29%  Similarity=0.368  Sum_probs=26.0

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +.++ |..|+|||+++..++..+...+.++.++..+
T Consensus        41 ~ll~-G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~   75 (226)
T 2chg_A           41 LLFS-GPPGTGKTATAIALARDLFGENWRDNFIEMN   75 (226)
T ss_dssp             EEEE-CSTTSSHHHHHHHHHHHHHGGGGGGGEEEEE
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHHhccccccceEEec
Confidence            5555 8899999999999999987665544444433

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=88.84  E-value=0.39  Score=42.23  Aligned_cols=26  Identities=23%  Similarity=0.271  Sum_probs=22.2

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      .+|+|.+. |-+|+||+|.|..||..+
T Consensus        28 k~kiI~ll-GpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           28 KAKVIFVL-GGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             SCEEEEEE-CCTTCCHHHHHHHHHHHH
T ss_pred             CCcEEEEE-CCCCCCHHHHHHHHHHHH
Confidence            45778777 889999999999999876

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=88.83  E-value=0.44  Score=48.98  Aligned_cols=35  Identities=23%  Similarity=0.258  Sum_probs=31.1

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      -+++.-|-+|+|||++.+++...+.++|.+||++-
T Consensus       206 ~~~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~a  240 (646)
T 4b3f_X          206 ELAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCA  240 (646)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CceEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEc
Confidence            36677799999999999999999999999999875

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=88.79  E-value=0.39  Score=41.73  Aligned_cols=28  Identities=25%  Similarity=0.151  Sum_probs=22.1

Q ss_pred             cCCceEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          170 QKISNIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       170 ~~~~kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      ..++++|+|+ ||.|+||+|+|-.|...+
T Consensus         8 ~~~~~II~it-Gk~~SGKd~va~~l~~~~   35 (202)
T 3ch4_B            8 GAPRLVLLFS-GKRKSGKDFVTEALQSRL   35 (202)
T ss_dssp             CCCSEEEEEE-ECTTSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEEE-CCCCCChHHHHHHHHHHc
Confidence            3456788887 999999999998776544

>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=88.79  E-value=0.27  Score=42.61  Aligned_cols=30  Identities=17%  Similarity=0.074  Sum_probs=23.1

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      .|+|+ |..|+||||++..|+..+   |..+  +|+
T Consensus         2 ~I~l~-G~~GsGKsT~a~~L~~~~---g~~~--i~~   31 (214)
T 1e4v_A            2 RIILL-GAPVAGKGTQAQFIMEKY---GIPQ--IST   31 (214)
T ss_dssp             EEEEE-ESTTSSHHHHHHHHHHHH---CCCE--EEH
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHh---CCeE--EeH
Confidence            36665 888999999999999877   5544  555

>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=88.68  E-value=0.52  Score=44.46  Aligned_cols=37  Identities=16%  Similarity=0.108  Sum_probs=30.7

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHC-CCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~-G~rVllID~D~  212 (386)
                      .+.|+ |..|+||||++..++..+... +..++.+++..
T Consensus        46 ~~li~-G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~   83 (389)
T 1fnn_A           46 RATLL-GRPGTGKTVTLRKLWELYKDKTTARFVYINGFI   83 (389)
T ss_dssp             EEEEE-CCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTT
T ss_pred             eEEEE-CCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCcc
Confidence            56665 999999999999999988776 68888888754

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=88.65  E-value=0.3  Score=43.85  Aligned_cols=37  Identities=19%  Similarity=0.207  Sum_probs=30.8

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+.++ |..|+|||++|..++..+.+.+.+++.+++..
T Consensus        31 ~vll~-G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~   67 (265)
T 2bjv_A           31 PVLII-GERGTGKELIASRLHYLSSRWQGPFISLNCAA   67 (265)
T ss_dssp             CEEEE-CCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGG
T ss_pred             CEEEE-CCCCCcHHHHHHHHHHhcCccCCCeEEEecCC
Confidence            45555 89999999999999988877778899998764

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=88.61  E-value=0.3  Score=45.98  Aligned_cols=38  Identities=18%  Similarity=0.057  Sum_probs=29.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHC------CCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM------GARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~------G~rVllID~D~  212 (386)
                      +.+.++ |.+|+||||++..++..+...      +..++.+++..
T Consensus        45 ~~vll~-G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~   88 (387)
T 2v1u_A           45 SNALLY-GLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARH   88 (387)
T ss_dssp             CCEEEC-BCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTT
T ss_pred             CcEEEE-CCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCc
Confidence            355555 999999999999999998764      66777777643

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=88.56  E-value=0.54  Score=40.57  Aligned_cols=68  Identities=16%  Similarity=0.135  Sum_probs=41.7

Q ss_pred             CCCcEEEEcCCCCCChH-----------HH---hhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCC
Q 016622          279 GELDYLVIDMPPGTGDI-----------QL---TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMC  344 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~-----------~~---~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~  344 (386)
                      ..+.+.|+|||+ ..+.           ..   .+.....+|.+++|+.....--......++.+.+.+.+++ +|+|++
T Consensus        77 ~~~~~~l~DtpG-~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~l~~~~~p~i-~v~nK~  154 (223)
T 4dhe_A           77 AEPVAHLVDLPG-YGYAEVPGAAKAHWEQLLSSYLQTRPQLCGMILMMDARRPLTELDRRMIEWFAPTGKPIH-SLLTKC  154 (223)
T ss_dssp             TSCSEEEEECCC-CCSSCCCSTHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHGGGCCCEE-EEEECG
T ss_pred             CCCcEEEEcCCC-CCcccCChhhHHHHHHHHHHHHhcCcCcCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEE-EEEecc
Confidence            567899999986 3210           00   1111122567888888765322344556777777777755 888998


Q ss_pred             cCCC
Q 016622          345 HFDA  348 (386)
Q Consensus       345 ~~~~  348 (386)
                      +...
T Consensus       155 Dl~~  158 (223)
T 4dhe_A          155 DKLT  158 (223)
T ss_dssp             GGSC
T ss_pred             ccCC
Confidence            8643

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=88.53  E-value=0.51  Score=47.16  Aligned_cols=38  Identities=16%  Similarity=0.264  Sum_probs=32.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +.+++++ |..|+||||++..++..+...|.+++++...
T Consensus       281 G~i~~i~-G~~GsGKSTLl~~l~g~~~~~G~~vi~~~~e  318 (525)
T 1tf7_A          281 DSIILAT-GATGTGKTLLVSRFVENACANKERAILFAYE  318 (525)
T ss_dssp             SCEEEEE-ECTTSSHHHHHHHHHHHHHTTTCCEEEEESS
T ss_pred             CcEEEEE-eCCCCCHHHHHHHHHHHHHhCCCCEEEEEEe
Confidence            3467776 9999999999999999998889999888764

>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=88.53  E-value=0.53  Score=40.46  Aligned_cols=91  Identities=12%  Similarity=0.176  Sum_probs=52.4

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.|+|+|+...........+..+|.+++|..... .++..+...+..+...   ....+-+|+|+++......    
T Consensus        83 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~----  158 (217)
T 2f7s_A           83 KVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQRE----  158 (217)
T ss_dssp             EEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCC----
T ss_pred             eEEEEEEECCCcHhHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccc----
Confidence            5778999998632211222223456799999988654 3445555444444332   1223568899998643211    


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                      ......+++++.++++++.
T Consensus       159 v~~~~~~~~~~~~~~~~~~  177 (217)
T 2f7s_A          159 VNERQARELADKYGIPYFE  177 (217)
T ss_dssp             SCHHHHHHHHHHTTCCEEE
T ss_pred             cCHHHHHHHHHHCCCcEEE
Confidence            1123466777788877654

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=88.51  E-value=0.5  Score=46.31  Aligned_cols=33  Identities=15%  Similarity=0.175  Sum_probs=27.7

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCC-cEEEE
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGA-RVGIF  208 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~-rVllI  208 (386)
                      ..+..|..|+||||++..++..|...|. +|+++
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l~~~~~~~il~~   80 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEALISTGETGIILA   80 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhcCCceEEEe
Confidence            4444588999999999999999998887 67776

>1w78_A FOLC bifunctional protein; DHFS, dihydrofolate synthase, synthase, ATP-binding, folate biosynthesis, ligase, multifunctional enzyme; HET: KCX PD8 ADP; 1.82A {Escherichia coli} PDB: 1w7k_A*

Probab=88.51  E-value=0.63  Score=45.08  Aligned_cols=34  Identities=29%  Similarity=0.488  Sum_probs=30.0

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEE
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIF  208 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllI  208 (386)
                      ..++|+|+   |--||||++.-|+..|...|++|.++
T Consensus        48 ~~~vI~VT---GTnGKtTT~~~l~~iL~~~G~~~g~~   81 (422)
T 1w78_A           48 APFVFTVA---GTNGKGTTCRTLESILMAAGYKVGVY   81 (422)
T ss_dssp             SSEEEEEE---CSSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCcEEEEe---CCcChHHHHHHHHHHHHHCCCCEEEE
Confidence            45799999   45689999999999999999999876

>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=88.48  E-value=0.35  Score=41.90  Aligned_cols=26  Identities=27%  Similarity=0.273  Sum_probs=20.9

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      .+++|+++ |-.|+||||++..|+..+
T Consensus         7 ~g~~i~l~-GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            7 RGLLIVLS-GPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCEEEEE-CCTTSCHHHHHHHHHHST
T ss_pred             CCcEEEEE-CcCCCCHHHHHHHHHhhC
Confidence            45677776 899999999999887654

>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=88.18  E-value=0.45  Score=42.36  Aligned_cols=33  Identities=18%  Similarity=0.114  Sum_probs=24.6

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      ++.|.++ |-.|+||||++..|+..+   |  ...+++|
T Consensus        29 ~~~I~l~-G~~GsGKsT~a~~L~~~~---g--~~~is~~   61 (243)
T 3tlx_A           29 DGRYIFL-GAPGSGKGTQSLNLKKSH---C--YCHLSTG   61 (243)
T ss_dssp             CEEEEEE-CCTTSSHHHHHHHHHHHH---C--CEEEEHH
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHh---C--CeEEecH
Confidence            3466666 899999999999998776   4  3455654

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=88.14  E-value=0.33  Score=48.77  Aligned_cols=23  Identities=26%  Similarity=0.304  Sum_probs=19.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHH
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAY  196 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~  196 (386)
                      .++|+|+ |-||+||||+|..++.
T Consensus       152 ~~vv~I~-G~gGvGKTtLA~~v~~  174 (549)
T 2a5y_B          152 SFFLFLH-GRAGSGKSVIASQALS  174 (549)
T ss_dssp             SEEEEEE-CSTTSSHHHHHHHHHH
T ss_pred             ceEEEEE-cCCCCCHHHHHHHHHH
Confidence            4688888 8999999999998885

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=88.09  E-value=0.37  Score=41.65  Aligned_cols=31  Identities=16%  Similarity=0.122  Sum_probs=23.2

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      .|+|+ |..|+||||++..|+..+   |..  .+|+|
T Consensus         2 ~I~l~-G~~GsGKsT~a~~L~~~~---~~~--~i~~d   32 (216)
T 3fb4_A            2 NIVLM-GLPGAGKGTQAEQIIEKY---EIP--HISTG   32 (216)
T ss_dssp             EEEEE-CSTTSSHHHHHHHHHHHH---CCC--EEEHH
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHh---CCc--EeeHH
Confidence            45665 899999999999998776   443  45553

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=88.06  E-value=0.75  Score=41.54  Aligned_cols=38  Identities=16%  Similarity=0.203  Sum_probs=29.0

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHC-CCcEEEEEcC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGM-GARVGIFDAD  211 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~-G~rVllID~D  211 (386)
                      ..+++|+ |..|+||||+...|+..+... ..++.+.+-+
T Consensus        25 g~~v~i~-Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g~~   63 (261)
T 2eyu_A           25 MGLILVT-GPTGSGKSTTIASMIDYINQTKSYHIITIEDP   63 (261)
T ss_dssp             SEEEEEE-CSTTCSHHHHHHHHHHHHHHHCCCEEEEEESS
T ss_pred             CCEEEEE-CCCCccHHHHHHHHHHhCCCCCCCEEEEcCCc
Confidence            3578887 888999999999999988753 4466666544

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=88.01  E-value=0.36  Score=43.26  Aligned_cols=27  Identities=33%  Similarity=0.509  Sum_probs=22.2

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      ..+.+|+++ |..|+||||++-.||..|
T Consensus        25 ~~g~~I~I~-G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           25 AIAPVITVD-GPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             TTSCEEEEE-CCTTSSHHHHHHHHHHHT
T ss_pred             CCCcEEEEE-CCCCCCHHHHHHHHHHhc
Confidence            345689998 889999999999888655

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=87.87  E-value=0.3  Score=49.22  Aligned_cols=39  Identities=38%  Similarity=0.458  Sum_probs=32.0

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCC-CcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMG-ARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G-~rVllID~D~  212 (386)
                      +.+|+++ |..|+||||++..||..+...+ .++.++|.|.
T Consensus       369 G~iI~Li-G~sGSGKSTLar~La~~L~~~~G~~i~~lDgD~  408 (552)
T 3cr8_A          369 GFTVFFT-GLSGAGKSTLARALAARLMEMGGRCVTLLDGDI  408 (552)
T ss_dssp             CEEEEEE-ESSCHHHHHHHHHHHHHHHTTCSSCEEEESSHH
T ss_pred             ceEEEEE-CCCCChHHHHHHHHHHhhcccCCceEEEECCcH
Confidence            4677777 8899999999999999997544 5787888875

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=87.81  E-value=0.6  Score=44.62  Aligned_cols=36  Identities=33%  Similarity=0.283  Sum_probs=31.0

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      -++|+ |..|+||||+...++..+...|.+++++|.+
T Consensus        37 ~~~i~-G~~G~GKs~~~~~~~~~~~~~~~~~~~~D~~   72 (392)
T 4ag6_A           37 NWTIL-AKPGAGKSFTAKMLLLREYMQGSRVIIIDPE   72 (392)
T ss_dssp             CEEEE-CCTTSSHHHHHHHHHHHHHTTTCCEEEEESS
T ss_pred             ceEEE-cCCCCCHHHHHHHHHHHHHHCCCEEEEEeCC
Confidence            34555 8899999999999999988899999999865

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=87.69  E-value=0.34  Score=40.83  Aligned_cols=25  Identities=16%  Similarity=0.230  Sum_probs=20.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      +++|+++ |..|+||||+...|+..+
T Consensus         5 g~~i~i~-GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            5 RKTLVLL-GAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CCEEEEE-CCTTSSHHHHHHHHHHHC
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHhhC
Confidence            3577776 899999999999988765

>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=87.62  E-value=1.8  Score=42.13  Aligned_cols=42  Identities=17%  Similarity=0.104  Sum_probs=25.3

Q ss_pred             CCCeEEEEeCCCcc-hHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          304 PLTAAVIVTTPQKL-AFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       304 ~~d~vviV~~~~~~-s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      .+|.+++|...... +..+ .+..+.+...+.+++ +|+|+++..
T Consensus       263 ~ad~vllv~d~~~~~~~~~-~~i~~~l~~~~~~~i-lv~NK~Dl~  305 (439)
T 1mky_A          263 KADVVVIVLDATQGITRQD-QRMAGLMERRGRASV-VVFNKWDLV  305 (439)
T ss_dssp             HCSEEEEEEETTTCCCHHH-HHHHHHHHHTTCEEE-EEEECGGGS
T ss_pred             hCCEEEEEEeCCCCCCHHH-HHHHHHHHHcCCCEE-EEEECccCC
Confidence            45777777665432 2222 345566666666654 778998854

>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=87.61  E-value=0.8  Score=40.60  Aligned_cols=35  Identities=14%  Similarity=0.033  Sum_probs=27.7

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +-|.++ |..|+|||+++..+|..+   +.++..+++..
T Consensus        40 ~~vll~-G~~GtGKT~la~~la~~~---~~~~~~~~~~~   74 (262)
T 2qz4_A           40 KGALLL-GPPGCGKTLLAKAVATEA---QVPFLAMAGAE   74 (262)
T ss_dssp             CEEEEE-SCTTSSHHHHHHHHHHHH---TCCEEEEETTT
T ss_pred             ceEEEE-CCCCCCHHHHHHHHHHHh---CCCEEEechHH
Confidence            456666 889999999999998866   66777777653

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=87.60  E-value=0.31  Score=41.56  Aligned_cols=32  Identities=22%  Similarity=0.130  Sum_probs=26.1

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      |.|+ |-.|+||||+|..||..    |.++++++...
T Consensus         2 ilV~-Gg~~SGKS~~A~~la~~----~~~~~yiaT~~   33 (180)
T 1c9k_A            2 ILVT-GGARSGKSRHAEALIGD----APQVLYIATSQ   33 (180)
T ss_dssp             EEEE-ECTTSSHHHHHHHHHCS----CSSEEEEECCC
T ss_pred             EEEE-CCCCCcHHHHHHHHHhc----CCCeEEEecCC
Confidence            4555 78899999999998754    78999998865

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=87.60  E-value=0.37  Score=42.19  Aligned_cols=31  Identities=13%  Similarity=0.114  Sum_probs=23.5

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      .|.|. |-.|+||||++..|+..+   |.  ..+++|
T Consensus         2 ~I~l~-G~~GsGKsT~a~~La~~l---g~--~~i~~d   32 (223)
T 2xb4_A            2 NILIF-GPNGSGKGTQGNLVKDKY---SL--AHIESG   32 (223)
T ss_dssp             EEEEE-CCTTSCHHHHHHHHHHHH---TC--EEEEHH
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHh---CC--eEEchH
Confidence            45565 899999999999999877   54  345653

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=87.34  E-value=0.66  Score=42.24  Aligned_cols=35  Identities=26%  Similarity=0.209  Sum_probs=28.9

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +.+.++ |..|+|||+++..+|..+   +.++..+++..
T Consensus        51 ~~vll~-G~~GtGKT~la~~la~~l---~~~~~~i~~~~   85 (310)
T 1ofh_A           51 KNILMI-GPTGVGKTEIARRLAKLA---NAPFIKVEATK   85 (310)
T ss_dssp             CCEEEE-CCTTSSHHHHHHHHHHHH---TCCEEEEEGGG
T ss_pred             ceEEEE-CCCCCCHHHHHHHHHHHh---CCCEEEEcchh
Confidence            456666 889999999999999887   67888888754

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=87.28  E-value=0.47  Score=40.67  Aligned_cols=27  Identities=30%  Similarity=0.347  Sum_probs=24.1

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMG  202 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G  202 (386)
                      +++++ |..|+||||+...|+..+...|
T Consensus         3 ~i~i~-G~nG~GKTTll~~l~g~~~~~G   29 (189)
T 2i3b_A            3 HVFLT-GPPGVGKTTLIHKASEVLKSSG   29 (189)
T ss_dssp             CEEEE-SCCSSCHHHHHHHHHHHHHHTT
T ss_pred             EEEEE-CCCCChHHHHHHHHHhhcccCC
Confidence            67787 9999999999999999988667

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=87.26  E-value=0.51  Score=46.10  Aligned_cols=38  Identities=16%  Similarity=0.171  Sum_probs=31.8

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHC--CCcEEEEEcC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGM--GARVGIFDAD  211 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~--G~rVllID~D  211 (386)
                      .+.+.++ |..|+||||++..+|..+...  |.+++.+++.
T Consensus       130 ~~~lll~-Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~  169 (440)
T 2z4s_A          130 YNPLFIY-GGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSE  169 (440)
T ss_dssp             SCCEEEE-CSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHH
T ss_pred             CCeEEEE-CCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHH
Confidence            3456666 889999999999999998865  8899998875

>1jbw_A Folylpolyglutamate synthase; FPGS folate AMPPCP ternary complex, ligase; HET: KCX ACQ TMF; 1.85A {Lactobacillus casei} SCOP: c.59.1.2 c.72.2.2 PDB: 1fgs_A* 1jbv_A* 2gca_A 2gc5_A* 2gc6_A* 2gcb_A

Probab=87.08  E-value=0.75  Score=44.65  Aligned_cols=33  Identities=30%  Similarity=0.520  Sum_probs=29.7

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIF  208 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllI  208 (386)
                      .++|+|+   |--||||++..|+..|...|++|.++
T Consensus        39 ~~vI~Vt---GTnGKtTT~~~l~~iL~~~G~~vg~~   71 (428)
T 1jbw_A           39 GRYIHVT---GTNGKGSAANAIAHVLEASGLTVGLY   71 (428)
T ss_dssp             SCEEEEE---CSSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CcEEEEE---CCCChHHHHHHHHHHHHHCCCCEEEE
Confidence            4699999   45689999999999999999999987

>1xhj_A Nitrogen fixation protein NIFU; alpha-beta, NIFU-like, structural genomics, protein structur initiative, NESG, PSI; NMR {Staphylococcus epidermidis} SCOP: d.52.8.1

Probab=86.98  E-value=0.7  Score=34.39  Aligned_cols=71  Identities=17%  Similarity=0.275  Sum_probs=52.0

Q ss_pred             cccHHHHHHHhccCCCCCCCCCccccCCeeEEEEecCCCeEEEEEEeCCCCCCchHH-HHHHHHHHhh-cCCCcceeEE
Q 016622           74 GTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDM-FEQRANEVVL-AIPWVNKVNV  150 (386)
Q Consensus        74 ~~~~~~i~~~L~~V~dPe~~~div~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~-i~~~i~e~l~-~l~gv~~v~v  150 (386)
                      ....+.|.++|++ .-|-+.   -+=|=|.-+.+++  +.|.|.+.-.+.+||.... +..-|+..|. .+|+++.+..
T Consensus         6 ~~~~~~I~~~L~~-IRP~L~---~dGGdvelv~v~~--g~V~V~L~GaC~gCpss~~TLk~gIE~~L~~~vPev~~V~~   78 (88)
T 1xhj_A            6 PTMFDQVAEVIER-LRPFLL---RDGGDCTLVDVED--GIVKLQLHGACGTCPSSTITLKAGIERALHEEVPGVIEVEQ   78 (88)
T ss_dssp             SCHHHHHHHHHHH-HHHHHH---HHSCEEEEEECCS--SEEEEEEESSCCSSCHHHHHHHHHHHHHHHHHSTTCCEEEE
T ss_pred             HHHHHHHHHHHHH-hcHHHH---hcCCeEEEEEEEC--CEEEEEEeecCCCCcchHHHHHHHHHHHHHHhCCCceEEEe
Confidence            4467889999998 667543   2345556666655  8999999999999998776 6667888885 5688877643

>3eag_A UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-ME diaminopimelate ligase; UDP-N-acetylmuramate:L-alanyl-G glutamyl-MESO-diaminopimelate ligase; 2.55A {Neisseria meningitidis MC58}

Probab=86.94  E-value=0.66  Score=43.28  Aligned_cols=32  Identities=34%  Similarity=0.449  Sum_probs=28.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGI  207 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVll  207 (386)
                      .++|+||   |--||||++..++..|...|+++.+
T Consensus       108 ~~~IaVT---GTnGKTTTt~ll~~iL~~~g~~~~~  139 (326)
T 3eag_A          108 HWVLGVA---GTHGKTTTASMLAWVLEYAGLAPGF  139 (326)
T ss_dssp             SEEEEEE---SSSCHHHHHHHHHHHHHHTTCCCEE
T ss_pred             CCEEEEE---CCCCHHHHHHHHHHHHHHcCCCceE
Confidence            4799999   6689999999999999999998753

>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=86.87  E-value=0.5  Score=42.04  Aligned_cols=34  Identities=41%  Similarity=0.536  Sum_probs=25.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +.+|++. |-.|+||||++..||..|   |  ..++|.|.
T Consensus         9 ~~~i~i~-G~~GsGKsTla~~la~~l---g--~~~~d~g~   42 (233)
T 3r20_A            9 SLVVAVD-GPAGTGKSSVSRGLARAL---G--ARYLDTGA   42 (233)
T ss_dssp             CCEEEEE-CCTTSSHHHHHHHHHHHH---T--CEEEEHHH
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHh---C--CCcccCCc
Confidence            3467776 889999999999998877   3  34567654

>3nrs_A Dihydrofolate:folylpolyglutamate synthetase; structural genomics, center for structural genomics of infec diseases, csgid; HET: TLA MES; 1.80A {Yersinia pestis} PDB: 3n2a_A* 3pyz_A* 3qcz_A*

Probab=86.70  E-value=0.94  Score=44.13  Aligned_cols=35  Identities=34%  Similarity=0.554  Sum_probs=30.9

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEE
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIF  208 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllI  208 (386)
                      ...++|.|+   |--||||++.-|+..|...|+||.++
T Consensus        50 ~~~~vI~Vt---GTNGKgSt~~~l~~iL~~~G~~vg~~   84 (437)
T 3nrs_A           50 PAPKIFTVA---GTNGKGTTCCTLEAILLAAGLRVGVY   84 (437)
T ss_dssp             SSSEEEEEE---CSSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             ccCCEEEEE---CCcChHHHHHHHHHHHHHCCCcEEEE
Confidence            345799999   55789999999999999999999986

>2vo1_A CTP synthase 1; pyrimidine biosynthesis, glutamine amidotransferase, phosphorylation, amidotransferase, cytidine 5-prime triphos synthetase, UTP; 2.8A {Homo sapiens} SCOP: c.37.1.10 PDB: 3ihl_A*

Probab=86.68  E-value=1.2  Score=40.16  Aligned_cols=45  Identities=22%  Similarity=0.288  Sum_probs=38.5

Q ss_pred             CceEEEEEeC-cCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCC
Q 016622          172 ISNIVAVSSC-KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPS  216 (386)
Q Consensus       172 ~~kvI~v~s~-kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~s  216 (386)
                      .+|-|.|++| -.|.||=.+|+.|+..|..+|+||-++.+||+-+-
T Consensus        22 ~~KyIfVTGGVvS~lGKGi~aaSlg~lLk~~G~~Vt~~K~DPYlNv   67 (295)
T 2vo1_A           22 SMKYILVTGGVISGIGKGIIASSVGTILKSCGLHVTSIKIDPYINI   67 (295)
T ss_dssp             CCEEEEEEECSSSSSSHHHHHHHHHHHHHHTTCCEEEEEEECSSCC
T ss_pred             cceEEEEcCCcccccccHHHHHHHHHHHHHCCCcceeeecccceec
Confidence            3567777754 56899999999999999999999999999997643

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=86.63  E-value=0.47  Score=40.44  Aligned_cols=24  Identities=29%  Similarity=0.340  Sum_probs=20.1

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      ++|+++ |..|+||||++..|+..+
T Consensus         7 ~~i~l~-G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            7 LLIVLS-GPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CEEEEE-CSTTSCHHHHHHHHHHCT
T ss_pred             CEEEEE-CCCCCCHHHHHHHHHHhh
Confidence            477787 889999999998887765

>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=86.56  E-value=0.45  Score=44.29  Aligned_cols=37  Identities=14%  Similarity=0.260  Sum_probs=29.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      ++++++ |..|+||||+.-.|+...  .|+|+.+|..|..
T Consensus         5 ~v~~i~-G~~GaGKTTll~~l~~~~--~~~~~aVi~~d~G   41 (318)
T 1nij_A            5 AVTLLT-GFLGAGKTTLLRHILNEQ--HGYKIAVIENEFG   41 (318)
T ss_dssp             EEEEEE-ESSSSSCHHHHHHHHHSC--CCCCEEEECSSCC
T ss_pred             cEEEEE-ecCCCCHHHHHHHHHhhc--CCCcEEEEEecCc
Confidence            466666 889999999988877653  6899999987753

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=86.55  E-value=0.57  Score=44.60  Aligned_cols=33  Identities=18%  Similarity=0.148  Sum_probs=27.6

Q ss_pred             eCcCCCCHHHHHHHHHHHHHHC------CCcEEEEEcCC
Q 016622          180 SCKGGVGKSTVAVNLAYTLAGM------GARVGIFDADV  212 (386)
Q Consensus       180 s~kGGvGKTTla~~LA~~La~~------G~rVllID~D~  212 (386)
                      .|.+|+||||++..++..+...      +..++.+++..
T Consensus        58 ~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (412)
T 1w5s_A           58 IGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFN   96 (412)
T ss_dssp             TTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGG
T ss_pred             cCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCC
Confidence            4999999999999999988753      67788888753

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=86.53  E-value=0.48  Score=40.38  Aligned_cols=25  Identities=28%  Similarity=0.511  Sum_probs=20.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      +.+|+++ |..|+||||++..|+..+
T Consensus         7 g~ii~l~-Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            7 ANLFIIS-APSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCEEEEE-CCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEE-CcCCCCHHHHHHHHHhhC
Confidence            3578887 889999999999888764

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=86.45  E-value=0.35  Score=41.61  Aligned_cols=24  Identities=25%  Similarity=0.322  Sum_probs=20.0

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      ++|.|+ |..|+||||++..|+..+
T Consensus        13 ~~i~l~-G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           13 PPLVVC-GPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCEEEE-CCTTSCHHHHHHHHHHHC
T ss_pred             CEEEEE-CCCCCCHHHHHHHHHHhC
Confidence            466666 889999999999998866

>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=86.32  E-value=0.42  Score=41.34  Aligned_cols=31  Identities=16%  Similarity=0.164  Sum_probs=22.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      .|+++ |..|+||||++..||..+   |.  ..+|+|
T Consensus         2 ~I~l~-G~~GsGKsT~a~~L~~~~---~~--~~i~~d   32 (216)
T 3dl0_A            2 NLVLM-GLPGAGKGTQGERIVEKY---GI--PHISTG   32 (216)
T ss_dssp             EEEEE-CSTTSSHHHHHHHHHHHS---SC--CEEEHH
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHh---CC--cEEeHH
Confidence            45665 889999999999987654   54  345653

>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=86.30  E-value=0.69  Score=45.55  Aligned_cols=69  Identities=13%  Similarity=0.139  Sum_probs=42.7

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchH-------HHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAF-------IDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~-------~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.|+|||+-..-.......+..+|.+++|+.......       ....+.+..+...+++.+-+++||++..
T Consensus       119 ~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~  194 (467)
T 1r5b_A          119 EHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEP  194 (467)
T ss_dssp             SSEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTST
T ss_pred             CCeEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCC
Confidence            45679999999632211122222445799999998776432       2455666667777887556889999864

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=86.14  E-value=0.62  Score=40.73  Aligned_cols=33  Identities=33%  Similarity=0.395  Sum_probs=25.6

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +-.|++| |.-|+||||++..|+.    .|..  +||+|.
T Consensus         9 ~~~iglT-GgigsGKStv~~~l~~----~g~~--vidaD~   41 (210)
T 4i1u_A            9 MYAIGLT-GGIGSGKTTVADLFAA----RGAS--LVDTDL   41 (210)
T ss_dssp             CCEEEEE-CCTTSCHHHHHHHHHH----TTCE--EEEHHH
T ss_pred             eeEEEEE-CCCCCCHHHHHHHHHH----CCCc--EEECcH
Confidence            4578999 7789999999887654    5754  578886

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=85.83  E-value=0.95  Score=40.24  Aligned_cols=33  Identities=18%  Similarity=0.083  Sum_probs=25.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      +-+.++ |..|+||||++..+|..+   +..+..+++
T Consensus        46 ~~vll~-G~~GtGKT~la~~la~~~---~~~~~~i~~   78 (257)
T 1lv7_A           46 KGVLMV-GPPGTGKTLLAKAIAGEA---KVPFFTISG   78 (257)
T ss_dssp             CEEEEE-CCTTSCHHHHHHHHHHHH---TCCEEEECS
T ss_pred             CeEEEE-CcCCCCHHHHHHHHHHHc---CCCEEEEeH
Confidence            356676 889999999999999876   456666654

>1e8c_A UDP-N-acetylmuramoylalanyl-D-glutamate--2,6- diaminopimelate ligase; peptidoglycan biosynthesis; HET: KCX UAG API; 2.00A {Escherichia coli} SCOP: c.98.1.1 c.59.1.1 c.72.2.1

Probab=85.44  E-value=1.1  Score=44.55  Aligned_cols=35  Identities=26%  Similarity=0.249  Sum_probs=30.4

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      ..++|+|+   |-.||||++..|+..|...|++|.++-
T Consensus       107 ~~~vI~VT---GTnGKTTT~~ml~~iL~~~g~~~~~~g  141 (498)
T 1e8c_A          107 NLRLVGVT---GTNGKTTTTQLLAQWSQLLGEISAVMG  141 (498)
T ss_dssp             SSEEEEEE---SSSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cCeEEEEe---CCcChHHHHHHHHHHHHhCCCCEEEEC
Confidence            34799999   557899999999999999999998763

>3orf_A Dihydropteridine reductase; alpha-beta-alpha sandwich, rossmann fold, oxidoreductase (AC NADH), NADH binding, oxidoreductase; HET: NAD; 2.16A {Dictyostelium discoideum}

Probab=85.40  E-value=0.51  Score=42.03  Aligned_cols=41  Identities=12%  Similarity=0.040  Sum_probs=30.9

Q ss_pred             cccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          168 GLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       168 ~~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      ..+.|+|++.|+++.||.|+     .+|..|+++|.+|.++|-+..
T Consensus        17 ~~~~m~k~vlITGas~gIG~-----~la~~l~~~G~~V~~~~r~~~   57 (251)
T 3orf_A           17 RGSHMSKNILVLGGSGALGA-----EVVKFFKSKSWNTISIDFREN   57 (251)
T ss_dssp             -----CCEEEEETTTSHHHH-----HHHHHHHHTTCEEEEEESSCC
T ss_pred             cccccCCEEEEECCCCHHHH-----HHHHHHHHCCCEEEEEeCCcc
Confidence            44567889999988888886     678889999999999987653

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=85.26  E-value=0.55  Score=42.19  Aligned_cols=34  Identities=32%  Similarity=0.404  Sum_probs=26.6

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +++|+++ |..|+||||++..||..+   |.  -++|.|.
T Consensus        48 g~~i~l~-G~~GsGKSTl~~~La~~l---g~--~~~d~d~   81 (250)
T 3nwj_A           48 GRSMYLV-GMMGSGKTTVGKIMARSL---GY--TFFDCDT   81 (250)
T ss_dssp             TCCEEEE-CSTTSCHHHHHHHHHHHH---TC--EEEEHHH
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHhc---CC--cEEeCcH
Confidence            3578887 889999999999999877   33  4677664

>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=85.24  E-value=0.68  Score=39.15  Aligned_cols=24  Identities=25%  Similarity=0.441  Sum_probs=20.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHH
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLA  199 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La  199 (386)
                      .++++ |..|+||||+...|+..+.
T Consensus         2 ~i~l~-G~nGsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            2 KIIIT-GEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEEE-CCTTSSHHHHHHHHHHHHG
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHhC
Confidence            56776 8999999999999998873

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=85.14  E-value=0.86  Score=46.46  Aligned_cols=34  Identities=26%  Similarity=0.301  Sum_probs=26.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHH----CCCcEEEE
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAG----MGARVGIF  208 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~----~G~rVllI  208 (386)
                      .+.+..|.+|+||||+...+...|.+    .|.+|+++
T Consensus       165 ~~~vi~G~pGTGKTt~l~~ll~~l~~~~~~~~~~vll~  202 (608)
T 1w36_D          165 RISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLA  202 (608)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEE
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHHHHhhhcCCCeEEEE
Confidence            34455599999999999999988874    46688776

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=84.99  E-value=0.86  Score=43.19  Aligned_cols=35  Identities=29%  Similarity=0.308  Sum_probs=28.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      ..|.++ |..|+|||++|..+|..+   |.++..+|+..
T Consensus        73 ~~ill~-Gp~GtGKT~la~~la~~l---~~~~~~~~~~~  107 (376)
T 1um8_A           73 SNILLI-GPTGSGKTLMAQTLAKHL---DIPIAISDATS  107 (376)
T ss_dssp             CCEEEE-CCTTSSHHHHHHHHHHHT---TCCEEEEEGGG
T ss_pred             CCEEEE-CCCCCCHHHHHHHHHHHh---CCCEEEecchh
Confidence            456666 889999999999999877   67888888754

>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=84.72  E-value=0.67  Score=40.06  Aligned_cols=30  Identities=20%  Similarity=0.194  Sum_probs=19.9

Q ss_pred             cccCCc-eEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          168 GLQKIS-NIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       168 ~~~~~~-kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      ++..+. ++|++ +|..|+||||+...|+..+
T Consensus        13 ~~~~~~g~~ivl-~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           13 NLYFQGRKTLVL-IGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             ---CCSCCEEEE-ECCTTSSHHHHHHHHHHHC
T ss_pred             cCCCCCCCEEEE-ECcCCCCHHHHHHHHHhhC
Confidence            344443 45555 5999999999998887654

>2vos_A Folylpolyglutamate synthase protein FOLC; ligase, peptidoglycan synthesis, cell division; HET: ADP; 2.0A {Mycobacterium tuberculosis} PDB: 2vor_A*

Probab=84.67  E-value=1.1  Score=44.21  Aligned_cols=34  Identities=18%  Similarity=0.198  Sum_probs=29.6

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEE
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIF  208 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllI  208 (386)
                      ..++|.|++   --||||++.-|+..|...|++|.++
T Consensus        63 ~~~vI~VtG---TNGKtST~~~l~~iL~~~G~~vG~~   96 (487)
T 2vos_A           63 SYPSIHIAG---TNGKTSVARMVDALVTALHRRTGRT   96 (487)
T ss_dssp             SSCEEEEEC---SSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             cCeEEEEeC---CCCcHHHHHHHHHHHHHcCCCeEEE
Confidence            346999994   4689999999999999999999876

>1o5z_A Folylpolyglutamate synthase/dihydrofolate synthas; TM0166, structural genomics, JC protein structure initiative; 2.10A {Thermotoga maritima} SCOP: c.59.1.2 c.72.2.2

Probab=84.65  E-value=1  Score=43.96  Aligned_cols=34  Identities=29%  Similarity=0.438  Sum_probs=30.1

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEE
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIF  208 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllI  208 (386)
                      ..++|+|+   |--||||++.-|+..|...|++|.++
T Consensus        51 ~~~vI~VT---GTnGKtTT~~~l~~iL~~~G~~vg~~   84 (442)
T 1o5z_A           51 EYKTIHIG---GTNGKGSVANMVSNILVSQGYRVGSY   84 (442)
T ss_dssp             SSEEEEEE---CSSSHHHHHHHHHHHHHHHTCCEEEE
T ss_pred             cCCEEEEE---CCcCHHHHHHHHHHHHHHCCCCEEEE
Confidence            34799999   45799999999999999999999986

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=84.43  E-value=1.1  Score=40.23  Aligned_cols=33  Identities=15%  Similarity=0.008  Sum_probs=25.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      +.+.++ |..|+|||++|..+|..+   |.+.+.+++
T Consensus        65 ~~vLl~-G~~GtGKT~la~~ia~~~---~~~~~~i~~   97 (272)
T 1d2n_A           65 VSVLLE-GPPHSGKTALAAKIAEES---NFPFIKICS   97 (272)
T ss_dssp             EEEEEE-CSTTSSHHHHHHHHHHHH---TCSEEEEEC
T ss_pred             eEEEEE-CCCCCcHHHHHHHHHHHh---CCCEEEEeC
Confidence            466666 889999999999998874   566666654

>3ged_A Short-chain dehydrogenase/reductase SDR; SCOR, rossmann fold, oxidoreductase; 1.70A {Clostridium thermocellum atcc 27405} PDB: 3geg_A*

Probab=84.36  E-value=0.54  Score=42.15  Aligned_cols=36  Identities=25%  Similarity=0.409  Sum_probs=30.4

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      |.|++.||++.+|.|+.     +|..|++.|.+|+++|.|.
T Consensus         1 MnK~vlVTGas~GIG~a-----ia~~la~~Ga~V~~~~~~~   36 (247)
T 3ged_A            1 MNRGVIVTGGGHGIGKQ-----ICLDFLEAGDKVCFIDIDE   36 (247)
T ss_dssp             -CCEEEEESTTSHHHHH-----HHHHHHHTTCEEEEEESCH
T ss_pred             CCCEEEEecCCCHHHHH-----HHHHHHHCCCEEEEEeCCH
Confidence            45799999999999974     6788999999999998763

>2wtz_A UDP-N-acetylmuramoyl-L-alanyl-D-glutamate- -2,6-diaminopimelate ligase; nucleotide-binding, peptidoglycan synthesis, MURE, C shape; HET: KCX UAG; 3.00A {Mycobacterium tuberculosis} PDB: 2xja_A*

Probab=84.36  E-value=1.2  Score=44.48  Aligned_cols=34  Identities=21%  Similarity=0.377  Sum_probs=30.0

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEE
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIF  208 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllI  208 (386)
                      ..++|+|+   |-.||||++..|+..|...|++|.++
T Consensus       145 ~~~vI~VT---GTnGKTTT~~ml~~iL~~~G~~~g~~  178 (535)
T 2wtz_A          145 RLTVIGIT---GTSGKTTTTYLVEAGLRAAGRVAGLI  178 (535)
T ss_dssp             SSEEEEEE---SSSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             cceEEEee---CCCChHHHHHHHHHHHHHCCCCEEEE
Confidence            45799999   55789999999999999999999875

>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=84.13  E-value=4.8  Score=33.87  Aligned_cols=90  Identities=17%  Similarity=0.156  Sum_probs=51.2

Q ss_pred             CCcEEEEcCCCCCChHH-HhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCcee
Q 016622          280 ELDYLVIDMPPGTGDIQ-LTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~-~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      .+.+.|+|+++...... +....+..+|.+++|...+. .++..+...+..+.+    .+.+++ +|.|+++....... 
T Consensus        71 ~~~l~i~Dt~g~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii-lv~nK~Dl~~~~~v-  148 (195)
T 3cbq_A           71 EVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVI-LVGNKSDLARSREV-  148 (195)
T ss_dssp             EEEEEEECCCCCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEE-EEEECTTCTTTCCS-
T ss_pred             EEEEEEEecCCCccchhhhHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEE-EEeechhccccCCc-
Confidence            46788999985432111 21111334688888877653 455666665555543    245544 88899986432111 


Q ss_pred             cccCCChHHHHHHHhCCCeEE
Q 016622          354 YPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl~  374 (386)
                         .....+++++.++++++.
T Consensus       149 ---~~~~~~~~a~~~~~~~~e  166 (195)
T 3cbq_A          149 ---SLEEGRHLAGTLSCKHIE  166 (195)
T ss_dssp             ---CHHHHHHHHHHTTCEEEE
T ss_pred             ---CHHHHHHHHHHhCCEEEE
Confidence               112456677777876543

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=84.02  E-value=0.89  Score=44.16  Aligned_cols=64  Identities=16%  Similarity=0.183  Sum_probs=43.0

Q ss_pred             cEEEEcCCCCCCh-------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          282 DYLVIDMPPGTGD-------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       282 D~VIIDtpp~~~~-------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      .+.|+|||+-...       .......+..+|.+++|+..+..  ....+.++.+.+.+.+++ +|+|+++...
T Consensus        84 ~l~liDTpG~~d~~~l~~~~~~~~~~~l~~aD~vllVvD~~~~--~~~~~~l~~l~~~~~piI-vV~NK~Dl~~  154 (423)
T 3qq5_A           84 PVTLVDTPGLDDVGELGRLRVEKARRVFYRADCGILVTDSAPT--PYEDDVVNLFKEMEIPFV-VVVNKIDVLG  154 (423)
T ss_dssp             EEEEEECSSTTCCCTTCCCCHHHHHHHHTSCSEEEEECSSSCC--HHHHHHHHHHHHTTCCEE-EECCCCTTTT
T ss_pred             eEEEEECcCCCcccchhHHHHHHHHHHHhcCCEEEEEEeCCCh--HHHHHHHHHHHhcCCCEE-EEEeCcCCCC
Confidence            6899999863211       11122234568999999987333  445677788888888865 8889998654

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=83.97  E-value=0.88  Score=40.03  Aligned_cols=34  Identities=29%  Similarity=0.359  Sum_probs=26.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +.+|+++ |..|+||||++..||..|   |  ..++|.|.
T Consensus        16 ~~~i~i~-G~~gsGKst~~~~l~~~l---g--~~~~d~d~   49 (236)
T 1q3t_A           16 TIQIAID-GPASSGKSTVAKIIAKDF---G--FTYLDTGA   49 (236)
T ss_dssp             CCEEEEE-CSSCSSHHHHHHHHHHHH---C--CEEEEHHH
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHc---C--CceecCCC
Confidence            4578887 889999999999888766   4  35678764

>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=83.93  E-value=0.94  Score=45.12  Aligned_cols=34  Identities=26%  Similarity=0.243  Sum_probs=27.9

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +.+.++ |..|+||||++..+|..+   |..++.+++.
T Consensus        78 ~~lLL~-GppGtGKTtla~~la~~l---~~~~i~in~s  111 (516)
T 1sxj_A           78 RAAMLY-GPPGIGKTTAAHLVAQEL---GYDILEQNAS  111 (516)
T ss_dssp             SEEEEE-CSTTSSHHHHHHHHHHHT---TCEEEEECTT
T ss_pred             cEEEEE-CCCCCCHHHHHHHHHHHc---CCCEEEEeCC
Confidence            466666 889999999999998877   7888887764

>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=83.78  E-value=0.91  Score=39.04  Aligned_cols=27  Identities=33%  Similarity=0.294  Sum_probs=22.1

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM  201 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~  201 (386)
                      +.+.|+ |..|+||||++..++..+...
T Consensus        46 ~~~ll~-G~~G~GKT~l~~~~~~~~~~~   72 (250)
T 1njg_A           46 HAYLFS-GTRGVGKTSIARLLAKGLNCE   72 (250)
T ss_dssp             SEEEEE-CSTTSCHHHHHHHHHHHHHCT
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHhcCC
Confidence            356666 899999999999999888643

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=83.74  E-value=0.91  Score=39.97  Aligned_cols=33  Identities=30%  Similarity=0.492  Sum_probs=26.0

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+|+|+ +..|+||||++..||..|   |.+  ++|.|.
T Consensus        15 ~iI~i~-g~~gsGk~~i~~~la~~l---g~~--~~d~~~   47 (223)
T 3hdt_A           15 LIITIE-REYGSGGRIVGKKLAEEL---GIH--FYDDDI   47 (223)
T ss_dssp             EEEEEE-ECTTSCHHHHHHHHHHHH---TCE--EECHHH
T ss_pred             eEEEEe-CCCCCCHHHHHHHHHHHc---CCc--EEcHHH
Confidence            467666 889999999999999877   554  477765

>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=83.67  E-value=0.85  Score=39.60  Aligned_cols=23  Identities=35%  Similarity=0.302  Sum_probs=19.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      +|.|. |.+|+||+|.|..||..+
T Consensus         2 ~Iil~-GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFL-GPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEE-CSTTSSHHHHHHHHHHHH
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHH
Confidence            46666 889999999999999876

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=83.47  E-value=1.2  Score=41.40  Aligned_cols=36  Identities=17%  Similarity=0.043  Sum_probs=27.8

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      .+-|.++ |..|+|||++|..+|..+  .+..+..+++.
T Consensus        45 ~~~iLL~-GppGtGKT~la~ala~~~--~~~~~~~i~~~   80 (322)
T 1xwi_A           45 WRGILLF-GPPGTGKSYLAKAVATEA--NNSTFFSISSS   80 (322)
T ss_dssp             CSEEEEE-SSSSSCHHHHHHHHHHHT--TSCEEEEEECC
T ss_pred             CceEEEE-CCCCccHHHHHHHHHHHc--CCCcEEEEEhH
Confidence            3567777 889999999999999876  35666667653

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=83.46  E-value=1.3  Score=40.24  Aligned_cols=34  Identities=21%  Similarity=0.092  Sum_probs=26.3

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      .+.+.++ |..|+||||++..+|..+   +.....+++
T Consensus        54 ~~~vll~-Gp~GtGKT~la~~la~~~---~~~~~~i~~   87 (297)
T 3b9p_A           54 AKGLLLF-GPPGNGKTLLARAVATEC---SATFLNISA   87 (297)
T ss_dssp             CSEEEEE-SSSSSCHHHHHHHHHHHT---TCEEEEEES
T ss_pred             CCeEEEE-CcCCCCHHHHHHHHHHHh---CCCeEEeeH
Confidence            4567777 889999999999988765   556666665

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=83.43  E-value=0.53  Score=46.31  Aligned_cols=41  Identities=15%  Similarity=0.097  Sum_probs=32.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCC-cEEEEEcCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGA-RVGIFDADVYG  214 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~-rVllID~D~~~  214 (386)
                      +.++++. |..|+||||+...|+-.+...+- +++++|.|+.+
T Consensus       138 Ge~v~Iv-GpnGsGKSTLlr~L~Gl~~p~~G~~pI~vdg~~~~  179 (460)
T 2npi_A          138 GPRVVIV-GGSQTGKTSLSRTLCSYALKFNAYQPLYINLDPQQ  179 (460)
T ss_dssp             CCCEEEE-ESTTSSHHHHHHHHHHTTHHHHCCCCEEEECCTTS
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHhCcccccCCceeEEEcCCccC
Confidence            4588888 88899999999999988765434 65778887643

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=83.41  E-value=1.2  Score=40.03  Aligned_cols=34  Identities=18%  Similarity=0.077  Sum_probs=26.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +.+.++ |..|+|||+++..+|..+   +.++..+++.
T Consensus        52 ~~~ll~-G~~GtGKT~la~~la~~~---~~~~~~v~~~   85 (285)
T 3h4m_A           52 KGILLY-GPPGTGKTLLAKAVATET---NATFIRVVGS   85 (285)
T ss_dssp             SEEEEE-SSSSSSHHHHHHHHHHHT---TCEEEEEEGG
T ss_pred             CeEEEE-CCCCCcHHHHHHHHHHHh---CCCEEEEehH
Confidence            456666 889999999999887764   6677777653

>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=83.36  E-value=0.74  Score=39.93  Aligned_cols=33  Identities=30%  Similarity=0.395  Sum_probs=23.4

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      ..+.|+|+ |..|+||||+|..|+    ++|.  -+|..|
T Consensus        33 ~g~~ilI~-GpsGsGKStLA~~La----~~g~--~iIsdD   65 (205)
T 2qmh_A           33 YGLGVLIT-GDSGVGKSETALELV----QRGH--RLIADD   65 (205)
T ss_dssp             TTEEEEEE-CCCTTTTHHHHHHHH----TTTC--EEEESS
T ss_pred             CCEEEEEE-CCCCCCHHHHHHHHH----HhCC--eEEecc
Confidence            34677777 899999999887665    5565  445555

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=83.28  E-value=1.4  Score=41.59  Aligned_cols=36  Identities=19%  Similarity=0.141  Sum_probs=28.4

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      ..+.|.++ |..|+|||+++..+|..+   |..++.+++.
T Consensus       116 ~~~~vLl~-GppGtGKT~la~aia~~~---~~~~~~i~~~  151 (357)
T 3d8b_A          116 PPKGILLF-GPPGTGKTLIGKCIASQS---GATFFSISAS  151 (357)
T ss_dssp             CCSEEEEE-SSTTSSHHHHHHHHHHHT---TCEEEEEEGG
T ss_pred             CCceEEEE-CCCCCCHHHHHHHHHHHc---CCeEEEEehH
Confidence            34567777 889999999999998754   7788888764

>3lk7_A UDP-N-acetylmuramoylalanine--D-glutamate ligase; agalacitae, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: MSE; 1.50A {Streptococcus agalactiae}

Probab=83.23  E-value=1.4  Score=43.07  Aligned_cols=31  Identities=26%  Similarity=0.411  Sum_probs=27.0

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEE
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGI  207 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVll  207 (386)
                      ++|+|+   |--||||++..++..|...|+++.+
T Consensus       113 ~~IaVT---GTnGKTTTt~ml~~iL~~~g~~~~~  143 (451)
T 3lk7_A          113 QLIGIT---GSNGKTTTTTMIAEVLNAGGQRGLL  143 (451)
T ss_dssp             EEEEEE---CSSCHHHHHHHHHHHHHHTTCCEEE
T ss_pred             CEEEEE---CCCCHHHHHHHHHHHHHhcCCCEEE
Confidence            799999   4567999999999999999988754

>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial conjugation, F1-ATPase-like quaternary structure, ring helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB: 1e9s_A 1gki_A* 1gl7_A* 1gl6_A*

Probab=83.18  E-value=1.2  Score=43.02  Aligned_cols=36  Identities=36%  Similarity=0.398  Sum_probs=30.0

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      -+.|. |..|+|||++...+...+...|.+|+++|..
T Consensus        55 h~~i~-G~tGsGKs~~~~~li~~~~~~g~~viv~Dpk   90 (437)
T 1e9r_A           55 HLLVN-GATGTGKSVLLRELAYTGLLRGDRMVIVDPN   90 (437)
T ss_dssp             CEEEE-ECTTSSHHHHHHHHHHHHHHTTCEEEEEEET
T ss_pred             eEEEE-CCCCCCHHHHHHHHHHHHHHCCCcEEEEeCC
Confidence            44555 7889999999888888888899999999864

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=83.15  E-value=1.2  Score=37.75  Aligned_cols=27  Identities=22%  Similarity=0.319  Sum_probs=21.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGAR  204 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~r  204 (386)
                      .+-+.|+ |..|+||||+|..|..    +|++
T Consensus        16 G~gvli~-G~SGaGKStlal~L~~----rG~~   42 (181)
T 3tqf_A           16 KMGVLIT-GEANIGKSELSLALID----RGHQ   42 (181)
T ss_dssp             TEEEEEE-ESSSSSHHHHHHHHHH----TTCE
T ss_pred             CEEEEEE-cCCCCCHHHHHHHHHH----cCCe
Confidence            4577777 8899999999887654    6764

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=83.13  E-value=0.73  Score=40.70  Aligned_cols=25  Identities=28%  Similarity=0.236  Sum_probs=21.1

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHH
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLA  199 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La  199 (386)
                      +.|+|. |--|+||||++..|+..|.
T Consensus         3 ~~i~~~-G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            3 RRLSIE-GNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             EEEEEE-ECTTSSHHHHHHHHHHHCT
T ss_pred             eEEEEE-cCCCCCHHHHHHHHHHHcC
Confidence            567777 7799999999999998873

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=82.93  E-value=0.84  Score=45.99  Aligned_cols=40  Identities=20%  Similarity=0.208  Sum_probs=28.2

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHH---HH-CCCcEEEEEcCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTL---AG-MGARVGIFDADV  212 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~L---a~-~G~rVllID~D~  212 (386)
                      ..++|+|+ |-||+||||++..++...   .. ....|..++++.
T Consensus       146 ~~~~v~I~-G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~  189 (591)
T 1z6t_A          146 EPGWVTIH-GMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGK  189 (591)
T ss_dssp             SCEEEEEE-CCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEES
T ss_pred             CCceEEEE-cCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCC
Confidence            34677776 999999999999987643   22 223577777654

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii}

Probab=82.81  E-value=1.7  Score=39.23  Aligned_cols=40  Identities=10%  Similarity=-0.009  Sum_probs=32.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      .++.+ ++-+|.||||++.+++...+++|.+++++-.+-..
T Consensus        22 s~~li-~g~p~~~~~~l~~qfl~~g~~~Ge~~~~~~~~e~~   61 (260)
T 3bs4_A           22 LILIH-EEDASSRGKDILFYILSRKLKSDNLVGMFSISYPL   61 (260)
T ss_dssp             EEEEE-ECSGGGCHHHHHHHHHHHHHHTTCEEEEEECSSCH
T ss_pred             cEEEE-EeCCCccHHHHHHHHHHHHHHCCCcEEEEEEeCCH
Confidence            45555 46677777799999999999999999999987533

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=82.75  E-value=0.8  Score=39.26  Aligned_cols=25  Identities=32%  Similarity=0.308  Sum_probs=21.0

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHH
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLA  199 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La  199 (386)
                      ++++|+ |..|+||||+.-.|+..+.
T Consensus         5 ~~i~lv-GpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            5 RPVVLS-GPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             CCEEEE-CCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEE-CCCCCCHHHHHHHHHhhCc
Confidence            577777 8899999999999988663

>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=82.74  E-value=0.53  Score=45.57  Aligned_cols=34  Identities=24%  Similarity=0.222  Sum_probs=23.7

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +++|.+ .|-.|+||||++..|+..+   |  ...||.|.
T Consensus       258 ~~lIil-~G~pGSGKSTla~~L~~~~---~--~~~i~~D~  291 (416)
T 3zvl_A          258 PEVVVA-VGFPGAGKSTFIQEHLVSA---G--YVHVNRDT  291 (416)
T ss_dssp             CCEEEE-ESCTTSSHHHHHHHHTGGG---T--CEECCGGG
T ss_pred             CEEEEE-ECCCCCCHHHHHHHHHHhc---C--cEEEccch
Confidence            345555 4999999999999887644   3  45566654

>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=82.72  E-value=0.8  Score=40.22  Aligned_cols=35  Identities=14%  Similarity=0.118  Sum_probs=27.1

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      .+.+|+|. |..|+||||++..|+..    +.+|.+..-+
T Consensus        19 ~g~~i~i~-G~~GsGKSTl~~~L~~~----~g~v~~~~~~   53 (230)
T 2vp4_A           19 QPFTVLIE-GNIGSGKTTYLNHFEKY----KNDICLLTEP   53 (230)
T ss_dssp             CCEEEEEE-CSTTSCHHHHHHTTGGG----TTTEEEECCT
T ss_pred             CceEEEEE-CCCCCCHHHHHHHHHhc----cCCeEEEecC
Confidence            35688888 88999999998887765    5677777544

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=82.59  E-value=1.3  Score=45.28  Aligned_cols=34  Identities=21%  Similarity=0.313  Sum_probs=27.8

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHH-CCCcEEEEE
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAG-MGARVGIFD  209 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~-~G~rVllID  209 (386)
                      +.+..|-+|+||||+...++..+.+ .+.+|+++-
T Consensus       197 ~~li~GppGTGKT~~~~~~i~~l~~~~~~~ilv~a  231 (624)
T 2gk6_A          197 LSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCA  231 (624)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTSSSCCEEEEE
T ss_pred             CeEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEe
Confidence            4455588999999999999999886 678888763

>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=82.39  E-value=3.9  Score=38.05  Aligned_cols=35  Identities=20%  Similarity=0.179  Sum_probs=25.3

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      +..++|+ |..|+||||+...|+..+.... ..+.++
T Consensus       171 g~~v~i~-G~~GsGKTTll~~l~g~~~~~~-g~i~i~  205 (330)
T 2pt7_A          171 GKNVIVC-GGTGSGKTTYIKSIMEFIPKEE-RIISIE  205 (330)
T ss_dssp             TCCEEEE-ESTTSCHHHHHHHGGGGSCTTS-CEEEEE
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHhCCCcCCC-cEEEEC
Confidence            3578887 7889999999988887765433 344554

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=82.29  E-value=1.1  Score=41.63  Aligned_cols=39  Identities=10%  Similarity=-0.071  Sum_probs=28.7

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHC-------CCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGM-------GARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~-------G~rVllID~D~  212 (386)
                      +..+.++ |.+|+|||+++..++..|.+.       +.+++.|+|-.
T Consensus        45 ~~~lli~-GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~   90 (318)
T 3te6_A           45 NKLFYIT-NADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALE   90 (318)
T ss_dssp             CCEEEEE-CCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTC
T ss_pred             CCeEEEE-CCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccc
Confidence            3456555 999999999999999999753       24566666543

>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=82.28  E-value=1.1  Score=37.18  Aligned_cols=24  Identities=21%  Similarity=0.288  Sum_probs=21.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      .++++. |..|+||||+...|+..+
T Consensus        34 e~v~L~-G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           34 IMVYLN-GDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEEE-CSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEE-CCCCCCHHHHHHHHHHhC
Confidence            588888 888999999999999887

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=82.17  E-value=1.3  Score=41.67  Aligned_cols=34  Identities=26%  Similarity=0.272  Sum_probs=27.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +.|.++ |-.|+|||++|..+|..+   |.+.+.+++-
T Consensus        52 ~~vll~-GppGtGKT~la~~ia~~~---~~~~~~~~~~   85 (363)
T 3hws_A           52 SNILLI-GPTGSGKTLLAETLARLL---DVPFTMADAT   85 (363)
T ss_dssp             CCEEEE-CCTTSSHHHHHHHHHHHT---TCCEEEEEHH
T ss_pred             CeEEEE-CCCCCCHHHHHHHHHHHc---CCCEEEechH
Confidence            466776 889999999999999877   6777777764

>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=81.98  E-value=1.3  Score=40.70  Aligned_cols=33  Identities=21%  Similarity=0.113  Sum_probs=25.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      +.|.++ |..|+||||++..+|..+   +...+.+++
T Consensus        50 ~~vLL~-Gp~GtGKT~la~ala~~~---~~~~i~v~~   82 (301)
T 3cf0_A           50 KGVLFY-GPPGCGKTLLAKAIANEC---QANFISIKG   82 (301)
T ss_dssp             SEEEEE-CSSSSSHHHHHHHHHHHT---TCEEEEECH
T ss_pred             ceEEEE-CCCCcCHHHHHHHHHHHh---CCCEEEEEh
Confidence            467777 889999999999998765   456666654

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=81.45  E-value=1.2  Score=43.88  Aligned_cols=36  Identities=28%  Similarity=0.318  Sum_probs=25.3

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHH-------CCCcEEEEEcC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAG-------MGARVGIFDAD  211 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~-------~G~rVllID~D  211 (386)
                      -+.++ |..|+|||+++..||..+..       .|.++.-+|+.
T Consensus       203 ~~LL~-G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~  245 (468)
T 3pxg_A          203 NPVLI-GEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG  245 (468)
T ss_dssp             EEEEE-SCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC---
T ss_pred             CeEEE-CCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC
Confidence            45555 99999999999999999875       34555555443

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=81.37  E-value=1.6  Score=41.96  Aligned_cols=33  Identities=24%  Similarity=0.511  Sum_probs=25.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      ++|+|+ |-.|+||||++..||..+.     .-+|.+|-
T Consensus         3 ~~i~i~-GptgsGKttla~~La~~~~-----~~iis~Ds   35 (409)
T 3eph_A            3 KVIVIA-GTTGVGKSQLSIQLAQKFN-----GEVINSDS   35 (409)
T ss_dssp             EEEEEE-ECSSSSHHHHHHHHHHHHT-----EEEEECCT
T ss_pred             cEEEEE-CcchhhHHHHHHHHHHHCC-----CeEeecCc
Confidence            355555 8889999999999998873     34688875

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=81.34  E-value=1.8  Score=41.92  Aligned_cols=39  Identities=21%  Similarity=0.141  Sum_probs=29.9

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      ...+|+|+ |..|+||||+...|+..+...+.++.+++-+
T Consensus       166 ~ggii~I~-GpnGSGKTTlL~allg~l~~~~g~I~~~ed~  204 (418)
T 1p9r_A          166 PHGIILVT-GPTGSGKSTTLYAGLQELNSSERNILTVEDP  204 (418)
T ss_dssp             SSEEEEEE-CSTTSCHHHHHHHHHHHHCCTTSCEEEEESS
T ss_pred             cCCeEEEE-CCCCCCHHHHHHHHHhhcCCCCCEEEEeccc
Confidence            34577777 9999999999999988886555577777643

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=81.08  E-value=1.9  Score=39.90  Aligned_cols=34  Identities=18%  Similarity=0.115  Sum_probs=26.7

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      .+-+.++ |..|+|||++|..+|..+   +..+..+++
T Consensus        51 ~~~vLl~-GppGtGKT~la~aia~~~---~~~~~~v~~   84 (322)
T 3eie_A           51 TSGILLY-GPPGTGKSYLAKAVATEA---NSTFFSVSS   84 (322)
T ss_dssp             CCEEEEE-CSSSSCHHHHHHHHHHHH---TCEEEEEEH
T ss_pred             CCeEEEE-CCCCCcHHHHHHHHHHHH---CCCEEEEch
Confidence            3467777 889999999999998765   567777765

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=80.99  E-value=0.75  Score=42.45  Aligned_cols=37  Identities=22%  Similarity=0.197  Sum_probs=30.5

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+.++ |..|+|||++|..++....+.+...+.++|..
T Consensus        27 ~vLi~-Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~   63 (304)
T 1ojl_A           27 TVLIH-GDSGTGKELVARALHACSARSDRPLVTLNCAA   63 (304)
T ss_dssp             CEEEE-SCTTSCHHHHHHHHHHHSSCSSSCCCEEECSS
T ss_pred             cEEEE-CCCCchHHHHHHHHHHhCcccCCCeEEEeCCC
Confidence            45565 89999999999999987777778888888754

>2ehd_A Oxidoreductase, oxidoreductase, short-chain dehydrogenase/reducta; rossman fold, structural genomics, NPPSFA; 2.40A {Thermus thermophilus}

Probab=80.96  E-value=0.75  Score=40.14  Aligned_cols=36  Identities=28%  Similarity=0.489  Sum_probs=29.0

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      .+.|+|.|+++.||.|+     .+|..|+++|++|.+++-+
T Consensus         3 ~~~k~vlVtGasggiG~-----~~a~~l~~~G~~V~~~~r~   38 (234)
T 2ehd_A            3 GMKGAVLITGASRGIGE-----ATARLLHAKGYRVGLMARD   38 (234)
T ss_dssp             -CCCEEEESSTTSHHHH-----HHHHHHHHTTCEEEEEESC
T ss_pred             CCCCEEEEECCCcHHHH-----HHHHHHHHCCCEEEEEECC
Confidence            45678999988888886     5777888899999998764

>2x5o_A UDP-N-acetylmuramoylalanine--D-glutamate ligase; ATP-binding, cell cycle, cell division, cell shape, cell WAL biogenesis/degradation; HET: KCX VSV; 1.46A {Escherichia coli} PDB: 2wjp_A* 2xpc_A* 2y1o_A* 2jff_A* 2jfh_A* 2uuo_A* 2uup_A* 2vtd_A* 2vte_A* 2jfg_A* 2y66_A* 2y67_A* 2y68_A* 4uag_A* 1e0d_A* 1uag_A* 1eeh_A* 3uag_A* 2uag_A*

Probab=80.87  E-value=1.8  Score=41.99  Aligned_cols=33  Identities=36%  Similarity=0.476  Sum_probs=29.0

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIF  208 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllI  208 (386)
                      .++|+|+   |--||||++..|+..|...|++|.+.
T Consensus       104 ~~vI~VT---GTnGKTTT~~ml~~iL~~~g~~~~~~  136 (439)
T 2x5o_A          104 APIVAIT---GSNGKSTVTTLVGEMAKAAGVNVGVG  136 (439)
T ss_dssp             SCEEEEE---CSSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCEEEEE---CCCCHHHHHHHHHHHHHhcCCCEEEe
Confidence            4699999   55789999999999999999998865

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=80.44  E-value=1.7  Score=45.88  Aligned_cols=33  Identities=21%  Similarity=0.326  Sum_probs=27.6

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHH-CCCcEEEE
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAG-MGARVGIF  208 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~-~G~rVllI  208 (386)
                      +.+..|-+|+||||+...++..|.+ .+.+|+++
T Consensus       373 ~~lI~GppGTGKT~ti~~~i~~l~~~~~~~ilv~  406 (800)
T 2wjy_A          373 LSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVC  406 (800)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTTCSSCEEEE
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCCcEEEE
Confidence            4555699999999999999999886 67888876

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=80.41  E-value=0.99  Score=39.35  Aligned_cols=23  Identities=13%  Similarity=0.177  Sum_probs=20.4

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      .|.|+ |.+|+||||+|..||..+
T Consensus        60 ~ili~-GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           60 CLVFC-GPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             EEEEE-SCGGGCHHHHHHHHHHHH
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHh
Confidence            56666 999999999999999987

>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=80.13  E-value=1.5  Score=40.55  Aligned_cols=29  Identities=31%  Similarity=0.266  Sum_probs=24.4

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARV  205 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rV  205 (386)
                      +.+++|+ |..|+||||+...|+..+  .| +|
T Consensus       126 Ge~vaIv-GpsGsGKSTLl~lL~gl~--~G-~I  154 (305)
T 2v9p_A          126 KNCLAFI-GPPNTGKSMLCNSLIHFL--GG-SV  154 (305)
T ss_dssp             CSEEEEE-CSSSSSHHHHHHHHHHHH--TC-EE
T ss_pred             CCEEEEE-CCCCCcHHHHHHHHhhhc--Cc-eE
Confidence            3588998 888999999999999988  55 44

>1dek_A Deoxynucleoside monophosphate kinase; transferase, phosphotransferase; HET: DGP; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1 PDB: 1del_A*

Probab=80.12  E-value=1.3  Score=39.58  Aligned_cols=28  Identities=21%  Similarity=0.126  Sum_probs=21.7

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcE
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARV  205 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rV  205 (386)
                      ++|+++ |+.|+||||++..|+..   .|.++
T Consensus         2 ~~i~lt-G~~~sGK~tv~~~l~~~---~g~~~   29 (241)
T 1dek_A            2 KLIFLS-GVKRSGKDTTADFIMSN---YSAVK   29 (241)
T ss_dssp             EEEEEE-CCTTSSHHHHHHHHHHH---SCEEE
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHh---cCCeE
Confidence            588888 78999999999877543   46554

---

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	386
d1ihua2	279	c.37.1.10 (A:308-586) Arsenite-translocating ATPas	3e-32
d1ihua1	296	c.37.1.10 (A:1-296) Arsenite-translocating ATPase	5e-23
d1cp2a_	269	c.37.1.10 (A:) Nitrogenase iron protein {Clostridi	5e-22
d2afhe1	289	c.37.1.10 (E:1-289) Nitrogenase iron protein {Azot	3e-21
d1byia_	224	c.37.1.10 (A:) Dethiobiotin synthetase {Escherichi	1e-18
d1g3qa_	237	c.37.1.10 (A:) Cell division regulator MinD {Archa	2e-18
d2cu6a1	91	d.52.8.2 (A:6-96) Hypothetical protein TTHB138 {Th	2e-18
d1hyqa_	232	c.37.1.10 (A:) Cell division regulator MinD {Archa	9e-16
d1uwda_	102	d.52.8.2 (A:) Hypothetical protein TM0487 {Thermot	1e-15
d1bifa1	213	c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fruct	0.002

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]} Length = 279

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]

 Score =  120 bits (301), Expect = 3e-32
 Identities = 43/264 (16%), Positives = 78/264 (29%), Gaps = 39/264 (14%)

Query: 155 QPARPIFAEQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG 214
           +P  P     L + + +  + + +   KGGVGK+T+A  +A  LA MG  V +  +D   
Sbjct: 2   RPDIPSL-SALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSDPAA 60

Query: 215 PSLPTMVSPENRLL-------EMNPEKRTIIPTEYLGVKLVSFGFSGQGR-AIMRGPMVS 266
             L   ++     L           E+      E  G +L   G                
Sbjct: 61  -HLSMTLNGSLNNLQVSRIDPHEETERYRQHVLETKGKELDEAGKRLLEEDLRSPCTEEI 119

Query: 267 GVINQLLTTTEWGELDYLVIDMPP-------------------------GTGDIQLTLCQ 301
            V              ++V+D  P                         G     + L Q
Sbjct: 120 AVFQAFSRVIREAGKRFVVMDTAPTGHTLLLLDATGAYHREIAKKMGEKGHFTTPMMLLQ 179

Query: 302 VVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSG 361
               T  ++VT P+    ++ A       +  +     + N     AD +      R   
Sbjct: 180 DPERTKVLLVTLPETTPVLEAANLQADLERAGIHPWGWIINNSLSIADTRSPLLRMRAQQ 239

Query: 362 SQ----VVQQFGIPHLFDLPIRPT 381
                  V++     +  +P+  +
Sbjct: 240 ELPQIESVKRQHASRVALVPVLAS 263

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]} Length = 296

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]

 Score = 95.8 bits (237), Expect = 5e-23
 Identities = 37/278 (13%), Positives = 70/278 (25%), Gaps = 66/278 (23%)

Query: 169 LQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD-------VYGPSLPTMV 221
           LQ I   +  +  KGGVGK++++   A  LA  G RV +   D       V+  ++   +
Sbjct: 4   LQNIPPYLFFTG-KGGVGKTSISCATAIRLAEQGKRVLLVSTDPASNVGQVFSQTIGNTI 62

Query: 222 SPEN-------RLLEMNPEKRTIIPTEYLGVK-------LVSFGFSGQGRAIMRGPMVSG 267
                        ++     +         +K       + S      G           
Sbjct: 63  QAIASVPGLSALEIDPQAAAQQYRARIVDPIKGVLPDDVVSSINEQLSGACTTEIAAFDE 122

Query: 268 VINQLLTTTEWGELDYLVIDMPPGTGDIQL------------------------------ 297
               L   +     D+++ D  P    I+L                              
Sbjct: 123 FTGLLTDASLLTRFDHIIFDTAPTGHTIRLLQLPGAWSSFIDSNPEGASCLGPMAGLEKQ 182

Query: 298 --------TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDAD 349
                           T  V+V   QK    +VA+     + + +    +V N      +
Sbjct: 183 REQYAYAVEALSDPKRTRLVLVARLQKSTLQEVARTHLELAAIGLKNQYLVINGVLPKTE 242

Query: 350 GKRYYPFGRGSGSQ------VVQQFGIPHLFDLPIRPT 381
                        +      +           L ++P 
Sbjct: 243 AANDTLAAAIWEREQEALANLPADLAGLPTDTLFLQPV 280

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]} Length = 269

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]

 Score = 92.3 bits (228), Expect = 5e-22
 Identities = 35/187 (18%), Positives = 61/187 (32%), Gaps = 11/187 (5%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTM--------VSPENR 226
            VA+   KGG+GKST   NL   L  MG  + +   D    S   +        V    R
Sbjct: 3   QVAIYG-KGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPKADSTRLLLGGLAQKSVLDTLR 61

Query: 227 LLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIM-RGPMVSGVINQLLTTTEWGELDYLV 285
               + E  +I+   Y G++ V  G    G     RG + S  + + L      +LDY+ 
Sbjct: 62  EEGEDVELDSILKEGYGGIRCVESGGPEPGVGCAGRGIITSINMLEQLGAYTD-DLDYVF 120

Query: 286 IDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCH 345
            D+          +         + +    ++  +  A  +    +       V      
Sbjct: 121 YDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALYAANNISKGIQKYAKSGGVRLGGII 180

Query: 346 FDADGKR 352
            ++    
Sbjct: 181 CNSRKVA 187

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]} Length = 289

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]

 Score = 90.7 bits (224), Expect = 3e-21
 Identities = 40/221 (18%), Positives = 68/221 (30%), Gaps = 18/221 (8%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR-------- 226
             A+   KGG+GKST   NL   LA MG +V I   D    S   ++  + +        
Sbjct: 4   QCAIYG-KGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKADSTRLILHSKAQNTIMEMAA 62

Query: 227 --LLEMNPEKRTIIPTEYLGVKLVSFGFSGQGRAIM-RGPMVSGVINQLLTTTEWGELDY 283
                 + E   ++   Y GVK V  G    G     RG + +    +     E  +LD+
Sbjct: 63  EAGTVEDLELEDVLKAGYGGVKCVESGGPEPGVGCAGRGVITAINFLEEEGAYED-DLDF 121

Query: 284 LVIDMPPG-TGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVEN 342
           +  D+             +        IV + + +A        +   K        +  
Sbjct: 122 VFYDVLGDVVCGGFAMPIRENKAQEIYIVCSGEMMAMYAANNISKGIVKYANSGSVRLGG 181

Query: 343 MCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVS 383
           +        R           +  + G   +  +P    V 
Sbjct: 182 LICNS----RNTDREDELIIALANKLGTQMIHFVPRDNVVQ 218

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]} Length = 224

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]

 Score = 81.7 bits (200), Expect = 1e-18
 Identities = 24/208 (11%), Positives = 51/208 (24%), Gaps = 11/208 (5%)

Query: 178 VSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEM-----NP 232
           V+     VGK+  +  L       G R   +     G          +  L +       
Sbjct: 6   VTGTDTEVGKTVASCALLQAAKAAGYRTAGYKPVASGSEKTPEGLRNSDALALQRNSSLQ 65

Query: 233 EKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGT 292
                +              S Q    +   ++S  +  L    +W  ++       P +
Sbjct: 66  LDYATVNPYTFAEPTSPHIISAQEGRPIESLVMSAGLRALEQQADWVLVEGAGGWFTPLS 125

Query: 293 GDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKR 352
                           ++V   +           ++     +     V N       GKR
Sbjct: 126 DTFTFADWVTQEQLPVILVVGVKLGCINHAMLTAQVIQHAGLTLAGWVAND--VTPPGKR 183

Query: 353 YYPFGRGSGSQVVQQFGIPHLFDLPIRP 380
           +  +       + +    P L ++P   
Sbjct: 184 HAEYMT----TLTRMIPAPLLGEIPWLA 207

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 237

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]

 Score = 81.7 bits (200), Expect = 2e-18
 Identities = 23/118 (19%), Positives = 45/118 (38%), Gaps = 2/118 (1%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEK 234
           I+++ S KGG GK+TV  NL+  L   G +V   D D+   +L  ++  ++  + ++   
Sbjct: 4   IISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGDLTMANLSLVLGVDDPDVTLHDVL 63

Query: 235 RTIIPTEYLGVKLVSFGFSGQGRAI--MRGPMVSGVINQLLTTTEWGELDYLVIDMPP 290
                 E                A+               +  +   + D+++ID P 
Sbjct: 64  AGEANVEDAIYMTQFDNVYVLPGAVDWEHVLKADPRKLPEVIKSLKDKFDFILIDCPA 121

>d2cu6a1 d.52.8.2 (A:6-96) Hypothetical protein TTHB138 {Thermus thermophilus [TaxId: 274]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: PaaD-like
domain: Hypothetical protein TTHB138
species: Thermus thermophilus [TaxId: 274]

 Score = 77.2 bits (190), Expect = 2e-18
 Identities = 22/81 (27%), Positives = 39/81 (48%), Gaps = 2/81 (2%)

Query: 77  ENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRAN 136
           E      L  + DP+ G D+V+ G + D+ +         R+ LTTP CP+ D   +   
Sbjct: 3   EAQAWALLEAVYDPELGLDVVNLGLIYDLVVEP--PRAYVRMTLTTPGCPLHDSLGEAVR 60

Query: 137 EVVLAIPWVNKVNVTMSAQPA 157
           + +  +P V +V V ++ +P 
Sbjct: 61  QALSRLPGVEEVEVEVTFEPP 81

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 232

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]

 Score = 73.7 bits (179), Expect = 9e-16
 Identities = 20/52 (38%), Positives = 29/52 (55%)

Query: 175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENR 226
            + V+S KGG GK+T+  NL   LA +G  V I DAD+   +L  ++  E  
Sbjct: 3   TITVASGKGGTGKTTITANLGVALAQLGHDVTIVDADITMANLELILGMEGL 54

>d1uwda_ d.52.8.2 (A:) Hypothetical protein TM0487 {Thermotoga maritima [TaxId: 2336]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: PaaD-like
domain: Hypothetical protein TM0487
species: Thermotoga maritima [TaxId: 2336]

 Score = 70.3 bits (172), Expect = 1e-15
 Identities = 30/81 (37%), Positives = 42/81 (51%), Gaps = 1/81 (1%)

Query: 77  ENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRAN 136
           + DVL AL  +ID + G D+VS G V D+Q  +    V   + +TTP CP+  M    A 
Sbjct: 7   KEDVLNALKNVIDFELGLDVVSLGLVYDIQ-IDDQNNVKVLMTMTTPMCPLAGMILSDAE 65

Query: 137 EVVLAIPWVNKVNVTMSAQPA 157
           E +  I  VN V V ++  P 
Sbjct: 66  EAIKKIEGVNNVEVELTFDPP 86

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 213

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]

 Score = 36.9 bits (84), Expect = 0.002
 Identities = 7/34 (20%), Positives = 13/34 (38%)

Query: 184 GVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSL 217
             GK+ ++  L   L  +G     F+   Y   +
Sbjct: 12  ARGKTYISKKLTRYLNFIGVPTREFNVGQYRRDM 45

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	386
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	99.97
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	99.96
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	99.94
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	99.94
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	99.86
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	99.83
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	99.82
d1uwda_	102	Hypothetical protein TM0487 {Thermotoga maritima [	99.8
d2cu6a1	91	Hypothetical protein TTHB138 {Thermus thermophilus	99.77
d2qy9a2	211	GTPase domain of the signal recognition particle r	99.33
d1ls1a2	207	GTPase domain of the signal sequence recognition p	99.31
d1okkd2	207	GTPase domain of the signal recognition particle r	99.3
d1vmaa2	213	GTPase domain of the signal recognition particle r	99.26
d1j8yf2	211	GTPase domain of the signal sequence recognition p	99.18
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	98.5
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	98.4
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	98.22
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	98.21
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	97.97
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.81
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	97.68
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	97.41
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	97.36
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	97.3
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	97.24
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.19
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.13
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.91
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	96.87
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.77
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	96.71
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	96.7
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.55
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.53
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	96.44
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.29
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	96.24
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	96.23
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.15
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.15
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.14
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	96.13
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	96.13
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	96.11
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	96.1
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	96.06
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.04
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.02
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	95.99
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	95.96
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	95.87
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	95.85
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.83
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.81
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.71
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.55
d1eg7a_	549	Formyltetrahydrofolate synthetase {Moorella thermo	95.55
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.5
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	95.49
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	95.47
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	95.44
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	95.39
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.36
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	95.35
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.33
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	95.32
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	95.17
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	95.15
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.12
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.12
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	95.08
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	95.07
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	95.05
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	95.02
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	95.01
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.85
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	94.82
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.66
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	94.59
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.57
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	94.5
d2g0ta1	338	Hypothetical protein TM0796 {Thermotoga maritima [	94.5
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	94.38
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.38
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	94.38
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	94.34
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.33
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	94.31
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	94.17
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	94.11
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	94.09
d1e8ca3	234	UDP-N-acetylmuramyl tripeptide synthetase MurE {Es	94.03
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	93.97
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	93.96
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.93
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	93.81
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	93.79
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.76
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	93.74
d1veha_	92	HIRA-interacting protein 5, HIRIP5 {Mouse (Mus mus	93.7
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.68
d1s1ma2	266	CTP synthase PyrG, N-terminal domain {Escherichia	93.67
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.6
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.53
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.52
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.25
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	93.08
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.04
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	93.0
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	92.98
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	92.97
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	92.84
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	92.77
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.54
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	92.52
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	92.38
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.34
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	92.31
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	92.18
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	92.18
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	92.13
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	92.0
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	91.92
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	91.85
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	91.71
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	91.7
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	91.66
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	91.61
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	91.31
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	91.16
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	91.14
d1gg4a4	214	UDP-murNac-tripeptide D-alanyl-D-alanine-adding en	90.95
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	90.69
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	90.66
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	90.58
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	90.55
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	90.35
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	90.33
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	90.16
d2gc6a2	296	Folylpolyglutamate synthetase {Lactobacillus casei	90.04
d2jfga3	204	UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase	90.03
d1p3da3	215	UDP-N-acetylmuramate-alanine ligase MurC {Haemophi	89.85
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	89.84
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	89.77
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	89.51
d1j6ua3	207	UDP-N-acetylmuramate-alanine ligase MurC {Thermoto	89.3
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	88.88
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	88.88
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	88.69
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	88.59
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	88.58
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	88.05
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	87.84
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	87.79
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	87.76
d1vcoa2	272	CTP synthase PyrG, N-terminal domain {Thermus ther	87.42
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	87.24
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	87.1
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	86.87
d2jfga1	93	UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase	86.79
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	86.17
d1o5za2	296	Folylpolyglutamate synthetase {Thermotoga maritima	86.03
d1fjha_	257	3-alpha-hydroxysteroid dehydrogenase {Comamonas te	85.92
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	85.71
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	85.7
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	85.47
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	85.32
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	85.25
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	85.01
d2vo1a1	273	CTP synthase PyrG, N-terminal domain {Human (Homo	84.95
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	84.64
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	84.56
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	83.91
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	83.9
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	83.67
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	83.65
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	83.16
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	82.84
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	82.69
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	82.62
d1xhja_	88	Nitrogen fixation protein NifU homolog SE0630 {Sta	82.38
d1th5a1	73	NifU-like protein 1, NIFUL1 {Rice (Oryza sativa) [	82.0
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	81.88
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	81.71
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	81.62
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	81.35
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	80.7
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	80.64
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	80.31
d1tf5a3	273	Translocation ATPase SecA, nucleotide-binding doma	80.3
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	80.08
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	80.03
d2hmva1	134	Ktn bsu222 {Bacillus subtilis [TaxId: 1423]}	80.01

>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=99.97  E-value=6.6e-31  Score=237.01  Aligned_cols=198  Identities=24%  Similarity=0.264  Sum_probs=154.3

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccc------cccCCCCCceeeeccCCce
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL------LEMNPEKRTIIPTEYLGVK  246 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~------~~~~~~~~~i~~~~~~~l~  246 (386)
                      ||+|+|+|+|||+||||+|+|||.+|+++|+||++||+|+++++++.++|.+...      .......+........+++
T Consensus         1 ~kvIav~s~KGGvGKTtia~nlA~~la~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (232)
T d1hyqa_           1 VRTITVASGKGGTGKTTITANLGVALAQLGHDVTIVDADITMANLELILGMEGLPVTLQNVLAGEARIDEAIYVGPGGVK   80 (232)
T ss_dssp             CEEEEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEECCCSSSSHHHHTTCCCCCCCHHHHHTTSSCGGGGCEECGGGCE
T ss_pred             CEEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEeCCCCCCCHHHHhCCCcCcchhhhhhccccccccccccCCccce
Confidence            5899999999999999999999999999999999999999999999988865431      1111122233344567899


Q ss_pred             EEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHH
Q 016622          247 LVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGV  326 (386)
Q Consensus       247 vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~  326 (386)
                      +++.+..........    ...+.++++.+. +.|||||+|+|++.++.....  +..+|.+++|+.++..++..+.+.+
T Consensus        81 ~l~~~~~~~~~~~~~----~~~l~~~l~~l~-~~~D~viiD~~~~~~~~~~~~--l~~ad~v~~v~~~~~~~~~~~~~~~  153 (232)
T d1hyqa_          81 VVPAGVSLEGLRKAN----PEKLEDVLTQIM-ESTDILLLDAPAGLERSAVIA--IAAAQELLLVVNPEISSITDGLKTK  153 (232)
T ss_dssp             EEECCSCHHHHHHHC----HHHHHHHHHHHH-HTCSEEEEECCSSSSHHHHHH--HHHSSEEEEEECSSHHHHHHHHHHH
T ss_pred             eEeeecccccccccc----hhhHHHHHHHHh-hccceeeecccccccchhHHH--hhhhheeeeeccccccchhhhhhhh
Confidence            998775433222222    234555555554 799999999999998655543  5567999999999999999999999


Q ss_pred             HHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          327 RMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       327 ~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      ..+++.+.+++|+|+||++....        +...+++++.++.++++.||+|+++.++
T Consensus       154 ~~~~~~~~~~~~iv~N~~~~~~~--------~~~~~~i~~~~~~~~~~~IP~d~~~~~a  204 (232)
T d1hyqa_         154 IVAERLGTKVLGVVVNRITTLGI--------EMAKNEIEAILEAKVIGLIPEDPEVRRA  204 (232)
T ss_dssp             HHHHHHTCEEEEEEEEEECTTTH--------HHHHHHHHHHTTSCEEEEEECCHHHHHH
T ss_pred             hhhhhcccccccccccccccccc--------cchhhhHHhhcCCeEEEECCCCHHHHHH
Confidence            99999999999999999764321        1245788889999999999999998765

>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=99.96  E-value=2.8e-29  Score=226.71  Aligned_cols=199  Identities=19%  Similarity=0.249  Sum_probs=148.9

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccc-------cccCCCCCceeeeccCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL-------LEMNPEKRTIIPTEYLG  244 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~-------~~~~~~~~~i~~~~~~~  244 (386)
                      |+|+|+|+|+|||+||||+|+|||.+|+++|++|++||+|+++++++.++|.....       ................+
T Consensus         1 m~~vIav~~~kGGvGKTtia~nLA~~la~~g~~VlliD~D~~~~~l~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~   80 (237)
T d1g3qa_           1 MGRIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGDLTMANLSLVLGVDDPDVTLHDVLAGEANVEDAIYMTQFDN   80 (237)
T ss_dssp             CCEEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTTSCCHHHHTTCCCCSSCHHHHHTTSSCGGGGCEECSSTT
T ss_pred             CCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEeCCCCCCChhHHhCCCCcccchhhhccCCCcHHHhhhcccccc
Confidence            67899999999999999999999999999999999999999999998888754331       11112223333334445


Q ss_pred             ceEEecCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHH
Q 016622          245 VKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAK  324 (386)
Q Consensus       245 l~vl~~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~  324 (386)
                      ...++.+............    .+.+++..+. +.|||||||+||+++.....  .+..+|.+++|++++..++.++.+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~----~~~~~~~~l~-~~~d~IiiD~~~~~~~~~~~--~l~~aD~viiv~~~~~~s~~~~~~  153 (237)
T d1g3qa_          81 VYVLPGAVDWEHVLKADPR----KLPEVIKSLK-DKFDFILIDCPAGLQLDAMS--AMLSGEEALLVTNPEISCLTDTMK  153 (237)
T ss_dssp             EEEECCCCSHHHHHHCCGG----GHHHHHHTTG-GGCSEEEEECCSSSSHHHHH--HHTTCSEEEEEECSCHHHHHHHHH
T ss_pred             ccccccccchhhhhhhhhH----HHHHHHHHHH-hcCCEEEEcccccccccchh--hhhhhhcccccccccceecchhhH
Confidence            5555544332222222222    3455555555 79999999999999865544  366789999999999999999999


Q ss_pred             HHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          325 GVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       325 ~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      .++.+++.++++.|+|+||++.....        ......++.++.++.+.||+|+.+.++
T Consensus       154 ~~~~~~~~~~~~~giv~N~~~~~~~~--------~~~~~~~~~~~~~~~~~IP~d~~v~~a  206 (237)
T d1g3qa_         154 VGIVLKKAGLAILGFVLNRYGRSDRD--------IPPEAAEDVMEVPLLAVIPEDPAIREG  206 (237)
T ss_dssp             HHHHHHHTTCEEEEEEEEEETSCTTC--------CCHHHHHHHHCSCEEEEEECCHHHHHH
T ss_pred             HHHHHhhhhhhhhhhhhcccccccch--------hhhHHHHhhcCceEEEEeCCCHHHHHH
Confidence            99999999999999999998643311        123455666799999999999998765

>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=99.94  E-value=2.2e-27  Score=219.04  Aligned_cols=203  Identities=20%  Similarity=0.182  Sum_probs=144.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccc--------cCCCCCceeeeccCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLE--------MNPEKRTIIPTEYLG  244 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~--------~~~~~~~i~~~~~~~  244 (386)
                      ||+|+|+ +|||+||||+|+|||.+||++|+||++||+|++++++..+++.......        .......+......+
T Consensus         1 mr~Iai~-gKGGvGKTT~a~nLA~~LA~~G~rVllID~D~q~~~t~~ll~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~   79 (269)
T d1cp2a_           1 MRQVAIY-GKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPKADSTRLLLGGLAQKSVLDTLREEGEDVELDSILKEGYGG   79 (269)
T ss_dssp             CEEEEEE-ECTTSSHHHHHHHHHHHHHTTTCCEEEEEECTTSCSSHHHHTSCCCCCHHHHHHHHGGGCCHHHHCEECGGG
T ss_pred             CCEEEEE-CCCcCCHHHHHHHHHHHHHhCCCcEEEEecCCCCCchhhhhCCCcccchhhhhhhcccccccceEEEecCCc
Confidence            5899997 5999999999999999999999999999999999888777765433110        111112344455567


Q ss_pred             ceEEecCCCCCccc-ccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHH-hhhhhcCCCeEEEEeCCCcchHHHH
Q 016622          245 VKLVSFGFSGQGRA-IMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL-TLCQVVPLTAAVIVTTPQKLAFIDV  322 (386)
Q Consensus       245 l~vl~~~~~~~~~~-~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~-~~~~~~~~d~vviV~~~~~~s~~~~  322 (386)
                      +++++.+....... ...+......+.+.+..+. +.||||++||||+.+.... .......+|.+++|+.++..++..+
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~-~~~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~~~~sl~~~  158 (269)
T d1cp2a_          80 IRCVESGGPEPGVGCAGRGIITSINMLEQLGAYT-DDLDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALYAA  158 (269)
T ss_dssp             CEEEECCCCCTTSSCHHHHHHHHHHHHHHTTCCC-TTCSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECSSHHHHHHH
T ss_pred             eEEeccCcchhhhhhcccchHHHHHHHHHHHHhh-ccCCEEEeccCCccchhHHHHHHHhhccCceeeccchhhhHHHHH
Confidence            78887654432211 1122222334444555554 7899999999997753222 2222345799999999999999988


Q ss_pred             HHHHHHHHc----CCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          323 AKGVRMFSK----LKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       323 ~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      .+.++.++.    .+.++.|+|+|+.+....        +...+++.+.+|.++++.||+|+.+.++
T Consensus       159 ~~~~~~i~~~~~~~~~~~~~vv~N~~~~~~~--------~~~~~~~~~~~~~~~~~~IP~d~~i~~a  217 (269)
T d1cp2a_         159 NNISKGIQKYAKSGGVRLGGIICNSRKVANE--------YELLDAFAKELGSQLIHFVPRSPMVTKA  217 (269)
T ss_dssp             HHHHHHHHHHBTTBBCEEEEEEEECCSSSCC--------HHHHHHHHHHHTCCEEEEECCCHHHHHH
T ss_pred             HHHHHHHHhhccccceeccceEEeeecCCCc--------cchhhhhHhhcCCeEEEEEecCHHHHHH
Confidence            888777754    356788999999664331        1347788999999999999999998765

>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=99.94  E-value=2.5e-27  Score=221.11  Aligned_cols=203  Identities=21%  Similarity=0.192  Sum_probs=141.3

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccc--cc---cC-C----CCCceeeecc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL--LE---MN-P----EKRTIIPTEY  242 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~--~~---~~-~----~~~~i~~~~~  242 (386)
                      ||+|+| |+||||||||+|+|||.+||++|+||++||+|+|++++..+++.....  ..   .. .    ....+.+..+
T Consensus         2 Mr~Iai-sgKGGVGKTT~a~NLA~~LA~~G~rVLlID~DpQ~~st~~~l~~~~~~~~~~~~~~~~~~~d~~~~~v~~~~~   80 (289)
T d2afhe1           2 MRQCAI-YGKGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKADSTRLILHSKAQNTIMEMAAEAGTVEDLELEDVLKAGY   80 (289)
T ss_dssp             CEEEEE-EECTTSSHHHHHHHHHHHHHHTTCCEEEEEECSSSCSSHHHHCCSSCCBHHHHHHTTSSGGGCCHHHHCEECG
T ss_pred             ccEEEE-ECCCCCCHHHHHHHHHHHHHHCCCCEEEEecCCCCCcchhhcCCCCCCchhhhhhccCcccccccceeEeccc
Confidence            678898 579999999999999999999999999999999998876666543321  00   00 0    1123445556


Q ss_pred             CCceEEecCCCCCccccc-CCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHh-hhhhcCCCeEEEEeCCCcchHH
Q 016622          243 LGVKLVSFGFSGQGRAIM-RGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLT-LCQVVPLTAAVIVTTPQKLAFI  320 (386)
Q Consensus       243 ~~l~vl~~~~~~~~~~~~-~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~-~~~~~~~d~vviV~~~~~~s~~  320 (386)
                      .+++.+|.+......... ........+...+..+. +.||||+|||||+....... ......+|.+++|+.++..++.
T Consensus        81 ~~i~~i~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-~~~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~~~~~s~~  159 (289)
T d2afhe1          81 GGVKCVESGGPEPGVGCAGRGVITAINFLEEEGAYE-DDLDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSGEMMAMY  159 (289)
T ss_dssp             GGCEEEECCCCCTTTCCHHHHHHHHHHHHHHTTCSS-TTCSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECSSHHHHH
T ss_pred             ccceeeccCCchhhhhhhhcchHHHHHHHHHHHHhh-ccCCeEeeccCCccCHHHHHHHHHhhccceeecccchhHHHHH
Confidence            678888866433221111 11112223444444444 78999999999987532222 1223357899999999999999


Q ss_pred             HHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          321 DVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       321 ~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      .+.+.++.+.+    .+.++.|+|+|+.+....        ....+++++.+|.++++.||++..+.+|
T Consensus       160 ~~~~~~~~i~~~~~~~~~~~~gvv~n~~~~~~~--------~~~~~~~~~~~g~~vl~~IP~~~~v~eA  220 (289)
T d2afhe1         160 AANNISKGIVKYANSGSVRLGGLICNSRNTDRE--------DELIIALANKLGTQMIHFVPRDNVVQRA  220 (289)
T ss_dssp             HHHHHHHHHHHHHTTSCCEEEEEEEECCCCTTH--------HHHHHHHHHHHTSCEEEEECCCHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccccceeehhhcchhh--------HHHHHHHHHHcCCeEEEEEeccHHHHHH
Confidence            88888776643    356788999999654321        1346788999999999999999998875

>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=99.86  E-value=4.7e-23  Score=191.66  Aligned_cols=171  Identities=19%  Similarity=0.179  Sum_probs=106.8

Q ss_pred             ccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEE
Q 016622          169 LQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLV  248 (386)
Q Consensus       169 ~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl  248 (386)
                      +++|+++|. +||||||||||+|+|||.+||++|+||++||+|++ ++++..||.+.......       ....++++..
T Consensus         4 ~~~~p~~i~-~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~Dp~-~~l~~~lg~~~~~~~~~-------~~~~~~~~~~   74 (296)
T d1ihua1           4 LQNIPPYLF-FTGKGGVGKTSISCATAIRLAEQGKRVLLVSTDPA-SNVGQVFSQTIGNTIQA-------IASVPGLSAL   74 (296)
T ss_dssp             GSSCCSEEE-EECSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTT-CCHHHHTTSCCCSSCEE-------CTTSTTEEEE
T ss_pred             CCCCCeEEE-EECCCcChHHHHHHHHHHHHHHCCCCEEEEeCCCC-CCHHHHhCCCCcccccc-------cccccccchh
Confidence            456777775 57999999999999999999999999999999996 47887787652211000       0001111111


Q ss_pred             ecC----------------------CCCCcc-cccCCc--hHHHHHHHHHHh----cCCCCCcEEEEcCCCCCChHHHhh
Q 016622          249 SFG----------------------FSGQGR-AIMRGP--MVSGVINQLLTT----TEWGELDYLVIDMPPGTGDIQLTL  299 (386)
Q Consensus       249 ~~~----------------------~~~~~~-~~~~~~--~~~~~l~~ll~~----~~~~~yD~VIIDtpp~~~~~~~~~  299 (386)
                      -..                      ...... ......  .....+.+++..    ..+++|||||+||||+.+...+..
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~yD~iviD~pp~~~~l~~~~  154 (296)
T d1ihua1          75 EIDPQAAAQQYRARIVDPIKGVLPDDVVSSINEQLSGACTTEIAAFDEFTGLLTDASLLTRFDHIIFDTAPTGHTIRLLQ  154 (296)
T ss_dssp             ECCHHHHHHHHHHHHHGGGTTTSCHHHHHHHHHHTSSHHHHHHHHHHHHHHHHHCTTHHHHCSEEEESSCCCHHHHHHHH
T ss_pred             ccChhhHHHHHHhhccchhhhcccccchhhhHHhhhhhhhhhHHHHHHHHHHHHHhhhcccceEEEeccCCCchHHHHHh
Confidence            100                      000000 000000  011122222211    112579999999999754221110


Q ss_pred             h------------------------------------hh--cCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEE
Q 016622          300 C------------------------------------QV--VPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVE  341 (386)
Q Consensus       300 ~------------------------------------~~--~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVl  341 (386)
                      .                                    .+  ...+.+++|++|+..++.++.+.++.+++.|+++.++|+
T Consensus       155 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~~lVt~pe~~~~~~~~r~~~~l~~~gi~~~~vVv  234 (296)
T d1ihua1         155 LPGAWSSFIDSNPEGASCLGPMAGLEKQREQYAYAVEALSDPKRTRLVLVARLQKSTLQEVARTHLELAAIGLKNQYLVI  234 (296)
T ss_dssp             CGGGGTCCC------CCCCGGGGGCCSCHHHHHHHHHHHHCTTTEEEEEEEESCHHHHHHHHHHHHHHHHHTCCCEEEEE
T ss_pred             HHHHHHHHHhhccchhhhcccccchhHHHHHHHHHHhhccCcccceeeEecCcchhHHHHHHHHHHHHHhcCCCceEEEE
Confidence            0                                    00  012468999999999999999999999999999999999


Q ss_pred             cCCcCCC
Q 016622          342 NMCHFDA  348 (386)
Q Consensus       342 N~~~~~~  348 (386)
                      ||+.+..
T Consensus       235 N~v~p~~  241 (296)
T d1ihua1         235 NGVLPKT  241 (296)
T ss_dssp             EEECCGG
T ss_pred             cCCcCcc
Confidence            9986544

>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=99.83  E-value=1.9e-20  Score=166.06  Aligned_cols=200  Identities=12%  Similarity=0.003  Sum_probs=124.9

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCccccc---ccCCCCCceeeeccCCceEEec
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLL---EMNPEKRTIIPTEYLGVKLVSF  250 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~---~~~~~~~~i~~~~~~~l~vl~~  250 (386)
                      |.|.|++...||||||+|+|||++|+++|+||++||+|++++.. ..++......   ......... .... .......
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id~d~~g~~~-~~~~~~~~~~~~~~~~~~~~~~-~~~~-~~~~~~~   78 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYKPVASGSEK-TPEGLRNSDALALQRNSSLQLD-YATV-NPYTFAE   78 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEECSEEESCBC-CTTSCBCHHHHHHHHTCSSCCC-HHHH-CSEEESS
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEECccccCCCC-CCCCcchhHHHHHHHhhccCcc-cccc-ccccccc
Confidence            67888855559999999999999999999999999999987433 3333322100   000000000 0000 0011110


Q ss_pred             CCCCC--cccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChH------HHhhhhhcCCCeEEEEeCCCcchHHHH
Q 016622          251 GFSGQ--GRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDI------QLTLCQVVPLTAAVIVTTPQKLAFIDV  322 (386)
Q Consensus       251 ~~~~~--~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~------~~~~~~~~~~d~vviV~~~~~~s~~~~  322 (386)
                      .....  .......... ..+.+.+.... ..||++++|++++....      ..... ....+.+++|+.+.......+
T Consensus        79 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~-~~~d~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~v~~V~~~~~~~~~~~  155 (224)
T d1byia_          79 PTSPHIISAQEGRPIES-LVMSAGLRALE-QQADWVLVEGAGGWFTPLSDTFTFADWV-TQEQLPVILVVGVKLGCINHA  155 (224)
T ss_dssp             CSCHHHHHHHHTCCCCH-HHHHHHHHHHH-TTCSEEEEECSSSTTCEEETTEEHHHHH-HHHTCCEEEEEECSTTHHHHH
T ss_pred             chhhhhhhhhhhhhhhH-HHHHHHHhhhh-hccceEeecccccccccccccchhhccc-ccccceeeEEEeeccchhHHH
Confidence            00000  0001111111 22233333332 78999999999866421      11111 112367888899999999999


Q ss_pred             HHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEEecCCChhhhhc
Q 016622          323 AKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTVSYM  385 (386)
Q Consensus       323 ~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~~IP~d~~i~~a  385 (386)
                      ....+.+++.+..+.|+|+||++.....+      +...+.+.+.+|+|++|.||+++++.+.
T Consensus       156 ~~~~~~~~~~~~~~~gvv~N~~~~~~~~~------~~~~~~l~~~~gi~vlG~IP~~~~~~e~  212 (224)
T d1byia_         156 MLTAQVIQHAGLTLAGWVANDVTPPGKRH------AEYMTTLTRMIPAPLLGEIPWLAENPEN  212 (224)
T ss_dssp             HHHHHHHHHTTCCEEEEEEECCSSCCTTH------HHHHHHHHHHSSSCEEEEECCCTTCTTC
T ss_pred             HHHHHHHhccCCccEEEEEeCcCCCchHH------HHHHHHHHHHhCCCEEEECCCCCCCccc
Confidence            99999999999999999999987654322      2357899999999999999999887653

>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=99.82  E-value=1.8e-21  Score=179.71  Aligned_cols=177  Identities=19%  Similarity=0.147  Sum_probs=103.7

Q ss_pred             ccCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCC------Cc---eee
Q 016622          169 LQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEK------RT---IIP  239 (386)
Q Consensus       169 ~~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~------~~---i~~  239 (386)
                      +....+.|.|+||||||||||+|+|||.+||++|+||++||+|+++ +++.+||............      ..   +..
T Consensus        15 ~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~Dp~~-~l~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (279)
T d1ihua2          15 IARNEHGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSDPAA-HLSMTLNGSLNNLQVSRIDPHEETERYRQHVLE   93 (279)
T ss_dssp             HHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESCCC------------CCEEEEECCHHHHHHHHHHHHHH
T ss_pred             hhcCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCCCC-ChHHHhCCccccccccccccchhhHHHHHhhhh
Confidence            3345567778889999999999999999999999999999999975 6777777553311100000      00   000


Q ss_pred             eccCCceEEecCCCC-CcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHh-h------------------
Q 016622          240 TEYLGVKLVSFGFSG-QGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLT-L------------------  299 (386)
Q Consensus       240 ~~~~~l~vl~~~~~~-~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~-~------------------  299 (386)
                      .....+  .+.+... ................++...+.+..|||+++|+||+.....+. .                  
T Consensus        94 ~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~i~d~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~  171 (279)
T d1ihua2          94 TKGKEL--DEAGKRLLEEDLRSPCTEEIAVFQAFSRVIREAGKRFVVMDTAPTGHTLLLLDATGAYHREIAKKMGEKGHF  171 (279)
T ss_dssp             HHHTTC--CHHHHHHHHHHTTSHHHHHHHHHHHHTTTGGGGGTSEEEESCCCCHHHHHHHHHC-----------------
T ss_pred             cccccc--cccccccchhhhcccchHHHHHHHHHHHHHhhcccccccccCCCchhHHHHHHHHHHHHhhHHHHhcchhhH
Confidence            000000  0000000 00000111122233444444455578999999999863311110 0                  


Q ss_pred             ------hhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          300 ------CQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       300 ------~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                            ......+.+++|+.|+..++.++.++++.+.+.++++.|+|+||+....
T Consensus       172 ~~~~~~~~~~~~~~~vlV~~p~~~~~~~~~r~~~~l~~~~~~~~~iV~N~~~~~~  226 (279)
T d1ihua2         172 TTPMMLLQDPERTKVLLVTLPETTPVLEAANLQADLERAGIHPWGWIINNSLSIA  226 (279)
T ss_dssp             -CCHHHHHCTTTEEEEEEECSSHHHHHHHHHHHHHHHHTTCCCCEEEEEEESTTS
T ss_pred             HHHhhhccccccccceEeccccHhHHHHHHHHHHHHHhcCCCccEEEEcCCcccc
Confidence                  0011246789999999999999999999999999999999999976554

>d1uwda_ d.52.8.2 (A:) Hypothetical protein TM0487 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: PaaD-like
domain: Hypothetical protein TM0487
species: Thermotoga maritima [TaxId: 2336]

Probab=99.80  E-value=7.4e-20  Score=141.86  Aligned_cols=87  Identities=36%  Similarity=0.589  Sum_probs=82.7

Q ss_pred             CcccHHHHHHHhccCCCCCCCCCccccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeEEEE
Q 016622           73 TGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTM  152 (386)
Q Consensus        73 ~~~~~~~i~~~L~~V~dPe~~~div~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~v~l  152 (386)
                      ..+++++|+++|++|+|||++.|||+||+|++|.++++ +.+.|.|++|+++||+.+.|.+++++++.+++|+.+++|++
T Consensus         3 ~~vt~~~V~~aL~~V~DPe~~~dIV~LGlV~~i~I~~~-g~V~v~~~lt~~~Cp~~~~i~~~i~~al~~~~gV~~v~V~i   81 (102)
T d1uwda_           3 KKVTKEDVLNALKNVIDFELGLDVVSLGLVYDIQIDDQ-NNVKVLMTMTTPMCPLAGMILSDAEEAIKKIEGVNNVEVEL   81 (102)
T ss_dssp             SCCCHHHHHHHHTTCBCTTTSSBTTTTTCCCCEEECTT-CEEEEEECCSSSCCSSHHHHHHHHHHHHHTSSSCCEEEEEE
T ss_pred             cccCHHHHHHHHhCCCCCCCCcceeeccceeeEEeccc-cceEEEEecCCCCCchHHHHHHHHHHHHHcCCCCceEEEEE
Confidence            56799999999999999999999999999999999875 68999999999999999999999999999999999999999


Q ss_pred             EeCCCCch
Q 016622          153 SAQPARPI  160 (386)
Q Consensus       153 ~~~p~~~~  160 (386)
                      +|+|+|..
T Consensus        82 ~~~p~W~~   89 (102)
T d1uwda_          82 TFDPPWTP   89 (102)
T ss_dssp             CCSSCCCG
T ss_pred             EecCCCCh
Confidence            99999954

>d2cu6a1 d.52.8.2 (A:6-96) Hypothetical protein TTHB138 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: PaaD-like
domain: Hypothetical protein TTHB138
species: Thermus thermophilus [TaxId: 274]

Probab=99.77  E-value=2.5e-19  Score=136.39  Aligned_cols=83  Identities=27%  Similarity=0.568  Sum_probs=80.1

Q ss_pred             cHHHHHHHhccCCCCCCCCCccccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhhcCCCcceeEEEEEeC
Q 016622           76 AENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVLAIPWVNKVNVTMSAQ  155 (386)
Q Consensus        76 ~~~~i~~~L~~V~dPe~~~div~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~~l~gv~~v~v~l~~~  155 (386)
                      .+++|+++|++|.||+++.|||++|||++|.+++  +++.|.|++|+++||..+.|.+++++++.+++|+++++|+++|+
T Consensus         2 le~~v~eaL~~V~DPe~~~dIv~LGlV~~i~i~~--~~v~v~l~lt~~~cp~~~~i~~~i~~al~~l~gv~~V~V~~~~~   79 (91)
T d2cu6a1           2 LEAQAWALLEAVYDPELGLDVVNLGLIYDLVVEP--PRAYVRMTLTTPGCPLHDSLGEAVRQALSRLPGVEEVEVEVTFE   79 (91)
T ss_dssp             HHHHHHHHHTTCEETTTTEETTTTTCEEEEEEET--TEEEEEECCSSSSCCSSCHHHHHHHHHHHTSTTCCEEEEEECCS
T ss_pred             hHHHHHHHHhcCCCCCCCcChhhccceeEEEEec--cccEEEEEcCCCCCcHHHHHHHHHHHHHHcCCCCceEEEEEEec
Confidence            5899999999999999999999999999999998  89999999999999999999999999999999999999999999


Q ss_pred             CCCch
Q 016622          156 PARPI  160 (386)
Q Consensus       156 p~~~~  160 (386)
                      |+|..
T Consensus        80 p~W~~   84 (91)
T d2cu6a1          80 PPWTL   84 (91)
T ss_dssp             SCCCG
T ss_pred             CCCCh
Confidence            99943

>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=99.33  E-value=1e-11  Score=108.29  Aligned_cols=167  Identities=16%  Similarity=0.181  Sum_probs=107.9

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFG  251 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~  251 (386)
                      .+++|+++ |-.|+||||+.+.||..+.++|++|++|-+|.++......+               -.....-++.+....
T Consensus         8 ~p~vi~lv-GptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~gA~eQL---------------~~~a~~l~v~~~~~~   71 (211)
T d2qy9a2           8 APFVILMV-GVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQL---------------QVWGQRNNIPVIAQH   71 (211)
T ss_dssp             TTEEEEEE-CCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTCHHHHHHH---------------HHHHHHTTCCEECCS
T ss_pred             CCEEEEEE-CCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccccchhhh---------------hhhhhhcCCcccccc
Confidence            35688888 88999999999999999999999999999999886431110               011112244444322


Q ss_pred             CCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHH------hhhhhc------CCCeEEEEeCCCcchH
Q 016622          252 FSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQL------TLCQVV------PLTAAVIVTTPQKLAF  319 (386)
Q Consensus       252 ~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~------~~~~~~------~~d~vviV~~~~~~s~  319 (386)
                      .         .......+.+..+..+.++||+|||||++.......      .+....      ..+.+++|..+.. ..
T Consensus        72 ~---------~~d~~~~l~~~~~~a~~~~~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~-~~  141 (211)
T d2qy9a2          72 T---------GADSASVIFDAIQAAKARNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDAST-GQ  141 (211)
T ss_dssp             T---------TCCHHHHHHHHHHHHHHTTCSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGG-TH
T ss_pred             c---------CCCHHHHHHHHHHHHHHcCCCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhccc-Cc
Confidence            1         222344555555443337899999999864431111      111111      1356777776554 35


Q ss_pred             HHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          320 IDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       320 ~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      .+.......++..+  +-|+|++|.+....        .+.+-.+....++|+.+
T Consensus       142 ~~~~~~~~~~~~~~--~~~lIlTKlDe~~~--------~G~~l~~~~~~~~Pi~~  186 (211)
T d2qy9a2         142 NAVSQAKLFHEAVG--LTGITLTKLDGTAK--------GGVIFSVADQFGIPIRY  186 (211)
T ss_dssp             HHHHHHHHHHHHSC--CCEEEEECCTTCTT--------TTHHHHHHHHHCCCEEE
T ss_pred             chHHHHhhhhhccC--CceEEEeecCCCCC--------ccHHHHHHHHHCCCEEE
Confidence            56666777777654  56899999987553        15677888899999764

>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=99.31  E-value=9.7e-12  Score=108.41  Aligned_cols=166  Identities=19%  Similarity=0.159  Sum_probs=101.4

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFGF  252 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~~  252 (386)
                      .++|+++ |.+|+||||+++.||..++++|+||++|.+|.+++.....+..               ....-++.+.....
T Consensus        10 ~~vi~lv-Gp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~---------------~a~~l~v~~~~~~~   73 (207)
T d1ls1a2          10 RNLWFLV-GLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRL---------------LGEKVGVPVLEVMD   73 (207)
T ss_dssp             SEEEEEE-CCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHH---------------HHHHHTCCEEECCT
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccchHHHHHHH---------------HHHhcCCccccccc
Confidence            4688777 9999999999999999999999999999999988654221110               00111333332221


Q ss_pred             CCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC-h-HH----HhhhhhcCCCeEEEEeCCCcchHHHHHHHH
Q 016622          253 SGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG-D-IQ----LTLCQVVPLTAAVIVTTPQKLAFIDVAKGV  326 (386)
Q Consensus       253 ~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~-~-~~----~~~~~~~~~d~vviV~~~~~~s~~~~~~~~  326 (386)
                      .         ..............+...+|+|||||++... + ..    ..+......+.+++|..+... ........
T Consensus        74 ~---------~~~~~~~~~~~~~~~~~~~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~-~~~~~~~~  143 (207)
T d1ls1a2          74 G---------ESPESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTG-QEALSVAR  143 (207)
T ss_dssp             T---------CCHHHHHHHHHHHHHHHTCCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGT-HHHHHHHH
T ss_pred             c---------chhhHHHHHHHHHHhhccCcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccc-hhHHHHHH
Confidence            1         1112222221111112789999999997543 1 11    122223456888888776543 34444444


Q ss_pred             HHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          327 RMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       327 ~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      .+.+..+  +-|+|+++.+....        .+.+-.+...+++|+.+
T Consensus       144 ~f~~~~~--~~~~I~TKlDe~~~--------~G~~l~~~~~~~~Pi~~  181 (207)
T d1ls1a2         144 AFDEKVG--VTGLVLTKLDGDAR--------GGAALSARHVTGKPIYF  181 (207)
T ss_dssp             HHHHHTC--CCEEEEECGGGCSS--------CHHHHHHHHHHCCCEEE
T ss_pred             HHHhhCC--CCeeEEeecCcccc--------chHHHHHHHHHCCCEEE
Confidence            4444444  57899999986542        15677888889999753

>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=99.30  E-value=9.2e-12  Score=108.44  Aligned_cols=168  Identities=15%  Similarity=0.140  Sum_probs=106.2

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEec
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSF  250 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~  250 (386)
                      ..+++|+++ |-.|+||||+++.||..+.++|+||++|-+|.++......+               -.....-++.+...
T Consensus         4 ~~~~vi~lv-GptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL---------------~~~a~~l~i~~~~~   67 (207)
T d1okkd2           4 PKGRVVLVV-GVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQL---------------SEWGKRLSIPVIQG   67 (207)
T ss_dssp             CSSSEEEEE-CSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSSTTHHHHH---------------HHHHHHHTCCEECC
T ss_pred             CCCEEEEEE-CCCCCCHHHHHHHHHHHHHHCCCcEEEEEeccccccchhhH---------------hhcccccCceEEec
Confidence            345799998 88999999999999999999999999999999886542111               01111124444432


Q ss_pred             CCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC-hHHH-----hhhhh------cCCCeEEEEeCCCcch
Q 016622          251 GFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG-DIQL-----TLCQV------VPLTAAVIVTTPQKLA  318 (386)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~-~~~~-----~~~~~------~~~d~vviV~~~~~~s  318 (386)
                      ...         ......+.+.....+.++||+|||||++... +..+     .+...      ...+.+++|..+... 
T Consensus        68 ~~~---------~d~~~~~~~~~~~~~~~~~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~-  137 (207)
T d1okkd2          68 PEG---------TDPAALAYDAVQAMKARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTG-  137 (207)
T ss_dssp             CTT---------CCHHHHHHHHHHHHHHHTCSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBC-
T ss_pred             cCC---------ccHHHHHHHHHHHHHHCCCCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccC-
Confidence            211         1222333333222222689999999997543 1110     01111      123667888766554 


Q ss_pred             HHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          319 FIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       319 ~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ..++......++..++  -|+|++|.+.....        +.+-.+....++|+.+
T Consensus       138 ~~~~~~~~~~~~~~~~--~~lI~TKlDet~~~--------G~~l~~~~~~~~Pi~~  183 (207)
T d1okkd2         138 QNGLEQAKKFHEAVGL--TGVIVTKLDGTAKG--------GVLIPIVRTLKVPIKF  183 (207)
T ss_dssp             THHHHHHHHHHHHHCC--SEEEEECTTSSCCC--------TTHHHHHHHHCCCEEE
T ss_pred             chHHHHHHHhhhccCC--ceEEEeccCCCCCc--------cHHHHHHHHHCCCEEE
Confidence            3566666666666554  58999999865431        5677888899999764

>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=99.26  E-value=2.4e-11  Score=106.09  Aligned_cols=168  Identities=17%  Similarity=0.185  Sum_probs=106.0

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEec
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSF  250 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~  250 (386)
                      +.+.+|+++ |-.|+||||+.+.||..+.++|+||.+|-+|.++......+               -.....-++.+...
T Consensus         9 ~~p~vi~lv-GptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt~R~gA~eQL---------------~~~a~~l~i~~~~~   72 (213)
T d1vmaa2           9 EPPFVIMVV-GVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQL---------------KIWGERVGATVISH   72 (213)
T ss_dssp             SSCEEEEEE-CCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHH---------------HHHHHHHTCEEECC
T ss_pred             CCCEEEEEE-CCCCCCHHHHHHHHHHHHHHCCCceEEEeecccccchhHHH---------------HHHhhhcCcccccc
Confidence            345688888 88999999999999999999999999999999885431110               00111124444432


Q ss_pred             CCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC-hHHH-----hhhhhc------CCCeEEEEeCCCcch
Q 016622          251 GFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG-DIQL-----TLCQVV------PLTAAVIVTTPQKLA  318 (386)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~-~~~~-----~~~~~~------~~d~vviV~~~~~~s  318 (386)
                      ....         .....+.........++||+|||||++... +..+     .+....      ..+.+++|..+.. .
T Consensus        73 ~~~~---------d~~~~~~~~~~~~~~~~~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~-~  142 (213)
T d1vmaa2          73 SEGA---------DPAAVAFDAVAHALARNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATT-G  142 (213)
T ss_dssp             STTC---------CHHHHHHHHHHHHHHTTCSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGG-H
T ss_pred             CCCC---------cHHHHHHHHHHHHHHcCCCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeecccc-C
Confidence            2211         122222222211112789999999997543 2111     111111      1356777777644 4


Q ss_pred             HHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          319 FIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       319 ~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      ..++....+.++..+  +-|+|+.|.+....        .+.+-.+....++|+.+
T Consensus       143 ~~~~~~~~~~~~~~~--~~~lI~TKlDe~~~--------~G~~l~~~~~~~~Pi~~  188 (213)
T d1vmaa2         143 QNGLVQAKIFKEAVN--VTGIILTKLDGTAK--------GGITLAIARELGIPIKF  188 (213)
T ss_dssp             HHHHHHHHHHHHHSC--CCEEEEECGGGCSC--------TTHHHHHHHHHCCCEEE
T ss_pred             cchhhhhhhhccccC--CceEEEecccCCCc--------ccHHHHHHHHHCCCEEE
Confidence            667777777777654  57899999986542        15677888889999775

>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=99.18  E-value=8.2e-11  Score=102.55  Aligned_cols=167  Identities=18%  Similarity=0.190  Sum_probs=99.7

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEecC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSFG  251 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~~  251 (386)
                      .+.+|+++ |-.|+||||+++.||..+.++|+||.+|-+|.++......+               -.....-|+.+....
T Consensus        11 ~p~vi~lv-GptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~ga~eQL---------------~~~a~~l~v~~~~~~   74 (211)
T d1j8yf2          11 IPYVIMLV-GVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYRPAALEQL---------------QQLGQQIGVPVYGEP   74 (211)
T ss_dssp             SSEEEEEE-CSCCC----HHHHHHHHHHHTTCCEEEEECCCSSHHHHHHH---------------HHHHHHHTCCEECCT
T ss_pred             CCEEEEEE-CCCCCCHHHHHHHHHHHHHHCCCceEEEEeeccccchhHHH---------------HHhccccCcceeecc
Confidence            46788888 88999999999999999999999999999999885431110               001111244444322


Q ss_pred             CCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCC-h-HH------HhhhhhcCCCeEEEEeCCCcchHHHHH
Q 016622          252 FSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTG-D-IQ------LTLCQVVPLTAAVIVTTPQKLAFIDVA  323 (386)
Q Consensus       252 ~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~-~-~~------~~~~~~~~~d~vviV~~~~~~s~~~~~  323 (386)
                      .         .......+.+.+...+..+||+|+|||++... + ..      ..+......+.+++|..+... .....
T Consensus        75 ~---------~~~~~~~~~~a~~~~~~~~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~-~~~~~  144 (211)
T d1j8yf2          75 G---------EKDVVGIAKRGVEKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIG-QKAYD  144 (211)
T ss_dssp             T---------CCCHHHHHHHHHHHHHHTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGG-GGHHH
T ss_pred             c---------chhhhHHHHHHHHHhhccCCceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccC-cchHH
Confidence            1         11223333333322222789999999997432 2 11      112223345777888766553 24455


Q ss_pred             HHHHHHHcCCCCeEEEEEcCCcCCCCCceecccCCChHHHHHHHhCCCeEE
Q 016622          324 KGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       324 ~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                      .....++..+  +-++|+++.+....        .+.+-.+....++|+.+
T Consensus       145 ~~~~~~~~~~--~~~lI~TKlDet~~--------~G~~l~~~~~~~lPi~~  185 (211)
T d1j8yf2         145 LASKFNQASK--IGTIIITKMDGTAK--------GGGALSAVAATGATIKF  185 (211)
T ss_dssp             HHHHHHHHCT--TEEEEEECTTSCSC--------HHHHHHHHHTTTCCEEE
T ss_pred             HHhhhhcccC--cceEEEecccCCCc--------ccHHHHHHHHHCcCEEE
Confidence            5555666544  46899999986542        14566777888888764

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=98.50  E-value=3.9e-07  Score=84.23  Aligned_cols=152  Identities=16%  Similarity=0.161  Sum_probs=81.8

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCc-cCCCcccccccCCCCCceeeeccCCceEEe
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPT-MVSPENRLLEMNPEKRTIIPTEYLGVKLVS  249 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~-~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~  249 (386)
                      +...+|+|+ |-+|+||||+.-.|+.++..+|+||.++-.||..+-... ++|-......         ....+++++-+
T Consensus        52 ~~~~~Igit-G~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~ggailgdr~rm~~---------~~~~~~~~ir~  121 (327)
T d2p67a1          52 GNTLRLGVT-GTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGDKTRMND---------LARAEAAFIRP  121 (327)
T ss_dssp             SCSEEEEEE-ECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC---------------CT---------TTTCTTEEEEE
T ss_pred             CCceEEEee-CCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceeeeccccccchhHHHH---------hcccccccccc
Confidence            456799999 899999999999999999999999999999997765322 2221111100         01123455544


Q ss_pred             cCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcch-HHHHHHHHHH
Q 016622          250 FGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLA-FIDVAKGVRM  328 (386)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s-~~~~~~~~~~  328 (386)
                      .+.....     + .......+.+..+....||+|||+|-+ .+.....+  ...+|.+++|..|+... ++..+..+-.
T Consensus       122 ~~~~g~l-----g-g~~~~~~~~~~~~~~~g~d~iliEtvG-~gq~e~~i--~~~aD~~l~v~~P~~Gd~iq~~k~gi~e  192 (327)
T d2p67a1         122 VPSSGHL-----G-GASQRARELMLLCEAAGYDVVIVETVG-VGQSETEV--ARMVDCFISLQIAGGGDDLQGIKKGLME  192 (327)
T ss_dssp             ECC-----------CHHHHHHHHHHHHHHTTCSEEEEEEEC-CTTHHHHH--HTTCSEEEEEECC------CCCCHHHHH
T ss_pred             ccccccc-----c-cchhhhhHHHHHHHhcCCCeEEEeecc-ccccchhh--hhccceEEEEecCCCchhhhhhchhhhc
Confidence            3322111     0 111222222222223689999999985 33222223  33469999999887653 2222232222


Q ss_pred             HHcCCCCeEEEEEcCCcCC
Q 016622          329 FSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       329 l~~~~~~i~gvVlN~~~~~  347 (386)
                      +.  .    .+|+||++..
T Consensus       193 ~a--D----i~VvNKaD~~  205 (327)
T d2p67a1         193 VA--D----LIVINKDDGD  205 (327)
T ss_dssp             HC--S----EEEECCCCTT
T ss_pred             cc--c----EEEEEeeccc
Confidence            21  1    3788998754

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=98.40  E-value=8.1e-07  Score=81.93  Aligned_cols=152  Identities=15%  Similarity=0.114  Sum_probs=88.7

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCc-cCCCcccccccCCCCCceeeeccCCceEEe
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPT-MVSPENRLLEMNPEKRTIIPTEYLGVKLVS  249 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~-~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~  249 (386)
                      +...+|+|+ |-+|+||||+.-.|+..+...|++|.++-.|+..+-... ++|-......         ....+++++-+
T Consensus        49 ~~~~~igit-G~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~~~gg~llgdr~rm~~---------~~~~~~~~ir~  118 (323)
T d2qm8a1          49 GRAIRVGIT-GVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTGGSILGDKTRMAR---------LAIDRNAFIRP  118 (323)
T ss_dssp             CCSEEEEEE-CCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGSSCCCSSCCGGGSTT---------GGGCTTEEEEC
T ss_pred             CCceEEeee-CCCCCCHHHHHHHHHHHHhhcCCceeeeecccccHHHHhccccchhhHHH---------Hhcccceeecc
Confidence            456799999 999999999999999999999999999999997764322 2222211110         11123555554


Q ss_pred             cCCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcch-HHHHHHHHHH
Q 016622          250 FGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLA-FIDVAKGVRM  328 (386)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s-~~~~~~~~~~  328 (386)
                      .......      ..........+..+....||+|||.|-+..- .....  ..-+|..++|..|.... ++..+..+  
T Consensus       119 ~~~~~~~------gg~~~~~~~~i~~~~~~g~d~iiiETVG~gq-~e~~~--~~~~D~~v~v~~p~~GD~iQ~~k~gi--  187 (323)
T d2qm8a1         119 SPSSGTL------GGVAAKTRETMLLCEAAGFDVILVETVGVGQ-SETAV--ADLTDFFLVLMLPGAGDELQGIKKGI--  187 (323)
T ss_dssp             CCCCSSH------HHHHHHHHHHHHHHHHTTCCEEEEEECSSSS-CHHHH--HTTSSEEEEEECSCC------CCTTH--
T ss_pred             ccccccc------cchhHHHHHHHHhhccCCCCeEEEeehhhhh-hhhhh--hcccceEEEEeeccchhhhhhhhhhH--
Confidence            3322211      1223334443333333689999999985332 22222  22358999998888752 22111111  


Q ss_pred             HHcCCCCeEEEEEcCCcCC
Q 016622          329 FSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       329 l~~~~~~i~gvVlN~~~~~  347 (386)
                      ++..    --+|+||++..
T Consensus       188 lE~a----Di~vvNKaD~~  202 (323)
T d2qm8a1         188 FELA----DMIAVNKADDG  202 (323)
T ss_dssp             HHHC----SEEEEECCSTT
T ss_pred             hhhh----heeeEeccccc
Confidence            1111    13788998853

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=98.22  E-value=4.3e-06  Score=75.01  Aligned_cols=93  Identities=18%  Similarity=0.139  Sum_probs=69.4

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG  357 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~  357 (386)
                      |+.+.+-|+|||+-..-.......+..+|.+++|+.+...--..+.+.++++++.++|++ +++||.+......      
T Consensus        68 ~~~~~~n~iDtPG~~dF~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w~~a~~~~lP~i-~fINKmDr~~ad~------  140 (276)
T d2bv3a2          68 WKDHRINIIDAPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRI-AFANKMDKTGADL------  140 (276)
T ss_dssp             ETTEEEEEECCCSSSSCSTTHHHHHHHCCEEEEEEETTTSSCHHHHHHHHHHHTTTCCEE-EEEECTTSTTCCH------
T ss_pred             cCCeEEEEecCCchhhhHHHHHHHHHhhhheEEeccccCCcchhHHHHHHHHHHcCCCEE-EEEeccccccccc------
Confidence            578889999999744322223334556799999999988888899999999999999987 6669988654321      


Q ss_pred             CChHHHHHHHhCCCeEE-ecC
Q 016622          358 RGSGSQVVQQFGIPHLF-DLP  377 (386)
Q Consensus       358 ~~~~~~i~~~~g~pvl~-~IP  377 (386)
                      ....+++.+.++.+++. .+|
T Consensus       141 ~~~l~ei~~~l~~~~vp~~~P  161 (276)
T d2bv3a2         141 WLVIRTMQERLGARPVVMQLP  161 (276)
T ss_dssp             HHHHHHHHHTTCCCEEECEEE
T ss_pred             chhHHHHHHHhCCCeEEEEec
Confidence            14688999999876653 444

>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=98.21  E-value=2.7e-06  Score=70.17  Aligned_cols=42  Identities=24%  Similarity=0.175  Sum_probs=36.6

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGP  215 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~  215 (386)
                      ||+|+|+ |..|+||||+...|+..|.++|++|.+|..|....
T Consensus         1 Mkii~I~-G~~gSGKTTli~~l~~~L~~~g~~v~vik~d~~~~   42 (165)
T d1xjca_           1 MNVWQVV-GYKHSGKTTLMEKWVAAAVREGWRVGTVKHHGHGG   42 (165)
T ss_dssp             CCEEEEE-CCTTSSHHHHHHHHHHHHHHTTCCEEEEECCC---
T ss_pred             CcEEEEE-eCCCCCHHHHHHHHHHHHHhCCCeEEEEEeccCcc
Confidence            5799999 67799999999999999999999999999887653

>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=97.97  E-value=1.4e-05  Score=71.37  Aligned_cols=86  Identities=13%  Similarity=0.154  Sum_probs=64.6

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCCCceecccC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDADGKRYYPFG  357 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~~~~~~~~~  357 (386)
                      |+.+.+-+||||+-..-.......+..+|.+++|+.+...--..+.+.++.+++.+++.+ +++||.+...  . +    
T Consensus        64 ~~~~~~n~iDtPGh~dF~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~~~~~~~~p~~-i~iNk~D~~~--~-~----  135 (267)
T d2dy1a2          64 FRGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGTERAWTVAERLGLPRM-VVVTKLDKGG--D-Y----  135 (267)
T ss_dssp             ETTEEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEE-EEEECGGGCC--C-H----
T ss_pred             ccccceeEEccCchhhhhhhhhhhhcccCceEEEeeccCCccchhHHHHHhhhhcccccc-cccccccccc--c-c----
Confidence            467889999999654433344455667899999999888777889999999999999976 5679988532  1 1    


Q ss_pred             CChHHHHHHHhCCCe
Q 016622          358 RGSGSQVVQQFGIPH  372 (386)
Q Consensus       358 ~~~~~~i~~~~g~pv  372 (386)
                      ....+++.+.++ ++
T Consensus       136 ~~~l~~~~~~lg-~~  149 (267)
T d2dy1a2         136 YALLEDLRSTLG-PI  149 (267)
T ss_dssp             HHHHHHHHHHHC-SE
T ss_pred             hhhhhhHHHHhc-cC
Confidence            135788889998 44

>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=97.81  E-value=1.4e-05  Score=65.41  Aligned_cols=44  Identities=23%  Similarity=0.322  Sum_probs=37.5

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPS  216 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~s  216 (386)
                      |..+|+|+ |..|+||||++..|+..|.++|++|.+++.|.....
T Consensus         1 m~Pvi~it-G~~GSGKTTL~~~L~~~l~~~g~~v~v~~~d~~~~~   44 (170)
T d1np6a_           1 MIPLLAFA-AWSGTGKTTLLKKLIPALCARGIRPGLIKHTHHDMD   44 (170)
T ss_dssp             CCCEEEEE-CCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC---
T ss_pred             CCCEEEEE-cCCCCCHHHHHHHHHHHHHHCCCeEEEecccccccc
Confidence            34588998 888999999999999999999999999999986543

>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=97.68  E-value=0.0001  Score=62.88  Aligned_cols=69  Identities=16%  Similarity=0.237  Sum_probs=54.3

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHF  346 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~  346 (386)
                      |..+.|.|||||+-..-.......+..+|.+++|+.+...-...+++.+.++...|++.+-+++||.+.
T Consensus        64 ~~~~~i~iiDtPGh~df~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~~~~~~~gi~~iiv~iNK~D~  132 (204)
T d2c78a3          64 TAKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNKVDM  132 (204)
T ss_dssp             CSSCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHTTCCCEEEEEECGGG
T ss_pred             eCCeEEEEEeCCCchhhHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEEeccc
Confidence            478899999999633333333455667899999999887766788999999999999877677899985

>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=97.41  E-value=0.00021  Score=61.74  Aligned_cols=70  Identities=13%  Similarity=0.118  Sum_probs=54.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.|||||+-..........+..+|.+++|+.+...-...+.+.+..+...|++.+-+++|+.+...
T Consensus        87 ~~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~~~~~~~~gv~~iiv~vNK~D~~~  156 (222)
T d1zunb3          87 AKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSYIASLLGIKHIVVAINKMDLNG  156 (222)
T ss_dssp             SSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEEECTTTTT
T ss_pred             cceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHHHHHHHHcCCCEEEEEEEcccccc
Confidence            5678999999854333333344456689999999988877778889999999999998889999998654

>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=97.36  E-value=0.00018  Score=62.16  Aligned_cols=69  Identities=12%  Similarity=0.051  Sum_probs=50.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.++|||+-..........+..+|.+++|+.+...--....+.++++...+.+++ +++||++...
T Consensus        68 ~~~~~~~iDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~p~i-ivlNK~D~~~  136 (227)
T d1g7sa4          68 TLPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYRTPFV-VAANKIDRIH  136 (227)
T ss_dssp             TCCEEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHTTCCEE-EEEECGGGST
T ss_pred             cccccccccccceecccccchhcccccceEEEEEecccCcccchhHHHHHhhcCCCeEE-EEEECccCCC
Confidence            67789999999632211222233556899999999877656678899999999999966 8889998644

>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=97.30  E-value=0.00039  Score=58.68  Aligned_cols=70  Identities=14%  Similarity=0.199  Sum_probs=52.6

Q ss_pred             CCCCcEEEEcCCCCCCh-HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          278 WGELDYLVIDMPPGTGD-IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~-~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      +..+.+-++|||+ ..+ .......+..+|.+++|+.....-...+++.+.++...+.+.+-+++|+.+...
T Consensus        63 ~~~~~~~~iDtPG-h~~f~~~~~~~~~~aD~allVVda~~G~~~QT~~~~~~a~~~~~~~iIv~iNK~D~~~  133 (196)
T d1d2ea3          63 TAARHYAHTDCPG-HADYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNKADAVQ  133 (196)
T ss_dssp             CSSCEEEEEECSS-HHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCCEEEEEECGGGCS
T ss_pred             eceeeEEeecCcc-hHHHHHHHHHHHhhcCeEEEEEEcCCCCchhHHHHHHHHHHhcCCcEEEEEecccccc
Confidence            3678899999995 333 222333355689999999988766677889999999989887778899998643

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=97.24  E-value=0.00024  Score=61.25  Aligned_cols=39  Identities=23%  Similarity=0.221  Sum_probs=32.3

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGP  215 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~  215 (386)
                      +|+|+ |-.|+||||+.-+|...+ ..++++.+|..|+...
T Consensus         2 vi~v~-G~~GsGKTTLl~~ll~~~-~~~~~~~ivn~d~~~~   40 (244)
T d1yrba1           2 IVVFV-GTAGSGKTTLTGEFGRYL-EDNYKVAYVNLDTGVK   40 (244)
T ss_dssp             EEEEE-CSTTSSHHHHHHHHHHHH-TTTSCEEEEECCSSCS
T ss_pred             EEEEE-cCCCCcHHHHHHHHHHHH-hhCCeEEEEecCcccc
Confidence            45555 899999999999998876 4678999999998653

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.19  E-value=0.00013  Score=59.75  Aligned_cols=41  Identities=24%  Similarity=0.244  Sum_probs=36.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGP  215 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~  215 (386)
                      |.|.++ |.+|+||||++..++..|...|.+|.++.+++...
T Consensus         2 k~v~It-G~~GtGKTtl~~~i~~~l~~~~~~v~~~~~~~~~~   42 (189)
T d2i3ba1           2 RHVFLT-GPPGVGKTTLIHKASEVLKSSGVPVDGFYTEEVRQ   42 (189)
T ss_dssp             CCEEEE-SCCSSCHHHHHHHHHHHHHHTTCCCEEEECCEEET
T ss_pred             cEEEEE-CCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccccc
Confidence            467777 99999999999999999999999999999887553

>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=97.13  E-value=0.00024  Score=59.92  Aligned_cols=40  Identities=20%  Similarity=0.215  Sum_probs=34.7

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      +|.+..|.+|+||||+|..||..+...|+++-+++.|..+
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~~l~~~~~~~~~~~~D~~r   42 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVGQYR   42 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhcCCCCeEEccccee
Confidence            3444449999999999999999999999999999999654

>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=96.91  E-value=0.0005  Score=56.54  Aligned_cols=37  Identities=32%  Similarity=0.318  Sum_probs=32.6

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      ||+|.|. |-.|+||||++..||..|..+|+++..+..
T Consensus         1 mkiivi~-G~~GsGKTT~~~~La~~L~~~~~~~~~~~~   37 (194)
T d1nksa_           1 MKIGIVT-GIPGVGKSTVLAKVKEILDNQGINNKIINY   37 (194)
T ss_dssp             CEEEEEE-ECTTSCHHHHHHHHHHHHHTTTCCEEEEEH
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHHcCCCEEEEEC
Confidence            5677777 778999999999999999999999988874

>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=96.87  E-value=0.0022  Score=54.95  Aligned_cols=37  Identities=16%  Similarity=0.261  Sum_probs=27.7

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      |.+.+|--|+||||+-.+|...  ..|+|+.+|--|...
T Consensus         5 v~iitGFLGaGKTTll~~lL~~--~~~~riaVI~Ne~g~   41 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNE--QHGYKIAVIENEFGE   41 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHS--CCCCCEEEECSSCCS
T ss_pred             EEEEeeCCCCCHHHHHHHHHhc--CCCCcEEEEEecccc
Confidence            4455588899999987776553  468999999887633

>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=96.77  E-value=0.0016  Score=57.61  Aligned_cols=38  Identities=21%  Similarity=0.295  Sum_probs=33.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      ++.-|+ |-.|+||||++..++....+.|.+|++||..-
T Consensus        58 ~itei~-G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~   95 (268)
T d1xp8a1          58 RITEIY-GPESGGKTTLALAIVAQAQKAGGTCAFIDAEH   95 (268)
T ss_dssp             SEEEEE-ESTTSSHHHHHHHHHHHHHHTTCCEEEEESSC
T ss_pred             eEEEEe-cCCccchHHHHHHHHHHHHhCCCEEEEEECCc
Confidence            355555 99999999999999999999999999999974

>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=96.71  E-value=0.0019  Score=58.98  Aligned_cols=68  Identities=13%  Similarity=0.040  Sum_probs=51.7

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      ..|-+=|||||+-..-.......+..+|++++|+.+...-...+.+.++.+.+.+++++ +++|+++..
T Consensus        94 ~~~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~~~~~p~i-~viNKiDr~  161 (341)
T d1n0ua2          94 NSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPV-VVINKVDRA  161 (341)
T ss_dssp             SEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHHTTCEEE-EEEECHHHH
T ss_pred             cceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHHHcCCCeE-EEEECcccc
Confidence            45667789999744322233344566799999999998888889999999999999876 667998753

>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=96.70  E-value=0.004  Score=50.44  Aligned_cols=43  Identities=14%  Similarity=0.049  Sum_probs=29.2

Q ss_pred             cCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcC
Q 016622          303 VPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHF  346 (386)
Q Consensus       303 ~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~  346 (386)
                      ..+|.++++..............++.+++.+.+++ +|+|+++.
T Consensus        79 ~~ad~i~~~~~~~~~~~~~~~~~~~~l~~~~~pvi-iv~NK~Dl  121 (171)
T d1mkya1          79 READLVLFVVDGKRGITKEDESLADFLRKSTVDTI-LVANKAEN  121 (171)
T ss_dssp             TTCSEEEEEEETTTCCCHHHHHHHHHHHHHTCCEE-EEEESCCS
T ss_pred             ccCcEEEEeeccccccccccccccccccccccccc-ccchhhhh
Confidence            34677777766655544555666777777778765 77799885

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.55  E-value=0.00098  Score=56.66  Aligned_cols=46  Identities=24%  Similarity=0.174  Sum_probs=38.8

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCCCCCC
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVYGPSL  217 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~~~~sl  217 (386)
                      +.+.+|.|+ |..|+||||+|..|+..|. ..+..+.++|.|..+..+
T Consensus        22 ~kg~vIwlt-GlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~iR~~l   68 (208)
T d1m7ga_          22 QRGLTIWLT-GLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNIRFGL   68 (208)
T ss_dssp             SSCEEEEEE-CSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHHTTTT
T ss_pred             CCCeEEEEE-CCCCCCHHHHHHHHHHHHHHhcCceEEEEcchHHHHhh
Confidence            456788888 9999999999999998886 468899999999866554

>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=96.53  E-value=0.00094  Score=54.54  Aligned_cols=37  Identities=22%  Similarity=0.228  Sum_probs=32.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      |+|+|. |-.|+||||++..|+..|...|.++.++..+
T Consensus         2 kiI~i~-G~~GsGKsT~~~~L~~~l~~~~~~~~~~~~~   38 (190)
T d1khta_           2 KVVVVT-GVPGVGSTTSSQLAMDNLRKEGVNYKMVSFG   38 (190)
T ss_dssp             CEEEEE-CCTTSCHHHHHHHHHHHHHTTTCCCEEEEHH
T ss_pred             CEEEEE-CCCCCCHHHHHHHHHHHHHHcCCCeEEEecC
Confidence            578887 8889999999999999999999998887653

>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=96.44  E-value=0.012  Score=47.45  Aligned_cols=91  Identities=20%  Similarity=0.137  Sum_probs=53.0

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+++.|.|+++.-....+....+..+|.+++|... +..++..+......+...    +++ +-+|.|+++....... 
T Consensus        46 ~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~d~t~~~s~~~~~~~~~~i~~~~~~~~~p-iilvgnK~Dl~~~~~v-  123 (168)
T d2gjsa1          46 EEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVP-IILVGNKSDLVRSREV-  123 (168)
T ss_dssp             EEEEEEEEECC-------CHHHHHTSCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCC-EEEEEECTTCGGGCCS-
T ss_pred             cccceeeeecccccccceecccchhhhhhhceeccccccccccccccccchhhcccccccce-EEEeecccchhhhcch-
Confidence            457888999986432222222224567888888764 445777777776665432    234 4478899986432111 


Q ss_pred             cccCCChHHHHHHHhCCCeEE
Q 016622          354 YPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl~  374 (386)
                         .....+++++..|++++.
T Consensus       124 ---~~~~~~~~~~~~~~~~~e  141 (168)
T d2gjsa1         124 ---SVDEGRACAVVFDCKFIE  141 (168)
T ss_dssp             ---CHHHHHHHHHHHTSEEEE
T ss_pred             ---hHHHHHHHHHhcCCEEEE
Confidence               123567788888987653

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.29  E-value=0.0029  Score=52.10  Aligned_cols=40  Identities=28%  Similarity=0.303  Sum_probs=34.6

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      -+|+|+ |-.|+||||+|..|+..+...|..+..++.|...
T Consensus        23 ~iIgI~-G~~GSGKSTla~~L~~~l~~~~~~~~~~~~~~~~   62 (198)
T d1rz3a_          23 LVLGID-GLSRSGKTTLANQLSQTLREQGISVCVFHMDDHI   62 (198)
T ss_dssp             EEEEEE-ECTTSSHHHHHHHHHHHHHHTTCCEEEEEGGGGC
T ss_pred             EEEEEE-CCCCCCHHHHHHHHHHHhccccccceeccccccc
Confidence            367776 8889999999999999999999999999887543

>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=96.24  E-value=0.012  Score=47.01  Aligned_cols=90  Identities=12%  Similarity=0.117  Sum_probs=53.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHcC--CCCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSKL--KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+.++|+++......+.......+|.+++|... +..++..+...++.+.+.  +.++ -+|.|+++.......   
T Consensus        49 ~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~i-ilVgnK~Dl~~~~~v---  124 (164)
T d1z2aa1          49 EDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPT-ALVQNKIDLLDDSCI---  124 (164)
T ss_dssp             EEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCCE-EEEEECGGGGGGCSS---
T ss_pred             ceeeeeeeccCCccchhhhhhhhhccCceEEEEEeccchhhhhhcccccccccccCCCceE-EEeeccCCcccceee---
Confidence            356788999875332111111224457888888765 445677776666665442  4554 478899986432211   


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                       ....++++++..+++++
T Consensus       125 -~~~~~~~~~~~~~~~~~  141 (164)
T d1z2aa1         125 -KNEEAEGLAKRLKLRFY  141 (164)
T ss_dssp             -CHHHHHHHHHHHTCEEE
T ss_pred             -eehhhHHHHHHcCCEEE
Confidence             12346788888898764

>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=96.23  E-value=0.02  Score=46.42  Aligned_cols=68  Identities=13%  Similarity=0.089  Sum_probs=35.8

Q ss_pred             CCCcEEEEcCCCCCCh-------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHc-----CCCCeEEEEEcCCcC
Q 016622          279 GELDYLVIDMPPGTGD-------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSK-----LKVPCIAVVENMCHF  346 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~-------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~-----~~~~i~gvVlN~~~~  346 (386)
                      ..+.+.++|+|+-...       .......+..++.++.+.................+..     .+.+++ +|+|+++.
T Consensus        47 ~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~i-iv~NK~D~  125 (180)
T d1udxa2          47 EEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSL-VALNKVDL  125 (180)
T ss_dssp             SSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEE-EEEECCTT
T ss_pred             CCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhhhhhhhcccccccccchhhhhhhhhccccccchhhhh-hhhhhhhh
Confidence            4566888899862211       0112222445677777776655544444444333322     134444 67799885


Q ss_pred             C
Q 016622          347 D  347 (386)
Q Consensus       347 ~  347 (386)
                      .
T Consensus       126 ~  126 (180)
T d1udxa2         126 L  126 (180)
T ss_dssp             S
T ss_pred             h
Confidence            3

>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=96.15  E-value=0.0052  Score=54.09  Aligned_cols=38  Identities=21%  Similarity=0.330  Sum_probs=33.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      ++..|+ |-.|+||||++..++....+.|.+|++||..-
T Consensus        61 ~i~e~~-G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~   98 (269)
T d1mo6a1          61 RVIEIY-GPESSGKTTVALHAVANAQAAGGVAAFIDAEH   98 (269)
T ss_dssp             SEEEEE-CSSSSSHHHHHHHHHHHHHHTTCEEEEEESSC
T ss_pred             eeEEEe-cCCCcHHHHHHHHHHHHHhcCCCEEEEEECCc
Confidence            455555 99999999999999999999999999999875

>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=96.15  E-value=0.0035  Score=50.57  Aligned_cols=41  Identities=22%  Similarity=0.222  Sum_probs=32.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCC-CcEEEEEcCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMG-ARVGIFDADVYG  214 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G-~rVllID~D~~~  214 (386)
                      +.+|.++ |-.|+||||+|..||..|...+ ..+..+|.|...
T Consensus         6 g~~I~l~-G~~GsGKTTia~~La~~L~~~~~~~~~~~~~~~~~   47 (183)
T d1m8pa3           6 GFTIFLT-GYMNSGKDAIARALQVTLNQQGGRSVSLLLGDTVR   47 (183)
T ss_dssp             CEEEEEE-CSTTSSHHHHHHHHHHHHHHHCSSCEEEEEHHHHH
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHhhcCCCchhhhhhHHhh
Confidence            3577777 9999999999999999997654 466777777543

>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=96.14  E-value=0.0014  Score=52.63  Aligned_cols=37  Identities=27%  Similarity=0.443  Sum_probs=26.9

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      |.|+|.++ |..|+||||+|..||..+   + ...+++.|..
T Consensus         1 M~klI~i~-G~~GsGKTTva~~L~~~~---~-~~~~~~~d~~   37 (176)
T d2bdta1           1 MKKLYIIT-GPAGVGKSTTCKRLAAQL---D-NSAYIEGDII   37 (176)
T ss_dssp             CEEEEEEE-CSTTSSHHHHHHHHHHHS---S-SEEEEEHHHH
T ss_pred             CCeEEEEE-CCCCCCHHHHHHHHHHHc---C-CCEEEehHHH
Confidence            45677776 999999999999988765   3 2445666653

>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=96.13  E-value=0.0011  Score=55.97  Aligned_cols=68  Identities=13%  Similarity=0.119  Sum_probs=47.2

Q ss_pred             CcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          281 LDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       281 yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ..+-+||||+-..-.......+..+|.+++|+.+... .-..+++.+..+...+++.+-+++|+++...
T Consensus        86 r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~~i~~iIV~vNK~Dl~~  154 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDVVS  154 (205)
T ss_dssp             EEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECGGGSC
T ss_pred             EEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHcCCceeeeccccCCCcc
Confidence            3578999985222122233345567999999887765 2456778888888888876768899988643

>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=96.13  E-value=0.021  Score=46.17  Aligned_cols=68  Identities=22%  Similarity=0.177  Sum_probs=39.3

Q ss_pred             CCCcEEEEcCCCCCCh-----H---HHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcC--CCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGD-----I---QLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKL--KVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~-----~---~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~  347 (386)
                      ....+.++|||+-...     .   ......+..+|.+++|+......-..-....+.+++.  +.+ +-+|+||++..
T Consensus        51 ~~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~~ad~il~v~D~~~~~~~~~~~i~~~l~~~~~~~p-iilv~NK~Dl~  128 (178)
T d1wf3a1          51 GRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVP-ILLVGNKLDAA  128 (178)
T ss_dssp             TTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSC-EEEEEECGGGC
T ss_pred             eeeeeeecccccccccccccchhcccccccccccccceeeeechhhhhcccccchhhheeccccchh-hhhhhcccccc
Confidence            4456888999863221     0   1111224467889888876654323334555666654  344 44788998864

>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=96.11  E-value=0.023  Score=45.65  Aligned_cols=92  Identities=11%  Similarity=0.130  Sum_probs=53.9

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC--CCCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL--KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+-|+|+|+.-....+.-..+..+|.+++|..... .++....+....+...  ....+-+|.|+.+.......   
T Consensus        52 ~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~v---  128 (169)
T d3raba_          52 KRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVV---  128 (169)
T ss_dssp             EEEEEEEEEECCSGGGHHHHHTTTTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGCCS---
T ss_pred             ceEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeeccccccccc---
Confidence            34568899998643322222233556798888876554 3555555555555432  23345577899885442211   


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       .....+.+++..|++++.
T Consensus       129 -~~~~~~~~~~~~~~~~~e  146 (169)
T d3raba_         129 -SSERGRQLADHLGFEFFE  146 (169)
T ss_dssp             -CHHHHHHHHHHHTCEEEE
T ss_pred             -chhhhHHHHHHcCCEEEE
Confidence             113466788888987654

>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=96.10  E-value=0.011  Score=48.33  Aligned_cols=69  Identities=14%  Similarity=0.196  Sum_probs=46.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.++|+|....-.......+..+|.+++|......-....++....+...+++++ +|+||++...
T Consensus        57 ~~~~~~~~d~~g~~~~~~~~~~~l~~~d~~ilv~d~~~g~~~~~~~~~~~~~~~~~p~i-iv~NKiD~~~  125 (179)
T d1wb1a4          57 ENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHFNIPII-VVITKSDNAG  125 (179)
T ss_dssp             TTEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHHTTCCBC-EEEECTTSSC
T ss_pred             CCccccccccccccccccchhhhhhhccccccccccccccchhhhhhhhhhhhcCCcce-eccccccccC
Confidence            45677888887533222222233456788888887776555566778888888899966 7789998643

>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=96.06  E-value=0.0022  Score=54.35  Aligned_cols=38  Identities=16%  Similarity=0.177  Sum_probs=30.6

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~  212 (386)
                      .++.|+ |..|+|||+++.++|...+ ..+.+|++++++.
T Consensus        27 ~~~~I~-G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~e~   65 (242)
T d1tf7a1          27 RSTLVS-GTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEE   65 (242)
T ss_dssp             SEEEEE-ESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSS
T ss_pred             eEEEEE-eCCCCCHHHHHHHHHHHHHHhcCCCcccccccC
Confidence            355555 9999999999999988755 5567999998875

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.04  E-value=0.0032  Score=56.62  Aligned_cols=42  Identities=31%  Similarity=0.327  Sum_probs=35.7

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHH--CCCcEEEEEcCCCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAG--MGARVGIFDADVYG  214 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~--~G~rVllID~D~~~  214 (386)
                      .+-+|+|+ |..|+||||+|..|+..|++  .|.+|.+|..|-+.
T Consensus        79 ~P~iIGIa-G~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F~  122 (308)
T d1sq5a_          79 IPYIISIA-GSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFL  122 (308)
T ss_dssp             CCEEEEEE-ECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGB
T ss_pred             CCEEEEEe-CCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeeeE
Confidence            44588887 88899999999999999985  47899999998653

>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=96.02  E-value=0.0018  Score=53.44  Aligned_cols=41  Identities=27%  Similarity=0.263  Sum_probs=34.6

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      +.+|.++ |..|+||||+|..||..|...+..+..++.|...
T Consensus        19 g~vI~L~-G~pGSGKTTiAk~La~~l~~~~~~~~~~~~d~~~   59 (195)
T d1x6va3          19 GCTVWLT-GLSGAGKTTVSMALEEYLVCHGIPCYTLDGDNIR   59 (195)
T ss_dssp             CEEEEEE-SSCHHHHHHHHHHHHHHHHHTTCCEEEECHHHHT
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHHHHHhcCCCccchhHHhhh
Confidence            4577666 9999999999999999999988888888877544

>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=95.99  E-value=0.0022  Score=51.72  Aligned_cols=37  Identities=19%  Similarity=0.163  Sum_probs=29.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      |+|.++ |-.|+||||+|..||..|   |.++..+|.|...
T Consensus         4 kiI~l~-G~~GsGKsTva~~L~~~l---~~~~~~~~~d~~~   40 (178)
T d1qhxa_           4 RMIILN-GGSSAGKSGIVRCLQSVL---PEPWLAFGVDSLI   40 (178)
T ss_dssp             CEEEEE-CCTTSSHHHHHHHHHHHS---SSCEEEEEHHHHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHHHc---CCCeEEeecchhh
Confidence            466665 999999999999998876   6677778877543

>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=95.96  E-value=0.0071  Score=52.23  Aligned_cols=71  Identities=15%  Similarity=0.061  Sum_probs=52.3

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHH-------HHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFI-------DVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~-------~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      |..|.+.|||||+-..-.......+..+|.+++|+.+......       .+++.+..++.+|++.+-+++|+.+...
T Consensus        81 ~~~~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~~gv~~iiv~iNKmD~~~  158 (239)
T d1f60a3          81 TPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDSVK  158 (239)
T ss_dssp             CSSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTCCEEEEEEECGGGGT
T ss_pred             cCCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHHHHHHHcCCCeEEEEEECCCCCC
Confidence            4678999999995333233333445568999999998765432       5788888889999997778899998654

>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=95.87  E-value=0.0049  Score=54.01  Aligned_cols=38  Identities=29%  Similarity=0.398  Sum_probs=32.4

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLA-GMGARVGIFDADVY  213 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La-~~G~rVllID~D~~  213 (386)
                      +.+..+..|+||||++.++|..++ ..|.+|+++.++..
T Consensus        37 l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~E~~   75 (277)
T d1cr2a_          37 VIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEES   75 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEESSSC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeeeccc
Confidence            445559999999999999999877 57999999998753

>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=95.85  E-value=0.015  Score=46.76  Aligned_cols=92  Identities=9%  Similarity=0.012  Sum_probs=55.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHcC--CCCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSKL--KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+.|+||++.-......-.....+|.+++|... +..++....+....+.+.  ....+.+|.|+++.......   
T Consensus        52 ~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~~v---  128 (171)
T d2ew1a1          52 EKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREV---  128 (171)
T ss_dssp             EEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSS---
T ss_pred             EEEEEEEEECCCchhhHHHHHHHHhccceEEEeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccccccch---
Confidence            457789999986322222222223457888888764 456777777777666443  22345688899885432111   


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       .....+++++..+++++.
T Consensus       129 -~~~~~~~~~~~~~~~~~~  146 (171)
T d2ew1a1         129 -SQQRAEEFSEAQDMYYLE  146 (171)
T ss_dssp             -CHHHHHHHHHHHTCCEEE
T ss_pred             -hhhHHHHHHHhCCCEEEE
Confidence             123467788888988754

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=95.83  E-value=0.0024  Score=56.80  Aligned_cols=40  Identities=23%  Similarity=0.378  Sum_probs=33.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      .+|+|+ |-.|+||||++..|+..|.+.|.++++|..|-+.
T Consensus         5 pIIgIa-G~SGSGKTTva~~l~~i~~~~~v~~~iI~~Dsfy   44 (288)
T d1a7ja_           5 PIISVT-GSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAFH   44 (288)
T ss_dssp             CEEEEE-SCC---CCTHHHHHHHHHHHHTCCEEEEEGGGGB
T ss_pred             CEEEEE-CCCCCcHHHHHHHHHHHHhhcCCCeEEEeCCCCC
Confidence            489998 8889999999999999999999999999999653

>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=95.81  E-value=0.003  Score=51.37  Aligned_cols=35  Identities=29%  Similarity=0.450  Sum_probs=27.7

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      |.+.|.++ |-.|+||||++..||..|   |.+  ++|+|.
T Consensus         1 M~~~Iil~-G~~GsGKSTia~~LA~~L---g~~--~id~D~   35 (170)
T d1e6ca_           1 MTEPIFMV-GARGCGMTTVGRELARAL---GYE--FVDTDI   35 (170)
T ss_dssp             CCCCEEEE-SCTTSSHHHHHHHHHHHH---TCE--EEEHHH
T ss_pred             CCCCEEEE-CCCCCCHHHHHHHHHHHh---CCC--EEehhh
Confidence            44667777 889999999999999877   554  678874

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.71  E-value=0.0055  Score=52.41  Aligned_cols=38  Identities=13%  Similarity=0.212  Sum_probs=33.3

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      .+.+..|.+|+|||+++.++|..+++.|.+|++++++.
T Consensus        27 sl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is~e~   64 (242)
T d1tf7a2          27 SIILATGATGTGKTLLVSRFVENACANKERAILFAYEE   64 (242)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESSS
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHHhccccceeeccC
Confidence            34444499999999999999999999999999999875

>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=95.55  E-value=0.061  Score=42.75  Aligned_cols=91  Identities=12%  Similarity=0.105  Sum_probs=54.7

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHcC--CCCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSKL--KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+.|.|+++.-............+|.+++|... +..+...+...+..+.+.  ....+-++.|+.+.......   
T Consensus        51 ~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~---  127 (166)
T d1z0fa1          51 QKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDV---  127 (166)
T ss_dssp             EEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCS---
T ss_pred             EEEEEEEeccCCchhHHHHHHHHhcCCcEEEEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhccc---
Confidence            456789999986322112222224467888888765 445666666666666543  23345678899885442211   


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                       .....+.+++..+.+++
T Consensus       128 -~~~~~~~~~~~~~~~~~  144 (166)
T d1z0fa1         128 -TYEEAKQFAEENGLLFL  144 (166)
T ss_dssp             -CHHHHHHHHHHTTCEEE
T ss_pred             -HHHHHHHHHHHcCCEEE
Confidence             11356778888887765

>d1eg7a_ c.37.1.10 (A:) Formyltetrahydrofolate synthetase {Moorella thermoacetica [TaxId: 1525]}

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: Formyltetrahydrofolate synthetase
species: Moorella thermoacetica [TaxId: 1525]

Probab=95.55  E-value=0.0069  Score=57.43  Aligned_cols=50  Identities=30%  Similarity=0.422  Sum_probs=42.2

Q ss_pred             CceEEEEEeC---cCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCc
Q 016622          172 ISNIVAVSSC---KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPE  224 (386)
Q Consensus       172 ~~kvI~v~s~---kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~  224 (386)
                      .+|.|.|++-   .-|+||||++..|+.+|++.|+++.+.   ++.||+.-.||..
T Consensus        50 ~gklilVTaitPTp~GEGKtTttiGL~~aL~~lgk~~~~~---lRePSlGP~fGiK  102 (549)
T d1eg7a_          50 DGKLILVTAITPTPAGEGKTTTSVGLTDALARLGKRVMVC---LREPSLGPSFGIK  102 (549)
T ss_dssp             CCEEEEEEESSCCTTCCCHHHHHHHHHHHHHHTTCCEEEE---ECCCCSTHHHHTT
T ss_pred             CceEEEEEeCCCCCCCCCcceeHHhHHHHHHHhCCceEEE---EecCCCCCccccc
Confidence            4678888765   459999999999999999999999876   7888988777654

>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=95.50  E-value=0.0071  Score=52.74  Aligned_cols=38  Identities=34%  Similarity=0.364  Sum_probs=30.8

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHC----------CCcEEEEEcCCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGM----------GARVGIFDADVY  213 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~----------G~rVllID~D~~  213 (386)
                      +++..+.+|+||||++.+||..+|..          +.+|++++++..
T Consensus        31 ~~~i~G~~G~GKS~l~l~la~~ia~g~~~~~~~~~~~~~vl~~~~E~~   78 (274)
T d1nlfa_          31 VGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDP   78 (274)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHcCCCcccccccCCCceEEEeccch
Confidence            45556999999999999999998852          348999988764

>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=95.49  E-value=0.0035  Score=50.74  Aligned_cols=26  Identities=27%  Similarity=0.300  Sum_probs=23.0

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      ++|.|+|+ |-.|+||||+|..||..+
T Consensus         6 ~~K~I~i~-G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           6 FAKTVAIL-GGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             TCEEEEEE-CCTTSHHHHHHHHHHHHT
T ss_pred             cceEEEEE-CCCCCCHHHHHHHHHHHh
Confidence            57899998 778999999999999876

>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=95.47  E-value=0.036  Score=44.57  Aligned_cols=92  Identities=11%  Similarity=0.140  Sum_probs=49.0

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC--CCCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL--KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+-|+|+|+.-......-..+..+|.+++|.... ..++..+....+.+...  ....+.+|.|+.+........  
T Consensus        53 ~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~~~--  130 (173)
T d2fu5c1          53 KRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVS--  130 (173)
T ss_dssp             EEEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSC--
T ss_pred             EEEEEEEEECCCchhhHHHHHHhccCCCEEEEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhcccH--
Confidence            3567788999863322222222244578888887754 45667777776666433  223466888998865532211  


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                        .......++..+++++.
T Consensus       131 --~~~~~~~~~~~~~~~~e  147 (173)
T d2fu5c1         131 --KERGEKLALDYGIKFME  147 (173)
T ss_dssp             --HHHHHHHHHHHTCEEEE
T ss_pred             --HHHHHHHHHhcCCEEEE
Confidence              12355667777877653

>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=95.44  E-value=0.0042  Score=51.73  Aligned_cols=68  Identities=12%  Similarity=0.092  Sum_probs=46.7

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcch-HHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLA-FIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s-~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      .+-+.++|||+...-.......+..+|.+++|+...... ...+.+.+..++..+.+.+-+++|+.+..
T Consensus        77 ~~~~~~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~~~~iiv~inK~D~~  145 (195)
T d1kk1a3          77 VRRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELV  145 (195)
T ss_dssp             EEEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGS
T ss_pred             ceeEeeeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhcCccceeeeecccch
Confidence            345889999963222222223344579999888877653 45677788888888888777889998754

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.39  E-value=0.017  Score=46.28  Aligned_cols=34  Identities=32%  Similarity=0.438  Sum_probs=29.1

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      |-|+ .-.|=||||-|..+|...+-+|+||+++=+
T Consensus         5 i~vy-tG~GKGKTTAAlG~alRA~G~G~rV~ivQF   38 (157)
T d1g5ta_           5 IIVF-TGNGKGKTTAAFGTAARAVGHGKNVGVVQF   38 (157)
T ss_dssp             EEEE-ESSSSCHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             EEEE-eCCCCCcHHHHHHHHHHHhcCCCEEEEEEE
Confidence            4444 456899999999999999999999999965

>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=95.36  E-value=0.0063  Score=51.15  Aligned_cols=39  Identities=26%  Similarity=0.335  Sum_probs=32.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHC-----CCcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM-----GARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~-----G~rVllID~D~~  213 (386)
                      -+|+|+ |..|+||||+|..|+..|...     +.+|.++..|-+
T Consensus         3 ~iIgI~-G~~gSGKSTla~~L~~~l~~~~~~~~~~~~~vi~~D~y   46 (213)
T d1uj2a_           3 FLIGVS-GGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDSF   46 (213)
T ss_dssp             EEEEEE-CSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGGG
T ss_pred             EEEEEE-CCCCCCHHHHHHHHHHHhchhccccCCCceEEEecccc
Confidence            378888 889999999999999998753     457899999854

>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=95.35  E-value=0.099  Score=41.79  Aligned_cols=91  Identities=13%  Similarity=0.110  Sum_probs=54.9

Q ss_pred             CCCcEEEEcCCCCCChHHH-hhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCce
Q 016622          279 GELDYLVIDMPPGTGDIQL-TLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKR  352 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~-~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~  352 (386)
                      ..+.+.++|++...+.... ....+..+|.+++|... +..++..+......+.+.    +.++ -+|.|+++.......
T Consensus        51 ~~~~~~~~d~~~~~g~e~~~~~~~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~pi-ilvgnK~Dl~~~~~v  129 (172)
T d2g3ya1          51 ESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPI-ILVGNKSDLVRCREV  129 (172)
T ss_dssp             EEEEEEEECCTTTTHHHHHHHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCE-EEEEECTTCGGGCCS
T ss_pred             ceeeeeeeccccccccccccccccccccceeeeeecccccchhhhhhhhhhhhhhccccCCceE-EEEeccccccccccc
Confidence            4567888998754443221 12223457888888654 445777777776666543    4554 488899985432111


Q ss_pred             ecccCCChHHHHHHHhCCCeEE
Q 016622          353 YYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       353 ~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                          .....+++++.++++++.
T Consensus       130 ----~~~~~~~~a~~~~~~~~e  147 (172)
T d2g3ya1         130 ----SVSEGRACAVVFDCKFIE  147 (172)
T ss_dssp             ----CHHHHHHHHHHHTCEEEE
T ss_pred             ----cHHHHHHHHHHcCCeEEE
Confidence                123467788888987654

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.33  E-value=0.011  Score=49.84  Aligned_cols=36  Identities=22%  Similarity=0.345  Sum_probs=32.3

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      ++.|+|- |--|+||||.+..|+..|..+|++|.+++
T Consensus         3 G~lI~ie-G~dGsGKsT~~~~L~~~L~~~g~~v~~~~   38 (209)
T d1nn5a_           3 GALIVLE-GVDRAGKSTQSRKLVEALCAAGHRAELLR   38 (209)
T ss_dssp             CCEEEEE-ESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eeEEEEE-CCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            4577777 77899999999999999999999999886

>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=95.32  E-value=0.004  Score=50.16  Aligned_cols=36  Identities=39%  Similarity=0.371  Sum_probs=26.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      ++|.+. |..|+||||+|..||.   +.|.+.+.+|.|..
T Consensus         5 ~iI~l~-G~~GsGKSTia~~La~---~lg~~~~~~~~d~~   40 (176)
T d1zp6a1           5 NILLLS-GHPGSGKSTIAEALAN---LPGVPKVHFHSDDL   40 (176)
T ss_dssp             EEEEEE-ECTTSCHHHHHHHHHT---CSSSCEEEECTTHH
T ss_pred             eEEEEE-CCCCCCHHHHHHHHHH---HhCCCEEEecHHHH
Confidence            466655 9999999999877654   33788888877643

>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=95.17  E-value=0.041  Score=43.79  Aligned_cols=91  Identities=11%  Similarity=0.123  Sum_probs=53.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..|.+-+.|++.......+.......+|.+++|... +..++..+.+....+.+    .+++ +-+|.|+++....... 
T Consensus        50 ~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilvgnK~Dl~~~r~v-  127 (167)
T d1xtqa1          50 QEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIP-IMLVGNKKDLHMERVI-  127 (167)
T ss_dssp             EEEEEEEEECCCCCTTCCCCGGGTSSCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSCCC-EEEEEECTTCGGGCCS-
T ss_pred             EEEEeeecccccccccccccchhhhhhhhhhhhcccchhhhhhhhhhhhhhhhhcccccccc-eeeeccccccccccch-
Confidence            356777888875432222222224467888888665 44567777666555432    2444 4588899885432211 


Q ss_pred             cccCCChHHHHHHHhCCCeEE
Q 016622          354 YPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl~  374 (386)
                         ......++++.++++++.
T Consensus       128 ---~~~~~~~~a~~~~~~~~e  145 (167)
T d1xtqa1         128 ---SYEEGKALAESWNAAFLE  145 (167)
T ss_dssp             ---CHHHHHHHHHHHTCEEEE
T ss_pred             ---hHHHHHHHHHHcCCEEEE
Confidence               113567788888987653

>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=95.15  E-value=0.013  Score=51.28  Aligned_cols=38  Identities=21%  Similarity=0.308  Sum_probs=33.9

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      ++..|+ |-.|+||||++.+++....+.|.+|++||..-
T Consensus        55 ~itei~-G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~   92 (263)
T d1u94a1          55 RIVEIY-GPESSGKTTLTLQVIAAAQREGKTCAFIDAEH   92 (263)
T ss_dssp             SEEEEE-CSTTSSHHHHHHHHHHHHHHTTCCEEEEESSC
T ss_pred             eEEEEe-cCCCcHHHHHHHHHHHHHHcCCCEEEEEcccc
Confidence            455555 99999999999999999999999999999975

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.12  E-value=0.014  Score=48.54  Aligned_cols=35  Identities=23%  Similarity=0.373  Sum_probs=31.0

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      .|+|. |--|+||||++..|+..|..+|++|.++..
T Consensus         2 lI~ie-G~dGsGKST~~~~L~~~l~~~g~~v~~~~~   36 (208)
T d1gsia_           2 LIAIE-GVDGAGKRTLVEKLSGAFRAAGRSVATLAF   36 (208)
T ss_dssp             EEEEE-CSTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHHHHCCCCEEEEec
Confidence            46665 889999999999999999999999998864

>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=95.12  E-value=0.053  Score=43.27  Aligned_cols=91  Identities=8%  Similarity=0.073  Sum_probs=54.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHc-----CCCCeEEEEEcCCcCCCCCce
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSK-----LKVPCIAVVENMCHFDADGKR  352 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~-----~~~~i~gvVlN~~~~~~~~~~  352 (386)
                      ..+.+.+.|+++..............+|.+++|...+ ..+...+......+.+     .+.++ -+|.|+++.......
T Consensus        48 ~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~pi-ilVgnK~Dl~~~~~v  126 (171)
T d2erxa1          48 SICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPI-MLVGNKCDESPSREV  126 (171)
T ss_dssp             EEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCE-EEEEECGGGGGGCCS
T ss_pred             ccceeccccccccccccccccccccceeEEEEEeecccccchhcccchhhhhhhhhccCCCCcE-EEEeecccccccccc
Confidence            4567788999864432222223344568899887764 4566666665554432     23444 478899886432111


Q ss_pred             ecccCCChHHHHHHHhCCCeEE
Q 016622          353 YYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       353 ~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                          .....+++++.++++++.
T Consensus       127 ----~~~e~~~~~~~~~~~~~e  144 (171)
T d2erxa1         127 ----QSSEAEALARTWKCAFME  144 (171)
T ss_dssp             ----CHHHHHHHHHHHTCEEEE
T ss_pred             ----cHHHHHHHHHHcCCeEEE
Confidence                123567888999987653

>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=95.08  E-value=0.0079  Score=47.26  Aligned_cols=35  Identities=23%  Similarity=0.172  Sum_probs=23.8

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      |.++|.++ |..|+||||+|..|+.    .......++.|
T Consensus         1 MkklIii~-G~pGsGKTTla~~L~~----~~~~~~~~~~d   35 (152)
T d1ly1a_           1 MKKIILTI-GCPGSGKSTWAREFIA----KNPGFYNINRD   35 (152)
T ss_dssp             CCEEEEEE-CCTTSSHHHHHHHHHH----HSTTEEEECHH
T ss_pred             CCEEEEEE-CCCCCCHHHHHHHHHH----hCCCCEEechH
Confidence            44566655 9999999999876643    33446666665

>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=95.07  E-value=0.1  Score=41.36  Aligned_cols=92  Identities=14%  Similarity=0.167  Sum_probs=53.7

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC--CCCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL--KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+.+.|+++......+.-.....+|.+++|..... .++..+...++.+...  ....+-+|.|+.+.......   
T Consensus        50 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~v---  126 (167)
T d1z08a1          50 KRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHV---  126 (167)
T ss_dssp             CEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCS---
T ss_pred             ccceeeeeccCCcceecccchhhccCCceeEEEEeCCchhHHHhhhhhhhhcccccccccceeeecccccccccccc---
Confidence            45778899988644332222233445788888877654 4666766666555432  23345577899885442211   


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       ....++++++.++++++.
T Consensus       127 -~~~e~~~~a~~~~~~~~e  144 (167)
T d1z08a1         127 -SIQEAESYAESVGAKHYH  144 (167)
T ss_dssp             -CHHHHHHHHHHTTCEEEE
T ss_pred             -chHHHHHHHHHcCCeEEE
Confidence             123577888888987653

>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=95.05  E-value=0.16  Score=41.35  Aligned_cols=91  Identities=12%  Similarity=0.081  Sum_probs=51.7

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC--CCCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL--KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+-|+|+|+.-....+....+..++.+++|...+. .+...+......+.+.  ....+.+|.|+.+.......   
T Consensus        53 ~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~---  129 (194)
T d2bcgy1          53 KTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVV---  129 (194)
T ss_dssp             EEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCS---
T ss_pred             EEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccccccch---
Confidence            45678889998633211111222445788888887764 4566666666656442  22346688898775543211   


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                       .........+..+.+++
T Consensus       130 -~~~~~~~~~~~~~~~~~  146 (194)
T d2bcgy1         130 -EYDVAKEFADANKMPFL  146 (194)
T ss_dssp             -CHHHHHHHHHHTTCCEE
T ss_pred             -hHHHHhhhhhccCcceE
Confidence             12344556666666654

>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=95.02  E-value=0.0054  Score=48.40  Aligned_cols=32  Identities=31%  Similarity=0.428  Sum_probs=25.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      |.|.++ |-.|+||||+|..||..|   |..+  +|.|
T Consensus         3 k~I~l~-G~~GsGKSTvak~La~~L---~~~~--id~~   34 (169)
T d1kaga_           3 RNIFLV-GPMGAGKSTIGRQLAQQL---NMEF--YDSD   34 (169)
T ss_dssp             CCEEEE-CCTTSCHHHHHHHHHHHT---TCEE--EEHH
T ss_pred             CeEEEE-CCCCCCHHHHHHHHHHHh---CCCe--Eeec
Confidence            467777 999999999999999876   5554  5655

>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=95.01  E-value=0.091  Score=42.83  Aligned_cols=41  Identities=15%  Similarity=0.118  Sum_probs=26.5

Q ss_pred             CeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCC
Q 016622          306 TAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFD  347 (386)
Q Consensus       306 d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~  347 (386)
                      |.+++++.....--......++.++..+.+++ +|+|+++..
T Consensus       107 ~~vi~viD~~~~~~~~~~~~~~~l~~~~~pii-vv~NK~D~~  147 (195)
T d1svia_         107 KAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVI-VIATKADKI  147 (195)
T ss_dssp             EEEEEEEETTSCCCHHHHHHHHHHHHTTCCEE-EEEECGGGS
T ss_pred             hhhhhhhhccccccccccccccccccccCcce-echhhcccc
Confidence            55666665543333445677777888888754 888998853

>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=94.85  E-value=0.55  Score=36.93  Aligned_cols=68  Identities=10%  Similarity=0.033  Sum_probs=40.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHc----CCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSK----LKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.+.|++...............+|.+++|... +..+..++......+..    .+.+ +-+|.|+++..
T Consensus        58 ~~~~~~i~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~p-illv~nK~Dl~  130 (176)
T d1fzqa_          58 QGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVP-VLIFANKQDLL  130 (176)
T ss_dssp             TTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCC-EEEEEECTTST
T ss_pred             CCeeEeEeeccccccchhHHHHHhhccceeEEeeccccccchhhhhhhhhhhhhhhccCCCe-EEEEEEecccc
Confidence            467788899875333222222335557888888764 44566666655544432    2445 44888998864

>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=94.82  E-value=0.17  Score=39.92  Aligned_cols=91  Identities=14%  Similarity=0.067  Sum_probs=51.7

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC--CCCeEEEEEcCCcCCCCCceeccc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL--KVPCIAVVENMCHFDADGKRYYPF  356 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~~~~~~~~~~  356 (386)
                      .+.+.|.|+++......+.......++.+++|.... ..+...+......+.+.  ....+-+|.|+.+.......    
T Consensus        52 ~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v----  127 (167)
T d1z0ja1          52 LHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREV----  127 (167)
T ss_dssp             EEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCS----
T ss_pred             ccceeeeecCCchhhhHHHHHHHhhccceEEEeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhccccch----
Confidence            445667888753322222222244568888887643 44566666555444332  23346689999986432211    


Q ss_pred             CCChHHHHHHHhCCCeEE
Q 016622          357 GRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       357 ~~~~~~~i~~~~g~pvl~  374 (386)
                      .....+++++.++++++.
T Consensus       128 ~~~~~~~~~~~~~~~~~e  145 (167)
T d1z0ja1         128 MERDAKDYADSIHAIFVE  145 (167)
T ss_dssp             CHHHHHHHHHHTTCEEEE
T ss_pred             hHHHHHHHHHHcCCEEEE
Confidence            123567888888887653

>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=94.66  E-value=0.11  Score=41.12  Aligned_cols=91  Identities=11%  Similarity=0.151  Sum_probs=49.3

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHcC--CCCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKL-AFIDVAKGVRMFSKL--KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~-s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+.|+|+|+.-....+.-.....+|.+++|...... +...+..........  .....-++.|+.+......    
T Consensus        49 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~~~~----  124 (166)
T d1g16a_          49 KKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRVV----  124 (166)
T ss_dssp             CEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTCCS----
T ss_pred             EEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhhhhhh----
Confidence            456788999986321111111123456888888776554 444454444433332  2333446667765443211    


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       .....+++++..+++++.
T Consensus       125 -~~~~~~~~~~~~~~~~~~  142 (166)
T d1g16a_         125 -TADQGEALAKELGIPFIE  142 (166)
T ss_dssp             -CHHHHHHHHHHHTCCEEE
T ss_pred             -hHHHHHHHHHhcCCeEEE
Confidence             124577788888887754

>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=94.59  E-value=0.056  Score=43.13  Aligned_cols=92  Identities=11%  Similarity=0.052  Sum_probs=52.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC-C-CCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL-K-VPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~-~-~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+.+.|+++.-......-..+..+|.+++|.... ..++.........+.+. . ...+-+|.|+++......    
T Consensus        53 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~----  128 (170)
T d1r2qa_          53 TTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRA----  128 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCC----
T ss_pred             eEEEEEeccCCCchhhhhhHHHHhhCcceEEEEeccchhhHHHHHHHHhhhhhhccCCCceEEeeccccccccccc----
Confidence            3567888898764322222222244678888877644 45666666666665432 2 223558889988543211    


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                      ......+++++..++++..
T Consensus       129 v~~e~~~~~~~~~~~~~~e  147 (170)
T d1r2qa_         129 VDFQEAQSYADDNSLLFME  147 (170)
T ss_dssp             SCHHHHHHHHHHTTCEEEE
T ss_pred             ccHHHHHHHHHhcCCEEEE
Confidence            1124567888888876643

>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=94.57  E-value=0.082  Score=42.27  Aligned_cols=90  Identities=11%  Similarity=0.154  Sum_probs=53.2

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTT-PQKLAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~-~~~~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+.+.|+++......+.......+|.+++|.. .+..+...+.+.+..+.+.   +. .+-+|.|+++.......   
T Consensus        51 ~~~~~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~-piilv~nK~D~~~~~~~---  126 (173)
T d2a5ja1          51 QIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNM-VIMLIGNKSDLESRRDV---  126 (173)
T ss_dssp             EEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTC-EEEEEEECTTCGGGCCS---
T ss_pred             EEEEEeecccCccchhhHHHHHhhccCEEEEEEeecChHHHHhHHHHHHHHHHhCCCCC-eEEEEecCCchhhhhhh---
Confidence            4567788887643211111122345688888766 4556777777776666443   33 45688899985442211   


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       .......+++..+.+++.
T Consensus       127 -~~~~~~~~a~~~~~~~~e  144 (173)
T d2a5ja1         127 -KREEGEAFAREHGLIFME  144 (173)
T ss_dssp             -CHHHHHHHHHHHTCEEEE
T ss_pred             -HHHHHHHHHHHcCCEEEE
Confidence             123577888888877653

>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=94.50  E-value=0.11  Score=47.86  Aligned_cols=63  Identities=13%  Similarity=0.089  Sum_probs=38.4

Q ss_pred             CCcEEEEcCCCCCCh------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcC
Q 016622          280 ELDYLVIDMPPGTGD------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHF  346 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~  346 (386)
                      ...++|+|||+ ++.      ..+.......+|.+++++.....  ..-..+++.+++.+.++ .+|+|+++.
T Consensus       106 ~~~~~l~DtPG-~~~~~~~~~~~~~~~~~~~~d~~l~~~~~~~~--~~d~~l~~~l~~~~k~~-~~V~nK~D~  174 (400)
T d1tq4a_         106 IPNVVFWDLPG-IGSTNFPPDTYLEKMKFYEYDFFIIISATRFK--KNDIDIAKAISMMKKEF-YFVRTKVDS  174 (400)
T ss_dssp             CTTEEEEECCC-GGGSSCCHHHHHHHTTGGGCSEEEEEESSCCC--HHHHHHHHHHHHTTCEE-EEEECCHHH
T ss_pred             CCeEEEEeCCC-cccccccHHHHHHHhhhhcceEEEEecCCCCC--HHHHHHHHHHHHcCCCE-EEEEeCccc
Confidence            34688999985 321      11122223346777777765443  22346677888877765 488899874

>d2g0ta1 c.37.1.10 (A:1-338) Hypothetical protein TM0796 {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: Hypothetical protein TM0796
species: Thermotoga maritima [TaxId: 2336]

Probab=94.50  E-value=0.11  Score=46.27  Aligned_cols=141  Identities=20%  Similarity=0.215  Sum_probs=85.9

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCCCccCCCcccccccCCCCCceeeeccCCceEEec
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNPEKRTIIPTEYLGVKLVSF  250 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl~~~lg~~~~~~~~~~~~~~i~~~~~~~l~vl~~  250 (386)
                      ...++|++.++--.+||=|++..|..+|.++|.++..+-.-..+    .+.+.+.           -.+     ++    
T Consensus       155 ~~~~rvl~vGTDca~GK~tTal~l~~~l~~~G~~a~fiaTGQTG----ili~g~~-----------Gv~-----~D----  210 (338)
T d2g0ta1         155 KKIKVVGVFGTDCVVGKRTTAVQLWERALEKGIKAGFLATGQTG----ILIGADA-----------GYV-----ID----  210 (338)
T ss_dssp             CCSEEEEEEESSSSSSHHHHHHHHHHHHHHTTCCEEEEECSHHH----HHTTCSE-----------ECC-----GG----
T ss_pred             cCCcEEEEeccCccccHHHHHHHHHHHHHhCCCCeeEEEcCCee----Eeecccc-----------cee-----cC----
Confidence            45689999999999999999999999999999999888654332    1111100           000     00    


Q ss_pred             CCCCCcccccCCchHHHHHHHHHHhcCCCCCcEEEEcCCCCCCh-----HHHhhhhhcCCCeEEEEeCCCcch-------
Q 016622          251 GFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMPPGTGD-----IQLTLCQVVPLTAAVIVTTPQKLA-------  318 (386)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~yD~VIIDtpp~~~~-----~~~~~~~~~~~d~vviV~~~~~~s-------  318 (386)
                              ....+.....++++.-....++.|+|||..-+++..     ..+.+..-...|.+|++-.|+...       
T Consensus       211 --------av~~DfvaGavE~~v~~~~~~~~d~iiIEGQgSL~hP~~s~vtl~LL~Gs~Pd~lVL~H~p~r~~~~~~~~~  282 (338)
T d2g0ta1         211 --------AVPADFVSGVVEKAVLKLEKTGKEIVFVEGQGALRHPAYGQVTLGLLYGSNPDVVFLVHDPSRDHFESFPEI  282 (338)
T ss_dssp             --------GSBGGGHHHHHHHHHHHHHHTTCSEEEEECCSCTTCTTTHHHHHHHHHHHCCSEEEEECCTTCSSCTTCTTS
T ss_pred             --------cchhhhhHHHHHHHHhhhhcCCCCEEEEcccccccccccccccHHHHhcCCCCEEEEeecCCccccccCccc
Confidence                    112234455666654332225789999999887642     233333334578999986665331       


Q ss_pred             --HHHHHHHHHHHHcC-CCCeE-EEEEcC
Q 016622          319 --FIDVAKGVRMFSKL-KVPCI-AVVENM  343 (386)
Q Consensus       319 --~~~~~~~~~~l~~~-~~~i~-gvVlN~  343 (386)
                        +..+.+.++.++.+ +.+++ |+-+|-
T Consensus       283 ~~iP~l~~~i~l~e~l~~~~vv~gIslNt  311 (338)
T d2g0ta1         283 PKKPDFEEERRLIETLSNAKVIGGVSLNG  311 (338)
T ss_dssp             SCCCCHHHHHHHHHHSSSCEEEEEECSSC
T ss_pred             CCCCCHHHHHHHHHhhCCCCEEEEEEecc
Confidence              22344444555444 33344 777785

>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=94.38  E-value=0.17  Score=40.24  Aligned_cols=90  Identities=14%  Similarity=0.042  Sum_probs=52.3

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+.|.|+|+.-....+.-.....+|.+++|..... .+...+......+.+.   +.+ +-+|.|+++.......  
T Consensus        52 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iivv~nK~D~~~~~~~--  128 (174)
T d2bmea1          52 KYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIV-IILCGNKKDLDADREV--  128 (174)
T ss_dssp             EEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECGGGGGGCCS--
T ss_pred             cceeEEEEECCCchhhhhhHHHHhhhCCEEEEEEecccchhHHHHhhhhcccccccCCceE-EEEEEecccccchhch--
Confidence            35678899998643322222233445788888877654 3455555555544332   344 4588999985432211  


Q ss_pred             ccCCChHHHHHHHhCCCeE
Q 016622          355 PFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl  373 (386)
                        .......+++..+++++
T Consensus       129 --~~~~~~~~~~~~~~~~~  145 (174)
T d2bmea1         129 --TFLEASRFAQENELMFL  145 (174)
T ss_dssp             --CHHHHHHHHHHTTCEEE
T ss_pred             --hhhHHHHHHHhCCCEEE
Confidence              11345677778887764

>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=94.38  E-value=0.12  Score=41.38  Aligned_cols=91  Identities=11%  Similarity=0.046  Sum_probs=53.3

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+.+.+.|+++..............+|.+++|..... .++..+......+.+    .+.+ +-+|.|+++....... 
T Consensus        52 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-~ilvgnK~Dl~~~~~~-  129 (173)
T d2fn4a1          52 IPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFP-VVLVGNKADLESQRQV-  129 (173)
T ss_dssp             EEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCC-EEEEEECGGGGGGCCS-
T ss_pred             eeeeeeccccccccccccccchhhccceeeeeecccccccccchhhhhhHHHHHHhccCCCc-eEEEEEeechhhcccc-
Confidence            45678889997643211111112334688888877654 466767666655533    2444 4488899985432111 


Q ss_pred             cccCCChHHHHHHHhCCCeEE
Q 016622          354 YPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl~  374 (386)
                         .......+++..+++++.
T Consensus       130 ---~~~~~~~~~~~~~~~~~e  147 (173)
T d2fn4a1         130 ---PRSEASAFGASHHVAYFE  147 (173)
T ss_dssp             ---CHHHHHHHHHHTTCEEEE
T ss_pred             ---chhhhhHHHHhcCCEEEE
Confidence               123577888888887653

>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=94.38  E-value=0.037  Score=47.63  Aligned_cols=71  Identities=13%  Similarity=0.132  Sum_probs=47.6

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcchHH-------HHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFI-------DVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s~~-------~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      +..+.+.++|||+...-..........+|.+++|+.+...-..       .+...+..+...+++.+-+++|+.+...
T Consensus        99 ~~~~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~~i~~iiv~iNKmD~~~  176 (245)
T d1r5ba3          99 TEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPS  176 (245)
T ss_dssp             CSSEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTT
T ss_pred             cccceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHcCCCeEEEEEEcCCCCc
Confidence            3677899999997544333333445567999999988765433       5777888888889987878889998643

>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=94.34  E-value=0.018  Score=45.87  Aligned_cols=26  Identities=35%  Similarity=0.350  Sum_probs=21.6

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      ..++|.++ |-.|+||||+|..||..|
T Consensus         5 ~~~iivl~-G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           5 DHHIYVLM-GVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TSEEEEEE-CSTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEE-CCCCCCHHHHHHHHHHHh
Confidence            34566665 999999999999999877

>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=94.33  E-value=0.027  Score=49.73  Aligned_cols=39  Identities=21%  Similarity=0.255  Sum_probs=31.9

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHC---CCcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM---GARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~---G~rVllID~D~~  213 (386)
                      -+|+|+ |-.|+||||+|..|...|.++   +.+|.++..|-.
T Consensus        28 ~iIGi~-G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~Ddf   69 (286)
T d1odfa_          28 LFIFFS-GPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   69 (286)
T ss_dssp             EEEEEE-CCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             EEEEeE-CCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCC
Confidence            477776 889999999999999888753   467999988764

>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=94.31  E-value=0.016  Score=47.59  Aligned_cols=26  Identities=31%  Similarity=0.350  Sum_probs=21.9

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      .+++|+|. |.+|+||||+|..||..+
T Consensus         5 kp~iI~i~-G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           5 KPNVVFVL-GGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCEEEEEE-ESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEE-CCCCCCHHHHHHHHHHHH
Confidence            45677777 889999999999999876

>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=94.17  E-value=0.015  Score=46.51  Aligned_cols=24  Identities=25%  Similarity=0.329  Sum_probs=20.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      ..|+++ |..|+||||++-.||..|
T Consensus         6 ~~I~i~-G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           6 INILIT-GTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             CEEEEE-CSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEE-eCCCCCHHHHHHHHHHHh
Confidence            467777 999999999999888765

>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=94.11  E-value=0.17  Score=40.43  Aligned_cols=90  Identities=10%  Similarity=0.090  Sum_probs=54.0

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+.|+|+|+.-....+.......+|.+++|... +..+...+...+..+.+.   ....+.++.|+.+.....    
T Consensus        54 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~~~----  129 (177)
T d1x3sa1          54 NKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENRE----  129 (177)
T ss_dssp             EEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCC----
T ss_pred             cccEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCccccccchhhhhhhcccccccceeeEEEeecccccccc----
Confidence            467889999975322111111224456888888774 446667777777766543   234567888997754321    


Q ss_pred             ccCCChHHHHHHHhCCCeE
Q 016622          355 PFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl  373 (386)
                       .......++++..+++++
T Consensus       130 -v~~~~~~~~~~~~~~~~~  147 (177)
T d1x3sa1         130 -VDRNEGLKFARKHSMLFI  147 (177)
T ss_dssp             -SCHHHHHHHHHHTTCEEE
T ss_pred             -ccHHHHHHHHHHCCCEEE
Confidence             112345677888887654

>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=94.09  E-value=0.61  Score=36.63  Aligned_cols=90  Identities=16%  Similarity=0.137  Sum_probs=45.0

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHc-------CCCCeEEEEEcCCcCCCCCc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSK-------LKVPCIAVVENMCHFDADGK  351 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~-------~~~~i~gvVlN~~~~~~~~~  351 (386)
                      ...+.+.|+++.-............+|.+++|.... ..++..+....+.+.+       .++++ -+|.|+++......
T Consensus        51 ~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~pi-ilv~nK~Dl~~~~~  129 (175)
T d1ky3a_          51 VATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPF-VILGNKIDAEESKK  129 (175)
T ss_dssp             CEEEEEECCC----------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCE-EEEEECTTSCGGGC
T ss_pred             cccceeeccCCchhhhhHHHHHhhccceEEEEeecccccccchhhhcchhhhhhhhhcccccCcE-EEEecccchhhhhc
Confidence            345677888753221122222233468888886654 4456666555544432       14455 48899998543110


Q ss_pred             eecccCCChHHHHHHHhC-CCeE
Q 016622          352 RYYPFGRGSGSQVVQQFG-IPHL  373 (386)
Q Consensus       352 ~~~~~~~~~~~~i~~~~g-~pvl  373 (386)
                         .......+++++.++ .+++
T Consensus       130 ---~v~~~~~~~~~~~~~~~~~~  149 (175)
T d1ky3a_         130 ---IVSEKSAQELAKSLGDIPLF  149 (175)
T ss_dssp             ---CSCHHHHHHHHHHTTSCCEE
T ss_pred             ---chhHHHHHHHHHHcCCCeEE
Confidence               011134567777876 5554

>d1e8ca3 c.72.2.1 (A:104-337) UDP-N-acetylmuramyl tripeptide synthetase MurE {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-N-acetylmuramyl tripeptide synthetase MurE
species: Escherichia coli [TaxId: 562]

Probab=94.03  E-value=0.034  Score=46.76  Aligned_cols=34  Identities=26%  Similarity=0.256  Sum_probs=30.4

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEE
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIF  208 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllI  208 (386)
                      ..++|+|+   |-.||||++..|+..|...|+++.++
T Consensus         4 ~~~vI~IT---GT~GKTTt~~~l~~iL~~~g~~~~~~   37 (234)
T d1e8ca3           4 NLRLVGVT---GTNGKTTTTQLLAQWSQLLGEISAVM   37 (234)
T ss_dssp             SSEEEEEE---SSSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCeEEEEE---CCCcHHHHHHHHHHHHHHCCCCeEEE
Confidence            45799999   55699999999999999999999886

>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=93.97  E-value=0.018  Score=46.20  Aligned_cols=30  Identities=37%  Similarity=0.520  Sum_probs=24.1

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      |.++ |-.|+||||++..||..|   |..  ++|+|
T Consensus         4 Ivli-G~~G~GKSTig~~La~~l---~~~--fiD~D   33 (165)
T d2iyva1           4 AVLV-GLPGSGKSTIGRRLAKAL---GVG--LLDTD   33 (165)
T ss_dssp             EEEE-CSTTSSHHHHHHHHHHHH---TCC--EEEHH
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHh---CCC--eEeec
Confidence            4555 889999999999999888   544  56887

>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=93.96  E-value=0.11  Score=41.90  Aligned_cols=46  Identities=13%  Similarity=0.050  Sum_probs=34.1

Q ss_pred             hcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          302 VVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       302 ~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      +..+|.+++|+................++..+.+++ +|+|+++...
T Consensus        89 ~~~~dvii~v~d~~~~~~~~~~~~~~~~~~~~~~~i-~v~nK~D~~~  134 (186)
T d1mkya2          89 IEKADVVVIVLDATQGITRQDQRMAGLMERRGRASV-VVFNKWDLVV  134 (186)
T ss_dssp             HHHCSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEE-EEEECGGGST
T ss_pred             HhcCCEEEEeecccccchhhHHHHHHHHHHcCCcee-eeccchhhhc
Confidence            344688898988877666677777888888887764 7789988543

>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=93.93  E-value=0.022  Score=47.49  Aligned_cols=34  Identities=35%  Similarity=0.550  Sum_probs=26.7

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      |+.+|++| |.-|+||||++-    .|.+.|..|  +|+|-
T Consensus         1 M~~iIgIT-G~igSGKStv~~----~l~~~G~~v--idaD~   34 (205)
T d1jjva_           1 MTYIVGLT-GGIGSGKTTIAN----LFTDLGVPL--VDADV   34 (205)
T ss_dssp             CCEEEEEE-CSTTSCHHHHHH----HHHTTTCCE--EEHHH
T ss_pred             CcEEEEEE-CCCCCCHHHHHH----HHHHCCCeE--EEchH
Confidence            56799999 888999999754    556778766  68874

>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=93.81  E-value=0.018  Score=46.09  Aligned_cols=31  Identities=35%  Similarity=0.317  Sum_probs=24.7

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      .|.++ |-.|+||||++..||..|   |.  -++|+|
T Consensus         2 ~I~li-G~~GsGKsTi~k~La~~l---~~--~~~d~d   32 (161)
T d1viaa_           2 NIVFI-GFMGSGKSTLARALAKDL---DL--VFLDSD   32 (161)
T ss_dssp             CEEEE-CCTTSCHHHHHHHHHHHH---TC--EEEEHH
T ss_pred             cEEEE-CCCCCCHHHHHHHHHHHh---CC--CEEecC
Confidence            35666 789999999999999988   44  456876

>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=93.79  E-value=0.068  Score=40.50  Aligned_cols=37  Identities=16%  Similarity=0.250  Sum_probs=31.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHC--CCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM--GARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~--G~rVllID~D  211 (386)
                      -+|.++ +-.|+||+|+|..|-..|.+.  |++|-++|-|
T Consensus         7 f~i~~t-g~~~~gk~~ia~al~~~l~q~~G~R~vtll~~~   45 (122)
T d1g8fa3           7 FSIVLG-NSLTVSREQLSIALLSTFLQFGGGRYYKIFEHN   45 (122)
T ss_dssp             EEEEEC-TTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCT
T ss_pred             eEEEEe-CCCCCCHHHHHHHHHHHHHHhcCCcceEEecCC
Confidence            366666 889999999999999999874  6999999888

>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=93.76  E-value=0.38  Score=37.56  Aligned_cols=91  Identities=13%  Similarity=0.076  Sum_probs=52.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHcC--CCCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSKL--KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~~--~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+-|.|+++.-............+|.+++|... +..++..+.+.+..+.+.  ....+-+|.|+.+.......   
T Consensus        47 ~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~---  123 (164)
T d1yzqa1          47 RTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQV---  123 (164)
T ss_dssp             CEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCS---
T ss_pred             CceeeeecccCCcchhccchHHHhhccceEEEeeccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhhhh---
Confidence            345677888875432222222224457888887665 445666666666555432  22345688899986432111   


Q ss_pred             cCCChHHHHHHHhCCCeE
Q 016622          356 FGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl  373 (386)
                       ......++++..+++++
T Consensus       124 -~~~~~~~~~~~~~~~~~  140 (164)
T d1yzqa1         124 -SIEEGERKAKELNVMFI  140 (164)
T ss_dssp             -CHHHHHHHHHHTTCEEE
T ss_pred             -hHHHHHHHHHHcCCEEE
Confidence             11356778888887764

>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=93.74  E-value=0.018  Score=45.82  Aligned_cols=28  Identities=29%  Similarity=0.349  Sum_probs=22.0

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEE
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVG  206 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVl  206 (386)
                      .|.++ |-.|+||||+|..||..+   |++++
T Consensus         6 ~I~i~-G~pGsGKTTia~~La~~l---~~~~i   33 (173)
T d1rkba_           6 NILLT-GTPGVGKTTLGKELASKS---GLKYI   33 (173)
T ss_dssp             CEEEE-CSTTSSHHHHHHHHHHHH---CCEEE
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHH---CCcEE
Confidence            45566 889999999999998766   66653

>d1veha_ d.52.8.1 (A:) HIRA-interacting protein 5, HIRIP5 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: NifU C-terminal domain-like
domain: HIRA-interacting protein 5, HIRIP5
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.70  E-value=0.023  Score=41.09  Aligned_cols=73  Identities=19%  Similarity=0.247  Sum_probs=54.6

Q ss_pred             CCCcccHHHHHHHhccCCCCCCCCCccccCCeeEEEEecCCCeEEEEEEeCCCCCCchHH-HHHHHHHHhhc-CCCccee
Q 016622           71 VSTGTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDM-FEQRANEVVLA-IPWVNKV  148 (386)
Q Consensus        71 ~~~~~~~~~i~~~L~~V~dPe~~~div~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~-i~~~i~e~l~~-l~gv~~v  148 (386)
                      +..+...+.|.+.|++-..|-+.   -+-|-|.-+.+++  +.|.|.|.-.+.+||.... +...|+..|+. +|+++.|
T Consensus         9 ~~d~e~~~~I~~vL~~~IrP~l~---~dGGdv~lv~v~~--g~V~v~l~GaC~gCp~s~~Tlk~~Ie~~L~~~vpev~~V   83 (92)
T d1veha_           9 EEDDEVVAMIKELLDTRIRPTVQ---EDGGDVIYRGFED--GIVRLKLQGSCTSCPSSIITLKSGIQNMLQFYIPEVEGV   83 (92)
T ss_dssp             SSCCHHHHHHHHHHHHTTHHHHH---HHSCCCCEEEEET--TEEEECCCCCCCCCHHHHHHTHHHHHHHHHHHCSSCCCE
T ss_pred             CccHHHHHHHHHHHHHhcChHHH---HcCCceEEEEeeC--CeEEEEEccCCCCChhHHHHHHHHHHHHHHHHCCCcceE
Confidence            34555777888888877777654   3456777778877  8999999999999997754 56677777754 6777665

>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=93.68  E-value=0.074  Score=43.02  Aligned_cols=91  Identities=12%  Similarity=0.168  Sum_probs=50.6

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceecc
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      .+.+-+.|+++.-....+....+..+|.+++|..... .++..+......+...   ....+-+|.|+.+.......   
T Consensus        63 ~~~~~i~dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v---  139 (186)
T d2f7sa1          63 KVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREV---  139 (186)
T ss_dssp             EEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCS---
T ss_pred             eEEeccccCCcchhhHHHHHHHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcc---
Confidence            3567788886422111122222446799998877654 3444444444333322   22346688899886432211   


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       ....+.++++.+|++++.
T Consensus       140 -~~~e~~~~~~~~~~~~~e  157 (186)
T d2f7sa1         140 -NERQARELADKYGIPYFE  157 (186)
T ss_dssp             -CHHHHHHHHHHTTCCEEE
T ss_pred             -hHHHHHHHHHHcCCEEEE
Confidence             113467888888987754

>d1s1ma2 c.37.1.10 (A:1-266) CTP synthase PyrG, 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: CTP synthase PyrG, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=93.67  E-value=0.63  Score=39.58  Aligned_cols=44  Identities=30%  Similarity=0.352  Sum_probs=37.8

Q ss_pred             ceEEEEEeC-cCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCC
Q 016622          173 SNIVAVSSC-KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPS  216 (386)
Q Consensus       173 ~kvI~v~s~-kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~s  216 (386)
                      +|-|.|+++ -.|.||=.+|+.++..|..+|++|-.+.+||+-+-
T Consensus         3 tkyifvtGGV~S~lGKGi~~aSig~llk~~g~~V~~~K~DPYlNv   47 (266)
T d1s1ma2           3 TNYIFVTGGVVSSLGKGIAAASLAAILEARGLNVTIMKLDPYINV   47 (266)
T ss_dssp             CEEEEEEECSSSCSCHHHHHHHHHHHHHTTTCCEEEEEEECCSCS
T ss_pred             ceEEEEeCCcccccchHHHHHHHHHHHHhCCceeEEEecccceec
Confidence            456777655 47999999999999999999999999999998643

>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=93.60  E-value=0.34  Score=37.81  Aligned_cols=68  Identities=6%  Similarity=0.021  Sum_probs=38.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeC-CCcchHHHHHHHHHHH-Hc---CCCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTT-PQKLAFIDVAKGVRMF-SK---LKVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~-~~~~s~~~~~~~~~~l-~~---~~~~i~gvVlN~~~~~  347 (386)
                      ..+.+.++|+|+..............++.+++|.. .+..+..++...+..+ ..   .+.+ +-+|.|+.+..
T Consensus        44 ~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p-~iiv~nK~Dl~  116 (165)
T d1ksha_          44 RGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGAT-LLIFANKQDLP  116 (165)
T ss_dssp             TTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCE-EEEEEECTTST
T ss_pred             cccceeeeecCcchhhhhHHHhhhhhhhcceeeeecccchhHHHHHHhhhhhhhhcccCCCc-eEEEEeccccc
Confidence            56788999998522111111122334688887775 5555666666555433 22   2344 55888998853

>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=93.53  E-value=0.32  Score=37.98  Aligned_cols=91  Identities=12%  Similarity=0.123  Sum_probs=53.2

Q ss_pred             CCCcEEEEcCCCCCChHHH-hhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc-C---CCCeEEEEEcCCcCCCCCce
Q 016622          279 GELDYLVIDMPPGTGDIQL-TLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK-L---KVPCIAVVENMCHFDADGKR  352 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~-~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~-~---~~~i~gvVlN~~~~~~~~~~  352 (386)
                      ..+.+.+.|++........ .-.....+|.+++|..... .++..+...+..+.+ .   +++ +-+|.|+.+.......
T Consensus        49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-i~lvgnK~Dl~~~~~v  127 (165)
T d1z06a1          49 ERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIP-RILVGNKCDLRSAIQV  127 (165)
T ss_dssp             EEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCC-EEEEEECTTCGGGCCS
T ss_pred             cceEEEEEeccCchhhccccceeeecCCCceEEEEEeehhhhhhhhhhhhHHHHhhccCCCCe-EEEEeccccchhccch
Confidence            4566778887753221111 1112346788888876544 567777666655543 2   344 5588999886443211


Q ss_pred             ecccCCChHHHHHHHhCCCeEE
Q 016622          353 YYPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       353 ~~~~~~~~~~~i~~~~g~pvl~  374 (386)
                          .....+++++.++++++.
T Consensus       128 ----~~~~~~~~~~~~~~~~~e  145 (165)
T d1z06a1         128 ----PTDLAQKFADTHSMPLFE  145 (165)
T ss_dssp             ----CHHHHHHHHHHTTCCEEE
T ss_pred             ----hHHHHHHHHHHCCCEEEE
Confidence                123567888999988753

>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=93.52  E-value=0.23  Score=39.07  Aligned_cols=91  Identities=13%  Similarity=0.199  Sum_probs=53.2

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      ..+.+-+.|+++..............+|.+++|... +..++..+......+.+    .+.+ +-+|.|+++....... 
T Consensus        49 ~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilvgnK~Dl~~~~~~-  126 (167)
T d1kaoa_          49 SPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVP-VILVGNKVDLESEREV-  126 (167)
T ss_dssp             EEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCC-EEEEEECGGGGGGCCS-
T ss_pred             ceEeeccccCCCccccccchHHHhhcccceeeeeeecchhhhhhhhchhhhhhhhccCCCCC-EEEEEEccchhhcccc-
Confidence            345678889876444333322224456888887664 44566676666655433    2344 4588899985432111 


Q ss_pred             cccCCChHHHHHHHhCCCeEE
Q 016622          354 YPFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~pvl~  374 (386)
                         .......+++..+++++.
T Consensus       127 ---~~~~~~~~~~~~~~~~~e  144 (167)
T d1kaoa_         127 ---SSSEGRALAEEWGCPFME  144 (167)
T ss_dssp             ---CHHHHHHHHHHHTSCEEE
T ss_pred             ---hHHHHHHHHHHcCCeEEE
Confidence               113566778888887653

>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=93.25  E-value=0.29  Score=39.16  Aligned_cols=69  Identities=13%  Similarity=0.051  Sum_probs=40.1

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC-------CCCeEEEEEcCCcCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL-------KVPCIAVVENMCHFDA  348 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~-------~~~i~gvVlN~~~~~~  348 (386)
                      ..+.+.+.|+++..............+|.++++.... ..+...+.+.++.+.+.       ++++ -+|.|+++...
T Consensus        49 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~-ilv~nK~Dl~~  125 (184)
T d1vg8a_          49 RLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPF-VVLGNKIDLEN  125 (184)
T ss_dssp             CEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCE-EEEEECTTSSC
T ss_pred             ceEEEEeeecCCcccccccccccccCccEEEEeecccchhhhhcchhhHHHHHHHhccccccCCCE-EEEEEeecccc
Confidence            4567788898753322222222344578888887764 45566666555444321       3444 48889998543

>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=93.08  E-value=0.033  Score=46.93  Aligned_cols=29  Identities=14%  Similarity=0.126  Sum_probs=23.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGA  203 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~  203 (386)
                      .++.|+ |-+|+|||+++.++|..++..|+
T Consensus        35 ~l~~i~-G~~G~GKT~~~l~~a~~~~~~~~   63 (258)
T d2i1qa2          35 SVTEFA-GVFGSGKTQIMHQSCVNLQNPEF   63 (258)
T ss_dssp             EEEEEE-ESTTSSHHHHHHHHHHHTTCGGG
T ss_pred             eEEEEE-eCCCCCHHHHHHHHHHHHHhcCC
Confidence            355554 99999999999999999986544

>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=93.04  E-value=0.64  Score=36.61  Aligned_cols=89  Identities=9%  Similarity=0.064  Sum_probs=50.0

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc-------CCCCeEEEEEcCCcCCCCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK-------LKVPCIAVVENMCHFDADG  350 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~-------~~~~i~gvVlN~~~~~~~~  350 (386)
                      ..+.+.+.|+++........-.....+|.++++..... .++..+...++.+.+       .+.+++ +|.|+++.....
T Consensus        53 ~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~pii-lVgnK~Dl~~~~  131 (174)
T d1wmsa_          53 HFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFV-ILGNKIDISERQ  131 (174)
T ss_dssp             EEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEE-EEEECTTCSSCS
T ss_pred             ceeeEeeecccCcceehhhhhhhhhccceEEEEEeeecccccchhhhHHHHHHHHhccccCCCceEE-Eeccccchhhcc
Confidence            35677889987644333333333445788888876543 456655554444322       145544 888999864311


Q ss_pred             ceecccCCChHHHHHHHhC-CCeE
Q 016622          351 KRYYPFGRGSGSQVVQQFG-IPHL  373 (386)
Q Consensus       351 ~~~~~~~~~~~~~i~~~~g-~pvl  373 (386)
                           ......+++++..+ .+++
T Consensus       132 -----v~~~~~~~~~~~~~~~~~~  150 (174)
T d1wmsa_         132 -----VSTEEAQAWCRDNGDYPYF  150 (174)
T ss_dssp             -----SCHHHHHHHHHHTTCCCEE
T ss_pred             -----CcHHHHHHHHHHcCCCeEE
Confidence                 11234566776654 5654

>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=93.00  E-value=0.047  Score=45.36  Aligned_cols=39  Identities=26%  Similarity=0.356  Sum_probs=32.0

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +|-|+|- |--|+||||.+-.|+..|...|.++.++---|
T Consensus         2 gkfIviE-G~dGsGKsT~~~~L~~~L~~~g~~~~~~~~ep   40 (210)
T d4tmka_           2 SKYIVIE-GLEGAGKTTARNVVVETLEQLGIRDMVFTREP   40 (210)
T ss_dssp             CCEEEEE-ECTTSCHHHHHHHHHHHHHHTTCCCEEEEESS
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHHHHhCCCCeEEEecCC
Confidence            3577776 88899999999999999999998876665444

>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=92.98  E-value=0.16  Score=40.46  Aligned_cols=90  Identities=10%  Similarity=0.096  Sum_probs=49.4

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHcC---CCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSKL---KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~~---~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+-|.|+++.-............+|.+++|... +..++..+.+.+..+.+.   +++ +-+|.|+++........ 
T Consensus        51 ~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i~v~d~~~~~S~~~~~~~~~~i~~~~~~~~p-iilvgnK~Dl~~~~~~~-  128 (175)
T d2f9la1          51 KTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIV-IMLVGNKSDLRHLRAVP-  128 (175)
T ss_dssp             EEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECTTCGGGCCSC-
T ss_pred             EEEEEEecccCCcHHHHHHHHHHhhccCeEEEEEECCCcccchhHHHHHHHHHHhcCCCCc-EEEEEeeecccccccch-
Confidence            346778889875321111111224456888877665 445677777777666543   233 55788999864321111 


Q ss_pred             ccCCChHHHHHHHhCCCeE
Q 016622          355 PFGRGSGSQVVQQFGIPHL  373 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl  373 (386)
                         ........+..+.+++
T Consensus       129 ---~~~~~~~~~~~~~~~~  144 (175)
T d2f9la1         129 ---TDEARAFAEKNNLSFI  144 (175)
T ss_dssp             ---HHHHHHHHHHTTCEEE
T ss_pred             ---HHHHHHhhcccCceEE
Confidence               1234555556665554

>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=92.97  E-value=0.47  Score=37.24  Aligned_cols=95  Identities=18%  Similarity=0.176  Sum_probs=55.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHc--CCCCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRMFSK--LKVPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~l~~--~~~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+++-|.|+++.-....+.-..+..+|.+++|... +..+...+.........  ......-+|.|+++........ .
T Consensus        50 ~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~-~  128 (170)
T d1ek0a_          50 HTVKFEIWDTAGQERFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGER-K  128 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCC-C
T ss_pred             ccccccccccCCchhHHHHHHHHHhccceEEEEEeCCcccchhhhhhhhhhhccccccccceeeeecccccccccchh-h
Confidence            457889999986433222222335567888888654 44566666666654433  2344566888998754321110 1


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                      .......++++..+++++.
T Consensus       129 v~~~~~~~~~~~~~~~~~e  147 (170)
T d1ek0a_         129 VAREEGEKLAEEKGLLFFE  147 (170)
T ss_dssp             SCHHHHHHHHHHHTCEEEE
T ss_pred             hhHHHHHHHHHHcCCEEEE
Confidence            1223567888888887654

>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=92.84  E-value=0.052  Score=45.99  Aligned_cols=40  Identities=20%  Similarity=0.067  Sum_probs=31.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHC------CCcEEEEEcCCCC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGM------GARVGIFDADVYG  214 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~------G~rVllID~D~~~  214 (386)
                      .+.+..|-+|+||||++.++|...+.+      |.+++.+++....
T Consensus        37 ~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (254)
T d1pzna2          37 AITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTF   82 (254)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCC
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchh
Confidence            455555999999999999999988743      6788888886543

>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=92.77  E-value=1.1  Score=35.19  Aligned_cols=83  Identities=8%  Similarity=0.057  Sum_probs=49.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc---CCCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK---LKVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~---~~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+.+.|+|+..............++.+++|...+. .+...+...+....+   .....+.+|.|+.+....     
T Consensus        54 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~-----  128 (173)
T d1e0sa_          54 KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDA-----  128 (173)
T ss_dssp             TTEEEEEEEESCCGGGHHHHGGGTTTCCEEEEEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC-----
T ss_pred             cceeeEEecCCCcchhhhHHHhhhcccceEEEEEecccchhHHHHHHHHHHHhhhcccccceeeeeeeccccccc-----
Confidence            56788999998644333333333556789998887655 456666655544322   123456689999885432     


Q ss_pred             ccCCChHHHHHHHhCC
Q 016622          355 PFGRGSGSQVVQQFGI  370 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~  370 (386)
                          ....++.+.+++
T Consensus       129 ----~~~~~i~~~~~~  140 (173)
T d1e0sa_         129 ----MKPHEIQEKLGL  140 (173)
T ss_dssp             ----CCHHHHHHHTTG
T ss_pred             ----ccHHHHHHHHHH
Confidence                234556666553

>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=92.54  E-value=0.47  Score=37.04  Aligned_cols=82  Identities=9%  Similarity=0.092  Sum_probs=46.6

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHc----CCCCeEEEEEcCCcCCCCCcee
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSK----LKVPCIAVVENMCHFDADGKRY  353 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~----~~~~i~gvVlN~~~~~~~~~~~  353 (386)
                      +.+.+.++|+|+..............++.+++|.... ..++..+...+..+.+    .+.+ +-+|.|+.+....    
T Consensus        45 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p-i~lv~nK~Dl~~~----  119 (164)
T d1zd9a1          45 GNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIP-VLVLGNKRDLPGA----  119 (164)
T ss_dssp             TTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCC-EEEEEECTTSTTC----
T ss_pred             eeEEEEEeeccccccccccccccccccchhhcccccccccccchhhhhhhhhhhhhcccCCc-EEEEEeccccchh----
Confidence            4567889999753221111111244578888887654 4566766666554433    2445 4488899875321    


Q ss_pred             cccCCChHHHHHHHhCC
Q 016622          354 YPFGRGSGSQVVQQFGI  370 (386)
Q Consensus       354 ~~~~~~~~~~i~~~~g~  370 (386)
                           ...+++.+.++.
T Consensus       120 -----~~~~~i~~~~~~  131 (164)
T d1zd9a1         120 -----LDEKELIEKMNL  131 (164)
T ss_dssp             -----CCHHHHHHHTTG
T ss_pred             -----hhHHHHHHHHHH
Confidence                 234556666653

>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=92.52  E-value=0.53  Score=36.80  Aligned_cols=89  Identities=15%  Similarity=0.192  Sum_probs=50.9

Q ss_pred             CCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHcC----CCCeEEEEEcCCcCCCCCceec
Q 016622          280 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFSKL----KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       280 ~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~~~----~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      .+.+-+.|++.........-.....++.+++|...+ ..+...+.+.+..+.+.    +.+ +-+|.|+++.....    
T Consensus        50 ~~~l~~~d~~~~~~~~~~~~~~~~~~~~~iiv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl~~~~----  124 (166)
T d1ctqa_          50 TCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVP-MVLVGNKCDLAART----  124 (166)
T ss_dssp             EEEEEEEEECCCGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSSCC-EEEEEECTTCSCCC----
T ss_pred             eeeeeeeeccCccccccchhhhhhcccccceeecccccccHHHHHHHHHHHHHhcCCCCCe-EEEEeccccccccc----
Confidence            455667777643322222122233457777776654 45666677666665442    344 55889998854321    


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                       .....++++++.++++++.
T Consensus       125 -~~~~~~~~~~~~~~~~~~e  143 (166)
T d1ctqa_         125 -VESRQAQDLARSYGIPYIE  143 (166)
T ss_dssp             -SCHHHHHHHHHHHTCCEEE
T ss_pred             -ccHHHHHHHHHHhCCeEEE
Confidence             1123567888888987653

>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=92.38  E-value=0.15  Score=39.71  Aligned_cols=79  Identities=13%  Similarity=0.092  Sum_probs=43.0

Q ss_pred             CCCcEEEEcCCCCCCh---------HHHhhhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHcCCCCeEEEEEcCCcCCCC
Q 016622          279 GELDYLVIDMPPGTGD---------IQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCHFDAD  349 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~---------~~~~~~~~~~~d~vviV~~~~~~s~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~~  349 (386)
                      ..+.+.++|+|+-..+         .......+..+|.+++|+.++.............+..   ...-+++|+.+....
T Consensus        46 ~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~ii~v~d~~~~~~~~~~~~~~~~~~---~~~i~~~~k~d~~~~  122 (160)
T d1xzpa2          46 RGILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKILERIKN---KRYLVVINKVDVVEK  122 (160)
T ss_dssp             TTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEEEETTSCCCHHHHHHHHHHTT---SSEEEEEEECSSCCC
T ss_pred             CCeeEEeccccccccCCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCcchhhhhhhhhccc---ccceeeeeeccccch
Confidence            3455677777752110         1122222445688888887776554444444444432   334577888775432


Q ss_pred             CceecccCCChHHHHHHHhC
Q 016622          350 GKRYYPFGRGSGSQVVQQFG  369 (386)
Q Consensus       350 ~~~~~~~~~~~~~~i~~~~g  369 (386)
                               ...+++.+.++
T Consensus       123 ---------~~~~~~~~~~~  133 (160)
T d1xzpa2         123 ---------INEEEIKNKLG  133 (160)
T ss_dssp             ---------CCHHHHHHHHT
T ss_pred             ---------hhhHHHHHHhC
Confidence                     33566666665

>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=92.34  E-value=0.75  Score=36.00  Aligned_cols=92  Identities=10%  Similarity=0.125  Sum_probs=49.5

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHc-CC-CCeEEEEEcCCcCCCCCceecc
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVAKGVRMFSK-LK-VPCIAVVENMCHFDADGKRYYP  355 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~~~~~~l~~-~~-~~i~gvVlN~~~~~~~~~~~~~  355 (386)
                      ..+.+-|+||++.-....+.......+|.+++|..... .+...+........+ .+ ...+-+|.|+.+.......   
T Consensus        54 ~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~v---  130 (170)
T d2g6ba1          54 VKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVV---  130 (170)
T ss_dssp             EEEEEEEEECCCC--------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCS---
T ss_pred             cEEEEEEEECCCchhhHHHHHHhhcCCceeEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhcccc---
Confidence            34667899998643222222222445788888876543 445555555544432 22 2345567788775543221   


Q ss_pred             cCCChHHHHHHHhCCCeEE
Q 016622          356 FGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       356 ~~~~~~~~i~~~~g~pvl~  374 (386)
                       ....+..+++..+++++.
T Consensus       131 -~~~~~~~~~~~~~~~~~e  148 (170)
T d2g6ba1         131 -KREDGEKLAKEYGLPFME  148 (170)
T ss_dssp             -CHHHHHHHHHHHTCCEEE
T ss_pred             -cHHHHHHHHHHcCCEEEE
Confidence             123566788888887653

>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=92.31  E-value=0.045  Score=46.93  Aligned_cols=38  Identities=16%  Similarity=0.262  Sum_probs=28.8

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      ++.|.++ |-+|+||||+|..||..+   +...+.+++|...
T Consensus        32 P~~ilL~-GpPGtGKT~la~~la~~~---~~~~~~i~~d~~~   69 (273)
T d1gvnb_          32 PTAFLLG-GQPGSGKTSLRSAIFEET---QGNVIVIDNDTFK   69 (273)
T ss_dssp             CEEEEEE-CCTTSCTHHHHHHHHHHT---TTCCEEECTHHHH
T ss_pred             CEEEEEE-CCCCCCHHHHHHHHHHHh---hcceEEEecHHHH
Confidence            3556666 999999999998888765   5667888876544

>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=92.18  E-value=0.045  Score=45.68  Aligned_cols=23  Identities=35%  Similarity=0.369  Sum_probs=20.0

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      +|+|. |..|+||||+|..||..|
T Consensus         5 ~IaId-Gp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           5 QIAID-GPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             EEEEE-CSSCSSHHHHHHHHHHHH
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHh
Confidence            46655 999999999999999988

>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=92.18  E-value=0.055  Score=47.29  Aligned_cols=26  Identities=23%  Similarity=0.196  Sum_probs=21.5

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      ..++|+++ |-||+||||+|.++....
T Consensus        43 ~~~~v~I~-GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          43 DSFFLFLH-GRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             SSEEEEEE-CSTTSSHHHHHHHHHHHC
T ss_pred             CceEEEEE-CCCCCCHHHHHHHHHHhh
Confidence            34688888 899999999999987653

>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=92.13  E-value=0.054  Score=44.38  Aligned_cols=33  Identities=21%  Similarity=0.181  Sum_probs=25.2

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      ..++|.|. |-+|+||||+|..||..+   |  ...|+.
T Consensus         7 ~~~iI~i~-GppGSGKsT~a~~La~~~---g--~~~is~   39 (196)
T d1ukza_           7 QVSVIFVL-GGPGAGKGTQCEKLVKDY---S--FVHLSA   39 (196)
T ss_dssp             TCEEEEEE-CSTTSSHHHHHHHHHHHS---S--CEEEEH
T ss_pred             CCcEEEEE-CCCCCCHHHHHHHHHHHh---C--CeEEeh
Confidence            34678887 888999999999998866   3  345654

>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=92.00  E-value=0.056  Score=44.83  Aligned_cols=26  Identities=27%  Similarity=0.503  Sum_probs=22.5

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      ++.+|+|. |-.|+||||+|..||..+
T Consensus         2 ~~piI~I~-GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           2 IAPVITID-GPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             CSCEEEEE-CCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEE-CCCCCCHHHHHHHHHHHh
Confidence            34588776 999999999999999988

>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=91.92  E-value=0.062  Score=43.79  Aligned_cols=24  Identities=25%  Similarity=0.237  Sum_probs=20.6

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      .+|+|. |-+|+||||.|..||..+
T Consensus         2 ~iI~i~-GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           2 LVVFVL-GGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEEE-CCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEE-CCCCCCHHHHHHHHHHHh
Confidence            477777 669999999999999876

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=91.85  E-value=0.13  Score=44.20  Aligned_cols=20  Identities=40%  Similarity=0.554  Sum_probs=16.3

Q ss_pred             eEEEEEeCcCCCCHHHHHHHH
Q 016622          174 NIVAVSSCKGGVGKSTVAVNL  194 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~L  194 (386)
                      -.|++. |+.|+||||+.=.|
T Consensus        33 l~I~Lv-G~tg~GKSSliN~i   52 (257)
T d1h65a_          33 LTILVM-GKGGVGKSSTVNSI   52 (257)
T ss_dssp             EEEEEE-ESTTSSHHHHHHHH
T ss_pred             cEEEEE-CCCCCcHHHHHHHH
Confidence            367777 99999999987655

>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=91.71  E-value=0.044  Score=46.04  Aligned_cols=40  Identities=23%  Similarity=0.125  Sum_probs=31.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHH------HCCCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLA------GMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La------~~G~rVllID~D~~~  214 (386)
                      +++.|+ |-.|+||||++.++|...+      ..|.+++++|.....
T Consensus        35 ~~~li~-G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~   80 (251)
T d1szpa2          35 SITELF-GEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTF   80 (251)
T ss_dssp             SEEEEE-ESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCC
T ss_pred             eEEEEE-cCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchH
Confidence            355555 9999999999999987654      347889999987654

>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=91.70  E-value=0.95  Score=35.77  Aligned_cols=83  Identities=17%  Similarity=0.156  Sum_probs=43.8

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCC-CcchHHHHHHHHHH-HHcC--CCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTP-QKLAFIDVAKGVRM-FSKL--KVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~-~~~s~~~~~~~~~~-l~~~--~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      +.+.+.++|+++..............+|.+++|... +..+...+...+.. ++..  ....+-+|.|+++....     
T Consensus        59 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~-----  133 (182)
T d1moza_          59 KNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA-----  133 (182)
T ss_dssp             TTEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC-----
T ss_pred             CCEEEEEEecccccccchhHHhhhccceeEEEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeeccccc-----
Confidence            456788999976432111112223345777777654 44566666655543 3332  22345588899885321     


Q ss_pred             ccCCChHHHHHHHhCC
Q 016622          355 PFGRGSGSQVVQQFGI  370 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~  370 (386)
                          ...+++.+.++.
T Consensus       134 ----~~~~~i~~~~~~  145 (182)
T d1moza_         134 ----LSASEVSKELNL  145 (182)
T ss_dssp             ----CCHHHHHHHTTT
T ss_pred             ----cCHHHHHHHHHH
Confidence                235667776653

>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=91.66  E-value=0.11  Score=43.58  Aligned_cols=35  Identities=23%  Similarity=0.180  Sum_probs=31.4

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +.++ |..|+|||.++..++..+.++|++|+++++.
T Consensus        39 l~l~-G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~   73 (213)
T d1l8qa2          39 IFIY-GSVGTGKTHLLQAAGNEAKKRGYRVIYSSAD   73 (213)
T ss_dssp             EEEE-CSSSSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             EEEE-CCCCCcHHHHHHHHHHHhccCccceEEechH
Confidence            4455 9999999999999999999999999999875

>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=91.61  E-value=0.088  Score=43.74  Aligned_cols=34  Identities=44%  Similarity=0.622  Sum_probs=25.9

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      |..+|++| |.-|+||||++-    .|.+.|..  ++|+|-
T Consensus         2 mk~iIgit-G~igSGKStv~~----~l~~~G~~--vidaD~   35 (208)
T d1vhta_           2 LRYIVALT-GGIGSGKSTVAN----AFADLGIN--VIDADI   35 (208)
T ss_dssp             CCEEEEEE-CCTTSCHHHHHH----HHHHTTCE--EEEHHH
T ss_pred             CCEEEEEE-CCCcCCHHHHHH----HHHHCCCc--EEEchH
Confidence            33489999 778999999875    46778875  568875

>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=91.31  E-value=0.13  Score=43.27  Aligned_cols=71  Identities=13%  Similarity=0.116  Sum_probs=49.8

Q ss_pred             CCCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCcch-------HHHHHHHHHHHHcCCCCeEEEEEcCCcCCC
Q 016622          278 WGELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLA-------FIDVAKGVRMFSKLKVPCIAVVENMCHFDA  348 (386)
Q Consensus       278 ~~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~~s-------~~~~~~~~~~l~~~~~~i~gvVlN~~~~~~  348 (386)
                      +..+.+-|||||+-..-.......+..+|.+++|+.....-       ...+++.+..++.++++.+-+++|+.+...
T Consensus        78 ~~~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~~~~~iIv~iNK~D~~~  155 (224)
T d1jnya3          78 TKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTE  155 (224)
T ss_dssp             CSSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSS
T ss_pred             cCCceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHhCCCceEEEEEcccCCC
Confidence            46788999999964443333444466689999999887642       224566666777778876767899988653

>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=91.16  E-value=0.065  Score=43.92  Aligned_cols=33  Identities=15%  Similarity=0.275  Sum_probs=23.6

Q ss_pred             CCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          171 KISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       171 ~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      ++++++ +. |.+|+||||++..||..+   |  ...||.
T Consensus         5 r~mrIi-li-G~PGSGKtT~a~~La~~~---g--~~~is~   37 (189)
T d2ak3a1           5 RLLRAA-IM-GAPGSGKGTVSSRITKHF---E--LKHLSS   37 (189)
T ss_dssp             CCCEEE-EE-CCTTSSHHHHHHHHHHHB---C--CEEEEH
T ss_pred             cceeEE-EE-CCCCCCHHHHHHHHHHHH---C--CeEEcH
Confidence            345555 55 999999999999988754   4  344555

>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=91.14  E-value=0.067  Score=45.29  Aligned_cols=31  Identities=16%  Similarity=0.119  Sum_probs=22.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      |++|+++ |+-|+||||+|..|+-   +.|  ...+|
T Consensus         1 M~iIgiT-G~igSGKsTva~~l~e---~~g--~~~i~   31 (241)
T d1deka_           1 MKLIFLS-GVKRSGKDTTADFIMS---NYS--AVKYQ   31 (241)
T ss_dssp             CEEEEEE-CCTTSSHHHHHHHHHH---HSC--EEECC
T ss_pred             CEEEEEE-CCCCCCHHHHHHHHHH---hCC--CeEEc
Confidence            5799999 6679999998876644   235  45566

>d1gg4a4 c.72.2.1 (A:99-312) UDP-murNac-tripeptide D-alanyl-D-alanine-adding enzyme MurF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-murNac-tripeptide D-alanyl-D-alanine-adding enzyme MurF
species: Escherichia coli [TaxId: 562]

Probab=90.95  E-value=0.086  Score=43.40  Aligned_cols=32  Identities=28%  Similarity=0.377  Sum_probs=28.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGI  207 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVll  207 (386)
                      .|+|+|+   |--||||++..|+..|...|++|.+
T Consensus         2 ~kvI~VT---GTnGKTTt~~mi~~iL~~~g~~~~~   33 (214)
T d1gg4a4           2 ARVVALT---GSSGKTSVKEMTAAILSQCGNTLYT   33 (214)
T ss_dssp             CEEEEEE---CSSCHHHHHHHHHHHHTTTSCEEEC
T ss_pred             CCEEEEe---CCCcHHHHHHHHHHHHHhCCCCEEE
Confidence            3799999   5669999999999999999988865

>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=90.69  E-value=0.82  Score=35.79  Aligned_cols=91  Identities=14%  Similarity=0.117  Sum_probs=53.3

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHH---cCCCCeEEEEEcCCcCCCCCceec
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQ-KLAFIDVAKGVRMFS---KLKVPCIAVVENMCHFDADGKRYY  354 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~-~~s~~~~~~~~~~l~---~~~~~i~gvVlN~~~~~~~~~~~~  354 (386)
                      ..+.+-|+|+++....... ......+|.+++|.... ..+...+.+......   ......+-+|.|+++......   
T Consensus        48 ~~~~l~i~D~~g~~~~~~~-~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~---  123 (168)
T d2atva1          48 EVVSMEILDTAGQEDTIQR-EGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQ---  123 (168)
T ss_dssp             EEEEEEEEECCCCCCCHHH-HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCC---
T ss_pred             cceEEEEeecccccccccc-hhhhcccccceeecccCCccchhhhhhhcccccccccccCcceeeeccchhhhhhcc---
Confidence            4577889999864332221 12234468888886654 456666655444332   222334668999998643211   


Q ss_pred             ccCCChHHHHHHHhCCCeEE
Q 016622          355 PFGRGSGSQVVQQFGIPHLF  374 (386)
Q Consensus       355 ~~~~~~~~~i~~~~g~pvl~  374 (386)
                       .....++++++.++++++.
T Consensus       124 -V~~~e~~~~a~~~~~~~~e  142 (168)
T d2atva1         124 -VSTEEGEKLATELACAFYE  142 (168)
T ss_dssp             -SCHHHHHHHHHHHTSEEEE
T ss_pred             -CcHHHHHHHHHHhCCeEEE
Confidence             1123567888999987654

>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=90.66  E-value=0.12  Score=41.95  Aligned_cols=33  Identities=39%  Similarity=0.477  Sum_probs=25.0

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +.+|+|+ |..|+||||+|-.    |.+.|+.|  +++|-
T Consensus         3 p~IIgit-G~~gSGKstva~~----l~~~g~~~--~~~D~   35 (191)
T d1uf9a_           3 PIIIGIT-GNIGSGKSTVAAL----LRSWGYPV--LDLDA   35 (191)
T ss_dssp             CEEEEEE-ECTTSCHHHHHHH----HHHTTCCE--EEHHH
T ss_pred             CEEEEEE-CCCCCCHHHHHHH----HHHCCCeE--EEccH
Confidence            4589998 8889999998754    55778877  45553

>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=90.58  E-value=0.18  Score=42.64  Aligned_cols=38  Identities=16%  Similarity=0.104  Sum_probs=29.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHH-CCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAG-MGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~-~G~rVllID~D~  212 (386)
                      ..+.|+ |..|+||||++..++..+.. .+.++..+.+..
T Consensus        44 ~~lll~-GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~   82 (276)
T d1fnna2          44 PRATLL-GRPGTGKTVTLRKLWELYKDKTTARFVYINGFI   82 (276)
T ss_dssp             CEEEEE-CCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTT
T ss_pred             CceEEE-CCCCCCHHHHHHHHHHHHhcccCCcEEEecchh
Confidence            466666 99999999999999999974 456777776654

>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=90.55  E-value=0.076  Score=43.18  Aligned_cols=23  Identities=22%  Similarity=0.130  Sum_probs=19.3

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      .|.|. |..|+||||+|..||..+
T Consensus         5 ~I~i~-GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           5 KVMIS-GAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CEEEE-ESTTSSHHHHHHHHHHHH
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHH
Confidence            45565 888999999999998877

>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=90.35  E-value=0.083  Score=42.61  Aligned_cols=23  Identities=26%  Similarity=0.231  Sum_probs=17.3

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHH
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAY  196 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~  196 (386)
                      +.+|.+ .|.+|+||||+|..|+.
T Consensus        14 p~liil-~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          14 PEVVVA-VGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             CCEEEE-ECCTTSSHHHHHHHHTG
T ss_pred             CEEEEE-ECCCCCCHHHHHHHHHH
Confidence            345555 59999999999887743

>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=90.33  E-value=0.099  Score=41.86  Aligned_cols=22  Identities=23%  Similarity=0.261  Sum_probs=19.1

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHH
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      |.+. |.+|+||||+|..||..+
T Consensus         3 I~i~-G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLM-GLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEE-CSTTSSHHHHHHHHHHHH
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHH
Confidence            5565 999999999999998877

>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=90.16  E-value=0.12  Score=41.87  Aligned_cols=23  Identities=35%  Similarity=0.356  Sum_probs=19.4

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      ++| +. |-+|+||||+|..||..+
T Consensus         5 rii-l~-G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           5 RAV-LL-GPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             EEE-EE-CCTTSSHHHHHHHHHHHH
T ss_pred             EEE-EE-CCCCCCHHHHHHHHHHHh
Confidence            455 55 999999999999999876

>d2gc6a2 c.72.2.2 (A:1-296) Folylpolyglutamate synthetase {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: Folylpolyglutamate synthetase
domain: Folylpolyglutamate synthetase
species: Lactobacillus casei [TaxId: 1582]

Probab=90.04  E-value=0.19  Score=44.14  Aligned_cols=36  Identities=31%  Similarity=0.498  Sum_probs=31.8

Q ss_pred             cCCceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEE
Q 016622          170 QKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIF  208 (386)
Q Consensus       170 ~~~~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllI  208 (386)
                      +...|+|+|+   |=-||||++.-++..|...|++|.++
T Consensus        36 ~~~lkvI~VT---GTNGKtST~~~i~~IL~~~G~kvG~~   71 (296)
T d2gc6a2          36 QQQGRYIHVT---GTNGKGSAANAIAHVLEASGLTVGLY   71 (296)
T ss_dssp             GGSSCEEEEE---CSSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             hhhCCEEEEe---ccCcHHHHHHHHHHHHHhcCCceeee
Confidence            3456799999   56699999999999999999999997

>d2jfga3 c.72.2.1 (A:94-297) UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase MurD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase MurD
species: Escherichia coli [TaxId: 562]

Probab=90.03  E-value=0.19  Score=41.09  Aligned_cols=33  Identities=36%  Similarity=0.476  Sum_probs=29.1

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIF  208 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllI  208 (386)
                      .++|+|+   |-.||||++..|+..|...|+++.+.
T Consensus        11 ~~vI~VT---GT~GKTTt~~~l~~iL~~~g~~~~~~   43 (204)
T d2jfga3          11 APIVAIT---GSNGKSTVTTLVGEMAKAAGVNVGVG   43 (204)
T ss_dssp             SCEEEEE---CSSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCEEEEE---CCCCHHHHHHHHHHHHHhcCCCcccC
Confidence            4699999   66799999999999999999988764

>d1p3da3 c.72.2.1 (A:107-321) UDP-N-acetylmuramate-alanine ligase MurC {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Haemophilus influenzae [TaxId: 727]

Probab=89.85  E-value=0.17  Score=41.80  Aligned_cols=34  Identities=18%  Similarity=0.218  Sum_probs=29.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      .++|+||   |-.||||++.-|+..|...|+++..+-
T Consensus        12 ~~~I~IT---GTnGKTTt~~~l~~iL~~~~~~~~~~~   45 (215)
T d1p3da3          12 RHGIAVA---GTHGKTTTTAMISMIYTQAKLDPTFVN   45 (215)
T ss_dssp             SEEEEEE---SSSCHHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             CCEEEEE---CCCCHHHHHHHHHHHHHhCCCCceEee
Confidence            4799998   678999999999999999999887764

>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=89.84  E-value=0.11  Score=41.74  Aligned_cols=22  Identities=23%  Similarity=0.243  Sum_probs=19.1

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHH
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      |.|. |.+|+||||+|..||..+
T Consensus         3 I~i~-G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           3 IVLM-GLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEE-CSTTSSHHHHHHHHHHHH
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHH
Confidence            4455 999999999999999887

>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=89.77  E-value=0.093  Score=42.84  Aligned_cols=25  Identities=28%  Similarity=0.308  Sum_probs=20.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      +++|.+. |.+|+||||+|..||..+
T Consensus         8 ~~iI~l~-G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           8 SKIIFVV-GGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             SCEEEEE-ECTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEE-CCCCCCHHHHHHHHHHHh
Confidence            4678887 779999999999887754

>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=89.51  E-value=0.17  Score=46.65  Aligned_cols=36  Identities=36%  Similarity=0.398  Sum_probs=30.9

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      -+.|+ |..|+|||++..++...+.+.|..++++|..
T Consensus        52 H~~I~-G~tGsGKT~~l~~li~~~~~~g~~~iiiD~k   87 (433)
T d1e9ra_          52 HLLVN-GATGTGKSVLLRELAYTGLLRGDRMVIVDPN   87 (433)
T ss_dssp             CEEEE-ECTTSSHHHHHHHHHHHHHHTTCEEEEEEET
T ss_pred             eEEEE-eCCCCcHHHHHHHHHHHHHhCCCCEEEEeCC
Confidence            45666 8899999999988998888999999999863

>d1j6ua3 c.72.2.1 (A:89-295) UDP-N-acetylmuramate-alanine ligase MurC {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Thermotoga maritima [TaxId: 2336]

Probab=89.30  E-value=0.19  Score=41.33  Aligned_cols=33  Identities=27%  Similarity=0.337  Sum_probs=28.6

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIF  208 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllI  208 (386)
                      .++|+||   |-.||||++..|+..|...|+++..+
T Consensus        14 ~~~iAIT---GTnGKTTt~~~l~~iL~~~g~~~~~~   46 (207)
T d1j6ua3          14 KEEFAVT---GTDGKTTTTAMVAHVLKHLRKSPTVF   46 (207)
T ss_dssp             CCEEEEE---CSSSHHHHHHHHHHHHHHTTCCCEEE
T ss_pred             CCEEEEE---CCCCHHHHHHHHHHHHHhCCCCCeEE
Confidence            4699999   67899999999999999999886554

>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=88.88  E-value=0.15  Score=40.45  Aligned_cols=26  Identities=23%  Similarity=0.372  Sum_probs=22.0

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHC
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGM  201 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~  201 (386)
                      .|+++ |..|+||||+...++..+...
T Consensus         2 ki~I~-G~~G~GKSTLl~~i~~~l~~~   27 (178)
T d1ye8a1           2 KIIIT-GEPGVGKTTLVKKIVERLGKR   27 (178)
T ss_dssp             EEEEE-CCTTSSHHHHHHHHHHHHGGG
T ss_pred             EEEEE-CCCCcHHHHHHHHHHhcCCCC
Confidence            36777 899999999999999988754

>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=88.88  E-value=0.15  Score=40.93  Aligned_cols=23  Identities=43%  Similarity=0.401  Sum_probs=19.5

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      .|.|. |..|+||||+|-.||..+
T Consensus         2 ~I~i~-G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLL-GPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEE-CCTTSSHHHHHHHHHHHH
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHH
Confidence            34555 999999999999999887

>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=88.69  E-value=0.23  Score=41.54  Aligned_cols=39  Identities=18%  Similarity=0.162  Sum_probs=29.6

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHC------CCcEEEEEcCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGM------GARVGIFDADVY  213 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~------G~rVllID~D~~  213 (386)
                      +++.|+ |..|+|||+++.++|...+..      +..|+.+|....
T Consensus        38 ~~~~i~-G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (258)
T d1v5wa_          38 AITEAF-GEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENT   82 (258)
T ss_dssp             EEEEEE-CCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSC
T ss_pred             EEEEEE-CCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHH
Confidence            455555 999999999999999876543      456888887654

>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=88.59  E-value=0.099  Score=42.52  Aligned_cols=28  Identities=21%  Similarity=0.061  Sum_probs=22.8

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMG  202 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G  202 (386)
                      +++.|+ |-+|+|||+++.++|...+..+
T Consensus        24 ~v~~i~-G~~GsGKT~l~l~la~~~~~~~   51 (242)
T d1n0wa_          24 SITEMF-GEFRTGKTQICHTLAVTCQLPI   51 (242)
T ss_dssp             SEEEEE-CCTTSSHHHHHHHHHHHTTSCG
T ss_pred             EEEEEE-eCCCCCHHHHHHHHHHHHHHhh
Confidence            355555 9999999999999999887654

>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=88.58  E-value=0.17  Score=40.70  Aligned_cols=30  Identities=23%  Similarity=0.220  Sum_probs=22.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      .|.|. |-.|+||||++..||..+   |  ...|++
T Consensus         4 rIvl~-G~pGSGKtT~a~~La~~~---g--~~~i~~   33 (180)
T d1akya1           4 RMVLI-GPPGAGKGTQAPNLQERF---H--AAHLAT   33 (180)
T ss_dssp             EEEEE-CCTTSSHHHHHHHHHHHH---C--CEEEEH
T ss_pred             EEEEE-CCCCCCHHHHHHHHHHHh---C--CceEec
Confidence            34455 999999999999999876   3  345555

>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=88.05  E-value=0.26  Score=42.06  Aligned_cols=34  Identities=21%  Similarity=0.093  Sum_probs=27.9

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD  211 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D  211 (386)
                      +-|.++ |..|+|||+++-.+|..+   |.+++.+|+.
T Consensus        43 ~giLl~-GppGtGKT~la~aia~~~---~~~~~~i~~~   76 (247)
T d1ixza_          43 KGVLLV-GPPGVGKTHLARAVAGEA---RVPFITASGS   76 (247)
T ss_dssp             SEEEEE-CCTTSSHHHHHHHHHHHT---TCCEEEEEHH
T ss_pred             ceEEEe-cCCCCChhHHHHHHHHHc---CCCEEEEEhH
Confidence            456676 899999999999999754   7888888863

>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=87.84  E-value=0.25  Score=41.67  Aligned_cols=35  Identities=26%  Similarity=0.209  Sum_probs=26.7

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      +.+.++ |..|+||||++..+|..+   |..+..+++..
T Consensus        53 ~~lll~-GPpG~GKTt~a~~la~~~---~~~~~~~~~~~   87 (253)
T d1sxja2          53 RAAMLY-GPPGIGKTTAAHLVAQEL---GYDILEQNASD   87 (253)
T ss_dssp             SEEEEE-CSTTSSHHHHHHHHHHHT---TCEEEEECTTS
T ss_pred             ceEEEE-CCCCCCHHHHHHHHHHHH---Hhhhhcccccc
Confidence            456666 889999999999988754   67777776643

>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=87.79  E-value=0.12  Score=43.23  Aligned_cols=30  Identities=17%  Similarity=0.085  Sum_probs=24.5

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHHHCC
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMG  202 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La~~G  202 (386)
                      .++.|+|- |--|+||||.+..|+..|..+|
T Consensus         2 kGk~I~iE-G~DGsGKST~~~~L~~~L~~~~   31 (214)
T d1tmka_           2 RGKLILIE-GLDRTGKTTQCNILYKKLQPNC   31 (214)
T ss_dssp             CCCEEEEE-ESTTSSHHHHHHHHHHHTTTSE
T ss_pred             CeEEEEEE-CCCCCcHHHHHHHHHHHHHhCC
Confidence            45688887 7789999999999999886544

>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=87.76  E-value=0.38  Score=39.46  Aligned_cols=25  Identities=24%  Similarity=0.316  Sum_probs=21.3

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHH
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAG  200 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~  200 (386)
                      -+.++ |..|||||+++-.||+.+..
T Consensus        45 n~lLv-G~pGVGKTalv~~LA~ri~~   69 (195)
T d1jbka_          45 NPVLI-GEPGVGKTAIVEGLAQRIIN   69 (195)
T ss_dssp             EEEEE-CCTTSCHHHHHHHHHHHHHH
T ss_pred             CeEEE-ecCCcccHHHHHHHHHHHHh
Confidence            34444 99999999999999999985

>d1vcoa2 c.37.1.10 (A:11-282) CTP synthase PyrG, 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: Nitrogenase iron protein-like
domain: CTP synthase PyrG, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=87.42  E-value=0.48  Score=40.51  Aligned_cols=45  Identities=22%  Similarity=0.245  Sum_probs=38.1

Q ss_pred             ceEEEEEeC-cCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCCC
Q 016622          173 SNIVAVSSC-KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSL  217 (386)
Q Consensus       173 ~kvI~v~s~-kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~sl  217 (386)
                      +|-|.|++| -.|.||=.+|+.||..|..+|++|..+.+||+-+--
T Consensus         2 ~kyifvtGGV~S~lGKGi~~asig~ll~~~g~~v~~~K~DpYlNvD   47 (272)
T d1vcoa2           2 RKYVFITGGVVSSLGKGILTSSLGALLRARGYRVTAIKIDPYVNVD   47 (272)
T ss_dssp             CEEEEEEECSSSCSCHHHHHHHHHHHHHTTTCCEEEEEEECSSCSS
T ss_pred             ceEEEEeCCcccccccHHHHHHHHHHHHhCCCceeEEeeccceecC
Confidence            356677655 468999999999999999999999999999986543

>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=87.24  E-value=0.34  Score=41.54  Aligned_cols=34  Identities=18%  Similarity=0.085  Sum_probs=27.4

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      ++.|.++ |-.|+|||+++..+|..+   |..++.+++
T Consensus        45 ~~~iLL~-GppGtGKT~la~~iA~~~---~~~~~~i~~   78 (256)
T d1lv7a_          45 PKGVLMV-GPPGTGKTLLAKAIAGEA---KVPFFTISG   78 (256)
T ss_dssp             CCEEEEE-CCTTSCHHHHHHHHHHHH---TCCEEEECS
T ss_pred             CCeEEee-CCCCCCccHHHHHHHHHc---CCCEEEEEh
Confidence            3567776 899999999999999876   677777765

>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=87.10  E-value=0.2  Score=40.00  Aligned_cols=22  Identities=18%  Similarity=0.052  Sum_probs=18.4

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHH
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      |.|. |..|+||||++..||..+
T Consensus         3 I~i~-G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           3 IILL-GAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEE-ESTTSSHHHHHHHHHHHH
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHh
Confidence            4454 889999999999998776

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {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: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=86.87  E-value=0.22  Score=41.86  Aligned_cols=29  Identities=28%  Similarity=0.375  Sum_probs=25.9

Q ss_pred             CcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          181 CKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       181 ~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      +..|.|||+++...+..++..|.+|+++-
T Consensus        65 apTGsGKT~~~~~~~~~~~~~~~rvliv~   93 (237)
T d1gkub1          65 APTGVGKTSFGLAMSLFLALKGKRCYVIF   93 (237)
T ss_dssp             CCBTSCSHHHHHHHHHHHHTTSCCEEEEE
T ss_pred             ecCCChHHHHHHHHHHHHHHhcCeEEEEe
Confidence            78899999999888888888999999884

>d2jfga1 c.5.1.1 (A:1-93) UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase MurD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: MurCD N-terminal domain
superfamily: MurCD N-terminal domain
family: MurCD N-terminal domain
domain: UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase MurD
species: Escherichia coli [TaxId: 562]

Probab=86.79  E-value=0.45  Score=33.70  Aligned_cols=35  Identities=14%  Similarity=0.242  Sum_probs=28.1

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      |.|+|.    |-|||-+++  |.+|+++|.+|.+.|.....
T Consensus         6 K~v~Vi----GlG~sG~s~--a~~L~~~g~~v~~~D~~~~~   40 (93)
T d2jfga1           6 KNVVII----GLGLTGLSC--VDFFLARGVTPRVMDTRMTP   40 (93)
T ss_dssp             CCEEEE----CCSHHHHHH--HHHHHHTTCCCEEEESSSSC
T ss_pred             CEEEEE----eECHHHHHH--HHHHHHCCCEEEEeeCCcCc
Confidence            467888    778887764  88999999999999976543

>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=86.17  E-value=0.51  Score=40.05  Aligned_cols=33  Identities=15%  Similarity=0.008  Sum_probs=25.9

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      +.|.++ |..|+|||++|..+|..+   |..+.-+++
T Consensus        41 ~~vLL~-GppGtGKT~la~alA~~~---~~~~~~i~~   73 (246)
T d1d2na_          41 VSVLLE-GPPHSGKTALAAKIAEES---NFPFIKICS   73 (246)
T ss_dssp             EEEEEE-CSTTSSHHHHHHHHHHHH---TCSEEEEEC
T ss_pred             eEEEEE-CcCCCCHHHHHHHHhhcc---ccccccccc
Confidence            567777 888999999999998765   667766654

>d1fjha_ c.2.1.2 (A:) 3-alpha-hydroxysteroid dehydrogenase {Comamonas testosteroni [TaxId: 285]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Tyrosine-dependent oxidoreductases
domain: 3-alpha-hydroxysteroid dehydrogenase
species: Comamonas testosteroni [TaxId: 285]

Probab=85.92  E-value=0.19  Score=42.70  Aligned_cols=35  Identities=23%  Similarity=0.415  Sum_probs=30.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      ||||.||++.+|.|+.     +|..|++.|.+|+++|.+.
T Consensus         1 mkVvlITGas~GIG~a-----iA~~la~~Ga~V~~~~~~~   35 (257)
T d1fjha_           1 MSIIVISGCATGIGAA-----TRKVLEAAGHQIVGIDIRD   35 (257)
T ss_dssp             CCEEEEETTTSHHHHH-----HHHHHHHTTCEEEEEESSS
T ss_pred             CCEEEEeCCCCHHHHH-----HHHHHHHCCCEEEEEECCh
Confidence            6899999988888875     6888999999999998753

>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=85.71  E-value=0.25  Score=41.30  Aligned_cols=31  Identities=26%  Similarity=0.329  Sum_probs=22.9

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      -+.|+ |-+|+||||+|..||..+   |.....+.
T Consensus        37 ~~L~~-GPpGtGKT~lA~~la~~~---~~~~~~~~   67 (238)
T d1in4a2          37 HVLLA-GPPGLGKTTLAHIIASEL---QTNIHVTS   67 (238)
T ss_dssp             CEEEE-SSTTSSHHHHHHHHHHHH---TCCEEEEE
T ss_pred             eEEEE-CCCCCcHHHHHHHHHhcc---CCCccccc
Confidence            35555 789999999999888765   55555554

>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=85.70  E-value=0.44  Score=40.09  Aligned_cols=37  Identities=19%  Similarity=0.069  Sum_probs=27.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVY  213 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~  213 (386)
                      .+.|.|+ |.+|+|||+++..++..+   +.....+++...
T Consensus        29 ~~~i~i~-G~~G~GKTsLl~~~~~~~---~~~~~~i~~~~~   65 (283)
T d2fnaa2          29 APITLVL-GLRRTGKSSIIKIGINEL---NLPYIYLDLRKF   65 (283)
T ss_dssp             SSEEEEE-ESTTSSHHHHHHHHHHHH---TCCEEEEEGGGG
T ss_pred             CCEEEEE-cCCCCcHHHHHHHHHHHC---CCCeEEEEeccc
Confidence            3467776 899999999998776544   677888887543

>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=85.47  E-value=0.051  Score=45.80  Aligned_cols=29  Identities=17%  Similarity=0.076  Sum_probs=24.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMG  202 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G  202 (386)
                      +|.|+|- |--|+||||++-.|+..|...|
T Consensus         2 ~k~I~ie-G~dGsGKST~~~~L~~~l~~~~   30 (241)
T d1p5zb_           2 IKKISIE-GNIAAGKSTFVNILKQLCEDWE   30 (241)
T ss_dssp             CEEEEEE-CSTTSSHHHHHTTTGGGCTTEE
T ss_pred             CCEEEEE-CCCCCCHHHHHHHHHHHHhcCC
Confidence            5788888 8889999999999998885433

>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=85.32  E-value=2.1  Score=33.80  Aligned_cols=68  Identities=12%  Similarity=0.049  Sum_probs=39.1

Q ss_pred             CCCcEEEEcCCCCCChHHHhhhhhcCCCeEEEEeCCCc-chHHHHH-HHHHHHHcC--CCCeEEEEEcCCcCC
Q 016622          279 GELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQK-LAFIDVA-KGVRMFSKL--KVPCIAVVENMCHFD  347 (386)
Q Consensus       279 ~~yD~VIIDtpp~~~~~~~~~~~~~~~d~vviV~~~~~-~s~~~~~-~~~~~l~~~--~~~i~gvVlN~~~~~  347 (386)
                      ..+.+-++|+++.-............+|.+++|...+. .++.... .....++..  +.++ -+|.|+++..
T Consensus        55 ~~~~l~i~D~~g~e~~~~~~~~~~~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~~-ilvgnK~Dl~  126 (185)
T d2atxa1          55 KQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPF-LLIGTQIDLR  126 (185)
T ss_dssp             CEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCE-EEEEECTTST
T ss_pred             ceEEeecccccccchhhhhhhhcccccceeeeccccchHHHHHHHHHHHHHHHHhcCCCCCe-eEeeeccccc
Confidence            45677899998643222222233556789999877654 4555443 233333332  4444 4888998854

>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=85.25  E-value=0.17  Score=45.33  Aligned_cols=33  Identities=21%  Similarity=0.252  Sum_probs=28.8

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      |.|= |--|+||||++..|+..+..+|.+|+++.
T Consensus         8 I~IE-G~iGsGKSTl~~~L~~~l~~~g~~v~~~~   40 (331)
T d1osna_           8 IYLD-GAYGIGKTTAAEEFLHHFAITPNRILLIG   40 (331)
T ss_dssp             EEEE-ESSSSCTTHHHHHHHHTTTTSGGGEEEEC
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHHhhcCCceEEEe
Confidence            5554 88899999999999999998899999885

>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=85.01  E-value=0.15  Score=41.39  Aligned_cols=25  Identities=20%  Similarity=0.116  Sum_probs=19.5

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      +.+|+|. |--|+||||++-.|+..+
T Consensus         9 p~~I~ie-G~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           9 PFTVLIE-GNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CEEEEEE-CSTTSCHHHHHHTTGGGT
T ss_pred             ceEEEEE-CCCCCCHHHHHHHHHHHh
Confidence            3477776 888999999988777654

>d2vo1a1 c.37.1.10 (A:1-273) CTP synthase PyrG, 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: Nitrogenase iron protein-like
domain: CTP synthase PyrG, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.95  E-value=0.72  Score=39.35  Aligned_cols=44  Identities=23%  Similarity=0.308  Sum_probs=37.4

Q ss_pred             ceEEEEEeC-cCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCCC
Q 016622          173 SNIVAVSSC-KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPS  216 (386)
Q Consensus       173 ~kvI~v~s~-kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~s  216 (386)
                      ||-|.|++| -.|.||=.+|+.++..|..+|++|-++..||+-+-
T Consensus         1 mKyifVtGGV~S~lGKGi~~aSig~ll~~~g~~V~~~K~DPYlNv   45 (273)
T d2vo1a1           1 MKYILVTGGVISGIGKGIIASSVGTILKSCGLHVTSIKIDPYINI   45 (273)
T ss_dssp             CEEEEEEECSSSSSSHHHHHHHHHHHHHHTTCCEEEEEEECSSCC
T ss_pred             CeEEEEeCCcccccchHHHHHHHHHHHHhCCceeEEEecccceec
Confidence            356666654 56899999999999999999999999999997643

>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=84.64  E-value=0.55  Score=42.28  Aligned_cols=35  Identities=26%  Similarity=0.295  Sum_probs=26.2

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHH----CCCcEEEE
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAG----MGARVGIF  208 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~----~G~rVllI  208 (386)
                      +.+++..|.+|+||||+...+...+.+    .|.+|++.
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~  201 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLA  201 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEE
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEe
Confidence            346666799999999999887666653    46677776

>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=84.56  E-value=0.21  Score=41.94  Aligned_cols=29  Identities=24%  Similarity=0.172  Sum_probs=23.7

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMG  202 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G  202 (386)
                      +|.|+|- |--|+||||++-.|+..|...+
T Consensus         2 pk~IviE-G~~GsGKST~~~~L~~~l~~~~   30 (241)
T d2ocpa1           2 PRRLSIE-GNIAVGKSTFVKLLTKTYPEWH   30 (241)
T ss_dssp             CEEEEEE-ECTTSSHHHHHHHHHHHCTTSE
T ss_pred             CeEEEEE-CCCCCcHHHHHHHHHHHHhhcC
Confidence            4678887 8889999999999998886543

>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=83.91  E-value=0.63  Score=40.10  Aligned_cols=25  Identities=28%  Similarity=0.437  Sum_probs=21.4

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHH
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAG  200 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~  200 (386)
                      -+.++ |..|||||+++..||+.+..
T Consensus        41 n~lLV-G~~GvGKTalv~~la~ri~~   65 (268)
T d1r6bx2          41 NPLLV-GESGVGKTAIAEGLAWRIVQ   65 (268)
T ss_dssp             EEEEE-CCTTSSHHHHHHHHHHHHHH
T ss_pred             CcEEE-CCCCCcHHHHHHHHHHHHHh
Confidence            34455 99999999999999999886

>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=83.90  E-value=0.34  Score=40.55  Aligned_cols=30  Identities=27%  Similarity=0.376  Sum_probs=22.1

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      +.|+ |-+|+||||+|-.+|..+   +.....++
T Consensus        38 ~Ll~-GPpG~GKTtla~~la~~~---~~~~~~~~   67 (239)
T d1ixsb2          38 LLLF-GPPGLGKTTLAHVIAHEL---GVNLRVTS   67 (239)
T ss_dssp             EEEE-CCTTSCHHHHHHHHHHHH---TCCEEEEE
T ss_pred             EEEE-CCCCCCHHHHHHHHHHHh---CCCeEecc
Confidence            4454 999999999999888765   45555444

>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=83.67  E-value=0.48  Score=41.24  Aligned_cols=34  Identities=15%  Similarity=0.092  Sum_probs=24.1

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCC----CcEEEEEc
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMG----ARVGIFDA  210 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G----~rVllID~  210 (386)
                      +.|. |-.|+||||+.++-+..|...+    .+++++-.
T Consensus        27 ~lV~-g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt~   64 (318)
T d1pjra1          27 LLIM-AGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITF   64 (318)
T ss_dssp             EEEE-ECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEES
T ss_pred             EEEE-ecCCccHHHHHHHHHHHHHHcCCCCHHHeEeEec
Confidence            4444 6689999999988766665543    47888754

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=83.65  E-value=0.39  Score=36.30  Aligned_cols=32  Identities=31%  Similarity=0.321  Sum_probs=23.8

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEE
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD  209 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID  209 (386)
                      -.++..+-.|+|||+++..   .+.+.|++|+++=
T Consensus         9 ~~~ll~apTGsGKT~~~~~---~~~~~~~~vli~~   40 (136)
T d1a1va1           9 QVAHLHAPTGSGKSTKVPA---AYAAQGYKVLVLN   40 (136)
T ss_dssp             EEEEEECCTTSCTTTHHHH---HHHTTTCCEEEEE
T ss_pred             CEEEEEeCCCCCHHHHHHH---HHHHcCCcEEEEc
Confidence            5566668899999987643   4567888988873

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=83.16  E-value=0.71  Score=37.12  Aligned_cols=28  Identities=25%  Similarity=0.350  Sum_probs=22.5

Q ss_pred             CcCCCCHHHHHHHHHHHHH-HCCCcEEEE
Q 016622          181 CKGGVGKSTVAVNLAYTLA-GMGARVGIF  208 (386)
Q Consensus       181 ~kGGvGKTTla~~LA~~La-~~G~rVllI  208 (386)
                      ...|.|||+++..++.... +.|.+++++
T Consensus        30 ~pTGsGKT~i~~~~~~~~~~~~~~~il~i   58 (200)
T d1wp9a1          30 LPTGLGKTLIAMMIAEYRLTKYGGKVLML   58 (200)
T ss_dssp             CCTTSCHHHHHHHHHHHHHHHSCSCEEEE
T ss_pred             eCCCCcHHHHHHHHHHHHHHhcCCcEEEE
Confidence            6789999999888876655 567788877

>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=82.84  E-value=0.45  Score=40.26  Aligned_cols=26  Identities=23%  Similarity=0.251  Sum_probs=21.5

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHH
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAG  200 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~  200 (386)
                      .+.+..|..|+||||++..++..|.+
T Consensus        47 ~~l~l~GppGtGKT~l~~~l~~~l~~   72 (287)
T d1w5sa2          47 MIYGSIGRVGIGKTTLAKFTVKRVSE   72 (287)
T ss_dssp             EEEECTTCCSSSHHHHHHHHHHHHHH
T ss_pred             eEEEeECCCCCCHHHHHHHHHHHHHh
Confidence            34455599999999999999999864

>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=82.69  E-value=0.27  Score=41.32  Aligned_cols=27  Identities=26%  Similarity=0.373  Sum_probs=21.2

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCCC
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMGA  203 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G~  203 (386)
                      +.++ |..|+||||++..+|..+-..+.
T Consensus        36 lll~-Gp~G~GKTt~~~~la~~l~~~~~   62 (252)
T d1sxje2          36 LLLY-GPNGTGKKTRCMALLESIFGPGV   62 (252)
T ss_dssp             EEEE-CSTTSSHHHHHHTHHHHHSCTTC
T ss_pred             EEEE-CCCCCCHHHHHHHHHHhhcCccc
Confidence            4454 99999999999999998754433

>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=82.62  E-value=0.48  Score=38.04  Aligned_cols=24  Identities=17%  Similarity=0.299  Sum_probs=18.3

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHH
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAY  196 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~  196 (386)
                      |.|.|.++ |..|+||||+.-.|..
T Consensus         2 m~k~ivl~-Gpsg~GK~tl~~~L~~   25 (178)
T d1kgda_           2 MRKTLVLL-GAHGVGRRHIKNTLIT   25 (178)
T ss_dssp             CCCEEEEE-CCTTSSHHHHHHHHHH
T ss_pred             CCCcEEEE-CCCCCCHHHHHHHHHH
Confidence            55666664 8899999999876554

>d1xhja_ d.52.8.1 (A:) Nitrogen fixation protein NifU homolog SE0630 {Staphylococcus epidermidis [TaxId: 1282]}

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: NifU C-terminal domain-like
domain: Nitrogen fixation protein NifU homolog SE0630
species: Staphylococcus epidermidis [TaxId: 1282]

Probab=82.38  E-value=1.5  Score=30.73  Aligned_cols=68  Identities=16%  Similarity=0.290  Sum_probs=48.9

Q ss_pred             cHHHHHHHhccCCCCCCCCCccccCCeeEEEEecCCCeEEEEEEeCCCCCCchHH-HHHHHHHHhh-cCCCcceeE
Q 016622           76 AENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDM-FEQRANEVVL-AIPWVNKVN  149 (386)
Q Consensus        76 ~~~~i~~~L~~V~dPe~~~div~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~-i~~~i~e~l~-~l~gv~~v~  149 (386)
                      ..++|.++|++ .-|-+.   -+=|-|.-+.+++  +.|.|.+.-.+.+||.... +...|+..|+ .+|++..|.
T Consensus         8 l~~~I~~vLe~-IRP~l~---~dGGdvelv~v~~--g~V~v~l~GaC~gC~~s~~Tlk~~Ie~~L~~~vpev~~V~   77 (88)
T d1xhja_           8 MFDQVAEVIER-LRPFLL---RDGGDCTLVDVED--GIVKLQLHGACGTCPSSTITLKAGIERALHEEVPGVIEVE   77 (88)
T ss_dssp             HHHHHHHHHHH-HHHHHH---HHSCEEEEEECCS--SEEEEEEESSCCSSCHHHHHHHHHHHHHHHHHSTTCCEEE
T ss_pred             HHHHHHHHHHH-hhHHHH---hCCCcEEEEeccC--CEEEEEecCCCCCCccHHHHHHHHHHHHHHHHCCCCceEE
Confidence            46778888876 445332   2356666677766  8999999999999997765 5567777775 668777663

>d1th5a1 d.52.8.1 (A:154-226) NifU-like protein 1, NIFUL1 {Rice (Oryza sativa) [TaxId: 4530]}

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: NifU C-terminal domain-like
domain: NifU-like protein 1, NIFUL1
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=82.00  E-value=0.6  Score=31.70  Aligned_cols=68  Identities=22%  Similarity=0.163  Sum_probs=43.8

Q ss_pred             cccHHHHHHHhccCCCCCCCCCccccCCeeEEEEecCCCeEEEEEEeCCCCCCchHHHHHHHHHHhh-cCCCcceeE
Q 016622           74 GTAENDVLKALSQIIDPDFGTDIVSCGFVKDMQINEALGEVSFRLELTTPACPIKDMFEQRANEVVL-AIPWVNKVN  149 (386)
Q Consensus        74 ~~~~~~i~~~L~~V~dPe~~~div~lg~V~~v~~~~~~~~v~v~l~lt~~~cp~~~~i~~~i~e~l~-~l~gv~~v~  149 (386)
                      +.++++|..+|++|+=+....   +=|-|.-+.+++  +.+.+.+.-.+.+|+..   ...|+..|+ .+|.++.++
T Consensus         2 el~ee~V~~vL~eirP~l~a~---dGGdvelv~i~~--~~v~v~l~GaC~gC~Tl---~~gIe~~L~~~iPei~~V~   70 (73)
T d1th5a1           2 ELNEENVEKVLNEIRPYLAGT---GGGGLQFLMIKG--PIVKVRLTGPAAVVRTV---RIAVSKKLREKIPSIQIVQ   70 (73)
T ss_dssp             CCSHHHHHHHHTTTHHHHTTT---TCCCCCCCEEET--TEEEECCCSSSSSSSSH---HHHHHHHHHHHCTTCSEEE
T ss_pred             CCCHHHHHHHHHHhccccccc---CCceEEEEEecC--CEEEEEecCCCcccchH---HHHHHHHHHHHCCCccEEE
Confidence            357899999999865432111   125555566777  88999999999999733   333444442 457766554

>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=81.88  E-value=0.47  Score=37.88  Aligned_cols=25  Identities=36%  Similarity=0.408  Sum_probs=18.9

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHH
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTL  198 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~L  198 (386)
                      +++|.++ |..|+||||++-.|...+
T Consensus         2 G~iivl~-GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           2 GRVVVLS-GPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CCEEEEE-CSTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEE-CCCCCCHHHHHHHHHhhC
Confidence            3566665 999999999987766544

>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=81.71  E-value=1  Score=39.57  Aligned_cols=46  Identities=26%  Similarity=0.405  Sum_probs=33.6

Q ss_pred             EEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCCC--CCCccCCCc
Q 016622          175 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGP--SLPTMVSPE  224 (386)
Q Consensus       175 vI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~~~~--sl~~~lg~~  224 (386)
                      ++.|+ |-.|+|||.+|..||..+   +.+.+-+|+--...  +...++|..
T Consensus        54 ~~lf~-Gp~GvGKT~lak~la~~l---~~~~i~~d~s~~~~~~~~~~l~g~~  101 (315)
T d1r6bx3          54 SFLFA-GPTGVGKTEVTVQLSKAL---GIELLRFDMSEYMERHTVSRLIGAP  101 (315)
T ss_dssp             EEEEE-CSTTSSHHHHHHHHHHHH---TCEEEEEEGGGCSSSSCCSSSCCCC
T ss_pred             EEEEE-CCCcchhHHHHHHHHhhc---cCCeeEeccccccchhhhhhhcccC
Confidence            67777 889999999999999987   56788888754332  344455543

>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=81.62  E-value=0.79  Score=40.17  Aligned_cols=36  Identities=25%  Similarity=0.207  Sum_probs=28.2

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      ++.|.++ |-+|+|||.+|-.||..+   +.....+|+-.
T Consensus        49 ~~~iLl~-GPpG~GKT~lAkalA~~~---~~~~~~i~~s~   84 (309)
T d1ofha_          49 PKNILMI-GPTGVGKTEIARRLAKLA---NAPFIKVEATK   84 (309)
T ss_dssp             CCCEEEE-CCTTSSHHHHHHHHHHHH---TCCEEEEEGGG
T ss_pred             CceEEEE-CCCCCCHHHHHHHHhhcc---ccchhcccccc
Confidence            3567777 899999999999999876   45677777643

>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=81.35  E-value=0.49  Score=39.09  Aligned_cols=33  Identities=30%  Similarity=0.318  Sum_probs=24.2

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHCC--CcEEEEE
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGMG--ARVGIFD  209 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~G--~rVllID  209 (386)
                      +.++ |..|+||||+|..||..+....  ..++.++
T Consensus        39 ~ll~-Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n   73 (224)
T d1sxjb2          39 MIIS-GMPGIGKTTSVHCLAHELLGRSYADGVLELN   73 (224)
T ss_dssp             EEEE-CSTTSSHHHHHHHHHHHHHGGGHHHHEEEEC
T ss_pred             EEEE-CCCCCCchhhHHHHHHHHhcccccccccccc
Confidence            4444 8899999999999999987542  3455444

>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=80.70  E-value=0.48  Score=40.82  Aligned_cols=34  Identities=24%  Similarity=0.233  Sum_probs=24.7

Q ss_pred             EEEEeCcCCCCHHHHHHHHHHHHHHC-C---CcEEEEEc
Q 016622          176 VAVSSCKGGVGKSTVAVNLAYTLAGM-G---ARVGIFDA  210 (386)
Q Consensus       176 I~v~s~kGGvGKTTla~~LA~~La~~-G---~rVllID~  210 (386)
                      +.|. |-.|+||||+.++.+..+.+. |   .+|+++-.
T Consensus        17 ~lI~-g~aGTGKTt~l~~rv~~ll~~~~~~~~~ILvlt~   54 (306)
T d1uaaa1          17 CLVL-AGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTF   54 (306)
T ss_dssp             EEEC-CCTTSCHHHHHHHHHHHHHHHHCCCGGGEEEEES
T ss_pred             EEEE-eeCCccHHHHHHHHHHHHHHhcCCChhHEEEEeC
Confidence            4455 779999999988876666532 3   48988865

>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=80.64  E-value=0.63  Score=37.40  Aligned_cols=29  Identities=34%  Similarity=0.401  Sum_probs=21.7

Q ss_pred             ceEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEE
Q 016622          173 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVG  206 (386)
Q Consensus       173 ~kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVl  206 (386)
                      .+-|+|. |+.|+||||+|..    |.++|++.+
T Consensus        14 g~gvl~~-G~sG~GKStlal~----l~~~g~~lv   42 (176)
T d1kkma_          14 GLGVLIT-GDSGVGKSETALE----LVQRGHRLI   42 (176)
T ss_dssp             TEEEEEE-CCTTSCHHHHHHH----HHHTTCEEE
T ss_pred             CEEEEEE-eCCCCCHHHHHHH----HHHcCCeEE
Confidence            4577887 9999999998864    556787533

>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=80.31  E-value=0.7  Score=37.92  Aligned_cols=27  Identities=15%  Similarity=0.207  Sum_probs=22.6

Q ss_pred             CceEEEEEeCcCCCCHHHHHHHHHHHHH
Q 016622          172 ISNIVAVSSCKGGVGKSTVAVNLAYTLA  199 (386)
Q Consensus       172 ~~kvI~v~s~kGGvGKTTla~~LA~~La  199 (386)
                      .++.+.|. |..|+||||+|..+|..+-
T Consensus        23 l~h~lLl~-Gp~G~GKtt~a~~~a~~l~   49 (207)
T d1a5ta2          23 GHHALLIQ-ALPGMGDDALIYALSRYLL   49 (207)
T ss_dssp             CCSEEEEE-CCTTSCHHHHHHHHHHHHT
T ss_pred             cCeEEEEE-CCCCCcHHHHHHHHHHhcc
Confidence            34567776 8899999999999999885

>d1tf5a3 c.37.1.19 (A:1-226,A:349-395) Translocation ATPase SecA, nucleotide-binding domains {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: Tandem AAA-ATPase domain
domain: Translocation ATPase SecA, nucleotide-binding domains
species: Bacillus subtilis [TaxId: 1423]

Probab=80.30  E-value=0.67  Score=39.79  Aligned_cols=33  Identities=24%  Similarity=0.241  Sum_probs=28.8

Q ss_pred             eCcCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Q 016622          180 SCKGGVGKSTVAVNLAYTLAGMGARVGIFDADV  212 (386)
Q Consensus       180 s~kGGvGKTTla~~LA~~La~~G~rVllID~D~  212 (386)
                      =-+.|+|||.++...|...|-.|+.|-+|-.+.
T Consensus        99 em~TGEGKTL~a~l~a~l~al~g~~vhvvTvNd  131 (273)
T d1tf5a3          99 EMKTGEGKTLTSTLPVYLNALTGKGVHVVTVNE  131 (273)
T ss_dssp             ECCTTSCHHHHHHHHHHHHHTTSSCEEEEESSH
T ss_pred             eecCCCcchhHHHHHHHHHHhcCCCceEEecCc
Confidence            367899999999999999999999999997654

>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=80.08  E-value=0.77  Score=38.83  Aligned_cols=25  Identities=20%  Similarity=0.353  Sum_probs=21.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHH
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLA  199 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La  199 (386)
                      ..++|+ |..|+||||+...|+..+.
T Consensus        30 e~vaIv-G~sGsGKSTLl~ll~gl~~   54 (241)
T d2pmka1          30 EVIGIV-GRSGSGKSTLTKLIQRFYI   54 (241)
T ss_dssp             CEEEEE-CSTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEE-CCCCCCHHHHHHHHHhcCC
Confidence            589999 8899999999888877665

>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=80.03  E-value=0.72  Score=39.47  Aligned_cols=33  Identities=21%  Similarity=0.113  Sum_probs=26.5

Q ss_pred             eEEEEEeCcCCCCHHHHHHHHHHHHHHCCCcEEEEEc
Q 016622          174 NIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDA  210 (386)
Q Consensus       174 kvI~v~s~kGGvGKTTla~~LA~~La~~G~rVllID~  210 (386)
                      +.|.++ |..|+|||+++-.+|..+   |.....+++
T Consensus        42 ~giLL~-Gp~GtGKT~l~~ala~~~---~~~~~~~~~   74 (265)
T d1r7ra3          42 KGVLFY-GPPGCGKTLLAKAIANEC---QANFISIKG   74 (265)
T ss_dssp             CEEEEB-CCTTSSHHHHHHHHHHHT---TCEEEEECH
T ss_pred             CeEEEE-CCCCCcchhHHHHHHHHh---CCcEEEEEH
Confidence            466666 899999999999998877   677777765

>d2hmva1 c.2.1.9 (A:7-140) Ktn bsu222 {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Potassium channel NAD-binding domain
domain: Ktn bsu222
species: Bacillus subtilis [TaxId: 1423]

Probab=80.01  E-value=3.4  Score=30.55  Aligned_cols=29  Identities=24%  Similarity=0.323  Sum_probs=23.2

Q ss_pred             CCCHHHHHHHHHHHHHHCCCcEEEEEcCCCC
Q 016622          184 GVGKSTVAVNLAYTLAGMGARVGIFDADVYG  214 (386)
Q Consensus       184 GvGKTTla~~LA~~La~~G~rVllID~D~~~  214 (386)
                      |.|.  +...+|..|.+.|++|.+||.|+..
T Consensus         7 G~G~--~G~~la~~L~~~g~~vvvid~d~~~   35 (134)
T d2hmva1           7 GLGR--FGGSIVKELHRMGHEVLAVDINEEK   35 (134)
T ss_dssp             CCSH--HHHHHHHHHHHTTCCCEEEESCHHH
T ss_pred             CCCH--HHHHHHHHHHHCCCeEEEecCcHHH
Confidence            4453  4677899999999999999998743