Citrus Sinensis ID: 045456

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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-------29
Protein Sequence
MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMTLIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEGICLVWEMTCKETEERSSQRGKAERVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHccccccEEEEEEcccccccHHHHHHHHHHHcccccHHHHHHHHHccccccccEEEEccccEEEEccccEEEEEEEEEEcccccccccccccEEEEEEEEcccHHHHHHHHHHHHHHHHHHHHHHcEEEEEEEEcccccccccccccccccccccccccEEEccHHHHHHHHHHHHHHHHcHHHHHHHccccccEEEEcccccccHHHHHHHHHHHHccEEEEEEcccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHcccEEEEEEEccccccHHHHHHHHHHHHHHHccHHccEEEEccccccccEEEEEccccEEEEEEccEEEEEEEEEEcccccccccccccEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEEccccccccccccccEEEcccccccHHHHcccHHHHHHHHHHHHHHHHcHHHHHHHHHHHHccEEEEccccccHHHHHHHHHHHccccEEEEEEcEEcccHHHcc
Coil and Loop (DISEMBL)
MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLgglftnhssQMTLIIDEYNGFSINQLYEASELYLSTKITASLEKLkvskttkekNLSVtinkgekisDIFEGICLVWEMTCKEteerssqrgkaERVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVVKLYAVGhfggdsdrggawgstnldhpatfdkiamdpsmkqasiDDLDRFVKRRNFYRRVGKVWKrgyllfgppgtgksSLIAAMANYLKFNIYdmeltsvycnselrr
Flexible Loop (DISEMBL)
MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMTLIIDEYNGFSINQLYEASELYLSTKITASleklkvskttkeknlsvtinkgekisdIFEGICLVWEMTCKEteerssqrgkaervielsfpkkyMERILNIYLPYVMEKSNAIKEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYrrvgkvwkrgyllfgppgtgkSSLIAAMANYLKFNIYDMELTSVYCNSELRR
Low Complexity Region (SEG)
MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMTLIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEGICLVWEMTCKETEERSSQRGKAERVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR
Disordered region (IsUnstruct)
******VLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMTLIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKT***KNLSVTINKGEKISDIFEGICLVWEMTCK*************RVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKI*********SIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN*****
Disordered Region (DISOPRED)
**SATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMTLIIDEYNGFSINQLYEASELYLSTKITAS******************INKGEKISDIFEGICLVWEMTC***********KAERVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY*******
Disordered Region (DISEMBL)
********STYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMTLIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEGICLVWEMTC*************ERVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR
Disordered Region (DISPRO)
*PSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMTLIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEGICLVWEMTCKETEERSSQRGKAERVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMTLIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEGICLVWEMTCKETEERSSQRGKAERVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR
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	288	2.2.26 [Sep-21-2011]
P32839	456	Mitochondrial chaperone B	yes	no	0.232	0.146	0.402	6e-09
Q54DY9	458	Probable mitochondrial ch	no	no	0.229	0.144	0.393	6e-08
Q54HY8	421	Probable mitochondrial ch	no	no	0.25	0.171	0.375	1e-07
Q7ZV60	420	Mitochondrial chaperone B	yes	no	0.232	0.159	0.373	1e-07
Q9P6Q3	449	Probable mitochondrial ch	yes	no	0.281	0.180	0.313	3e-07
Q7ZTL7	419	Mitochondrial chaperone B	N/A	no	0.211	0.145	0.360	2e-06
Q9CZP5	418	Mitochondrial chaperone B	yes	no	0.343	0.236	0.3	2e-06
Q2SF13	619	ATP-dependent zinc metall	yes	no	0.232	0.108	0.382	6e-06
Q5E9H5	419	Mitochondrial chaperone B	yes	no	0.222	0.152	0.343	8e-06
Q9Y276	419	Mitochondrial chaperone B	yes	no	0.222	0.152	0.343	9e-06

>sp|P32839|BCS1_YEAST Mitochondrial chaperone BCS1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=BCS1 PE=1 SV=2

 Score = 61.6 bits (148), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 27/67 (40%), Positives = 44/67 (65%)

Query: 212 IAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFN 271
           + +D  +K+  +DD+  F+K   +Y   G  ++RGYLL+GPPG+GK+S I A+A  L +N
Sbjct: 228 VILDSGIKEGILDDVYDFMKNGKWYSDRGIPYRRGYLLYGPPGSGKTSFIQALAGELDYN 287

Query: 272 IYDMELT 278
           I  + L+
Sbjct: 288 ICILNLS 294

Essential for the expression of the Rieske iron-sulfur protein.
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q54DY9|BCS1B_DICDI Probable mitochondrial chaperone BCS1-B OS=Dictyostelium discoideum GN=bcsl1b PE=3 SV=1

 Score = 58.5 bits (140), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 26/66 (39%), Positives = 41/66 (62%)

Query: 212 IAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFN 271
           + +D    +  I D+ +F+   ++Y   G  ++RGYLL+GPPGTGKSS I A+A  L+ +
Sbjct: 209 VILDKGKSELIIQDVKKFLNNSDWYNDRGIPYRRGYLLYGPPGTGKSSFITALAGELQLS 268

Query: 272 IYDMEL 277
           I  + L
Sbjct: 269 ICILNL 274

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III.

Dictyostelium discoideum (taxid: 44689)

>sp|Q54HY8|BCS1A_DICDI Probable mitochondrial chaperone BCS1-A OS=Dictyostelium discoideum GN=bcs1la PE=3 SV=1

 Score = 57.4 bits (137), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 43/72 (59%)

Query: 208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANY 267
           +   + +   +K   I+D+  F+   ++YR  G  ++RGYLL+G PG GKSSLI A+A  
Sbjct: 185 SLSSVILADDLKSKLIEDIKSFITNESWYRNRGIPYRRGYLLYGEPGNGKSSLINAIAGE 244

Query: 268 LKFNIYDMELTS 279
           L  +I  + L+S
Sbjct: 245 LNLDICIVSLSS 256

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III.

Dictyostelium discoideum (taxid: 44689)

>sp|Q7ZV60|BCS1_DANRE Mitochondrial chaperone BCS1 OS=Danio rerio GN=bcs1l PE=2 SV=2

 Score = 57.4 bits (137), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 25/67 (37%), Positives = 41/67 (61%)

Query: 212 IAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFN 271
           + ++  + +  +DD+  F+    +Y   G  ++RGYLL+GPPG GKSS I A+A  L ++
Sbjct: 191 VVLESGVAERIVDDVKEFIGNPKWYTDRGIPYRRGYLLYGPPGCGKSSFITALAGELGYS 250

Query: 272 IYDMELT 278
           I  M L+
Sbjct: 251 ICLMSLS 257

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III.

Danio rerio (taxid: 7955)

>sp|Q9P6Q3|BCS1_SCHPO Probable mitochondrial chaperone bcs1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC644.07 PE=2 SV=1

 Score = 55.8 bits (133), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 27/86 (31%), Positives = 49/86 (56%), Gaps = 5/86 (5%)

Query: 197 AWGS--TNLDHPAT---FDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFG 251
           AW +      HP +      + ++ ++K+   DD+  F++   +Y   G  ++RGYLL+G
Sbjct: 190 AWATEWKPFGHPRSKRMLSSVVLESNVKKMITDDVHDFLRNSQWYDTRGIPYRRGYLLYG 249

Query: 252 PPGTGKSSLIAAMANYLKFNIYDMEL 277
           PPG+GK+S + A+A  L ++I  + L
Sbjct: 250 PPGSGKTSFLYALAGELDYDICVLNL 275

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III.

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

>sp|Q7ZTL7|BCS1_XENLA Mitochondrial chaperone BCS1 OS=Xenopus laevis GN=bcs1l PE=2 SV=1

 Score = 53.5 bits (127), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 39/61 (63%)

Query: 212 IAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFN 271
           + ++  + +  + D+  F++   +Y   G  ++RGYLL+GPPG GKSS I A+A  L+++
Sbjct: 191 VVLEQGISEKIVQDVKGFIENPKWYSDRGIPYRRGYLLYGPPGCGKSSFITALAGELEYS 250

Query: 272 I 272
           I
Sbjct: 251 I 251

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III.

Xenopus laevis (taxid: 8355)

>sp|Q9CZP5|BCS1_MOUSE Mitochondrial chaperone BCS1 OS=Mus musculus GN=Bcs1l PE=1 SV=1

 Score = 53.1 bits (126), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 33/110 (30%), Positives = 54/110 (49%), Gaps = 11/110 (10%)

Query: 166 VMEKSNAI---KEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQAS 222
           ++E++ A+   +E+ K V   AVG           +G      P   D + +   +    
Sbjct: 150 ILEEARALALQQEEGKTVMYTAVG------SEWRTFGYPRRRRP--LDSVVLQQGLADRI 201

Query: 223 IDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNI 272
           + D+  F+    +Y   G  ++RGYLL+GPPG GKSS I A+A  L+ +I
Sbjct: 202 VKDIREFIDNPKWYIDRGIPYRRGYLLYGPPGCGKSSFITALAGELEHSI 251

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III. Plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex.

Mus musculus (taxid: 10090)

>sp|Q2SF13|FTSH_HAHCH ATP-dependent zinc metalloprotease FtsH OS=Hahella chejuensis (strain KCTC 2396) GN=ftsH PE=3 SV=1

 Score = 51.6 bits (122), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 26/68 (38%), Positives = 40/68 (58%), Gaps = 1/68 (1%)

Query: 208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANY 267
           TFD++A   + K+  + +L  +++  + + RVG +  RG LL GPPGTGK+ L  A+A  
Sbjct: 174 TFDEVAGQTNAKR-EVQELVEYLRDPDRFHRVGALAPRGVLLMGPPGTGKTLLARALAGE 232

Query: 268 LKFNIYDM 275
              N Y M
Sbjct: 233 AGVNFYPM 240

Acts as a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. Plays a role in the quality control of integral membrane proteins.

Hahella chejuensis (strain KCTC 2396) (taxid: 349521)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 4

EC: .

EC: -

>sp|Q5E9H5|BCS1_BOVIN Mitochondrial chaperone BCS1 OS=Bos taurus GN=BCS1L PE=2 SV=1

 Score = 51.2 bits (121), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 22/64 (34%), Positives = 38/64 (59%)

Query: 209 FDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL 268
            + + ++  + +  + D+  F+    +Y   G  ++RGYLL+GPPG GKSS I A+A  L
Sbjct: 188 LNSVVLEQGVTERIVRDIREFIDNPKWYIDRGIPYRRGYLLYGPPGCGKSSFITALAGEL 247

Query: 269 KFNI 272
           + +I
Sbjct: 248 QHSI 251

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III. Plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex.

Bos taurus (taxid: 9913)

>sp|Q9Y276|BCS1_HUMAN Mitochondrial chaperone BCS1 OS=Homo sapiens GN=BCS1L PE=1 SV=1

 Score = 51.2 bits (121), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 22/64 (34%), Positives = 36/64 (56%)

Query: 209 FDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL 268
            + + +   +    + D+  F+    +Y   G  ++RGYLL+GPPG GKSS I A+A  L
Sbjct: 188 LNSVVLQQGLADRIVRDVQEFIDNPKWYTDRGIPYRRGYLLYGPPGCGKSSFITALAGEL 247

Query: 269 KFNI 272
           + +I
Sbjct: 248 EHSI 251

Chaperone necessary for the assembly of mitochondrial respiratory chain complex III. Plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex.

Homo sapiens (taxid: 9606)

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	288
359473565	516	PREDICTED: ATP-dependent zinc metallopro	0.993	0.554	0.625	1e-105
147766990	492	hypothetical protein VITISV_030608 [Viti	0.993	0.581	0.621	1e-104
255547776	503	ATP binding protein, putative [Ricinus c	0.989	0.566	0.627	1e-104
359473572	543	PREDICTED: peroxisomal biogenesis factor	0.996	0.528	0.602	1e-100
297738373	623	unnamed protein product [Vitis vinifera]	0.913	0.422	0.614	5e-97
359473721	486	PREDICTED: mitochondrial chaperone BCS1-	0.961	0.569	0.595	1e-95
359473719	482	PREDICTED: mitochondrial chaperone BCS1-	0.961	0.574	0.595	2e-95
147782591	513	hypothetical protein VITISV_031444 [Viti	0.961	0.539	0.595	2e-95
297738388	479	unnamed protein product [Vitis vinifera]	0.927	0.557	0.584	6e-94
147865124	476	hypothetical protein VITISV_036161 [Viti	0.934	0.565	0.597	6e-93

>gi|359473565|ref|XP_002265580.2| PREDICTED: ATP-dependent zinc metalloprotease FTSH, chloroplastic [Vitis vinifera]

 Score =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 185/296 (62%), Positives = 235/296 (79%), Gaps = 10/296 (3%)

Query: 1   MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMT 60
           MPS  SVLSTYT FAASAMLVRTV++EV+T+ +Q+IP+QL+  ++SKLGGL  +HSS+M 
Sbjct: 7   MPSTASVLSTYTTFAASAMLVRTVVSEVETMANQLIPQQLREKIVSKLGGLLGSHSSEMV 66

Query: 61  LIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEG 120
           L+I E+NG S+NQ+Y+ASELYL TKIT S+ +L VSK  +EKNLSVT++KGE + D+FEG
Sbjct: 67  LVIQEFNGLSVNQIYQASELYLRTKITPSVGRLNVSKGLREKNLSVTVSKGEMVVDVFEG 126

Query: 121 ICLVWEMTCKETEERS--------SQRGKAERVIELSFPKKYMERILNIYLPYVMEKSNA 172
           I L W++ C ET++ S        +     +R IEL F KKY E +L+ YLPYV+E+S A
Sbjct: 127 IELRWQLICAETQKPSFDYDSGSMATEKSEQRSIELIFHKKYKEVVLSTYLPYVIERSRA 186

Query: 173 IKEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKR 232
           IKE+NKVVKL ++G+F  D D  G WGS NL HP TFD +AMDP++K+  I DLDRFV+R
Sbjct: 187 IKEENKVVKLCSLGNFSEDYD--GPWGSINLSHPCTFDTLAMDPTLKKELIADLDRFVRR 244

Query: 233 RNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR 288
           R FY++VGK WKRGYLL+GPPGTGKSSLIAAMANYLKFNIYD+ELTS++ NS+LRR
Sbjct: 245 REFYQKVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFNIYDLELTSLWNNSDLRR 300

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147766990|emb|CAN69873.1| hypothetical protein VITISV_030608 [Vitis vinifera]

 Score =  385 bits (988), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 184/296 (62%), Positives = 234/296 (79%), Gaps = 10/296 (3%)

Query: 1   MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMT 60
           MPS   VLSTYT FAASAMLVRTV++EV+T+ +Q+IP+QL+  ++SKLGGL  +HSS+M 
Sbjct: 1   MPSTAXVLSTYTTFAASAMLVRTVVSEVETMANQLIPQQLREKIVSKLGGLLGSHSSEMV 60

Query: 61  LIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEG 120
           L+I E+NG S+NQ+Y+ASELYL TKIT S+ +L VSK  +EKNLSVT++KGE + D+FEG
Sbjct: 61  LVIQEFNGLSVNQIYQASELYLRTKITPSVGRLNVSKGLREKNLSVTVSKGEMVVDVFEG 120

Query: 121 ICLVWEMTCKETEERS--------SQRGKAERVIELSFPKKYMERILNIYLPYVMEKSNA 172
           I L W++ C ET++ S        +     +R IEL F KKY E +L+ YLPYV+E+S A
Sbjct: 121 IELRWQLICAETQKXSFDYDSGSMATEKSEQRSIELIFHKKYKEVVLSTYLPYVIERSRA 180

Query: 173 IKEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKR 232
           IKE+NKVVKL ++G+F  D D  G WGS NL HP TFD +AMDP++K+  I DLDRFV+R
Sbjct: 181 IKEENKVVKLCSLGNFSEDYD--GPWGSINLSHPCTFDTLAMDPTLKKELIADLDRFVRR 238

Query: 233 RNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR 288
           R FY++VGK WKRGYLL+GPPGTGKSSLIAAMANYLKFNIYD+ELTS++ NS+LRR
Sbjct: 239 REFYQKVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFNIYDLELTSLWNNSDLRR 294

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255547776|ref|XP_002514945.1| ATP binding protein, putative [Ricinus communis] gi|223545996|gb|EEF47499.1| ATP binding protein, putative [Ricinus communis]

 Score =  383 bits (984), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 184/293 (62%), Positives = 239/293 (81%), Gaps = 8/293 (2%)

Query: 1   MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMT 60
           +PS TSV+STYTAFAAS+MLVRTV+NEVQT+T+Q+IP++LQ  +++ LG LF  +S ++T
Sbjct: 10  IPSTTSVISTYTAFAASSMLVRTVLNEVQTMTAQLIPQKLQDKIMASLGSLFRLNSCKLT 69

Query: 61  LIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEG 120
           LIIDEYNGF+IN++Y+AS+ YLST+IT S+++LKVSK  +EKN +VTINKG++I+D FEG
Sbjct: 70  LIIDEYNGFTINEIYQASQAYLSTRITPSVDQLKVSKAPREKNFTVTINKGQRITDEFEG 129

Query: 121 ICLVWEMTCKETEERSSQRG----KAER-VIELSFPKKYMERILNIYLPYVMEKSNAIKE 175
           I + WE +  ET+  +S       K+ER +  L F K++ + +LN+YLPYV+E+S A+KE
Sbjct: 130 IQVAWEFSSTETQTAASDYSDSTEKSERKLFLLCFNKEHKDAVLNVYLPYVLERSKALKE 189

Query: 176 QNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNF 235
           +NK +KLY++  FGG+    G WGS NLDHP+TFD IAMDP +KQ  +DDLDRFV RR F
Sbjct: 190 ENKAIKLYSL--FGGEYYE-GPWGSINLDHPSTFDTIAMDPRLKQEVMDDLDRFVIRREF 246

Query: 236 YRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR 288
           YRRVG+ WKRGYLL+GPPGTGKSSLIAAMANYLKFNIYD+ELTS+  NSELRR
Sbjct: 247 YRRVGRPWKRGYLLYGPPGTGKSSLIAAMANYLKFNIYDLELTSISSNSELRR 299

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359473572|ref|XP_002265232.2| PREDICTED: peroxisomal biogenesis factor 6-like [Vitis vinifera]

 Score =  371 bits (952), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 174/289 (60%), Positives = 233/289 (80%), Gaps = 2/289 (0%)

Query: 1   MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMT 60
           MP+ +SV S YT F ASAMLV+T+++EVQTL  Q++P+QLQ  +LS +G L  + SSQMT
Sbjct: 59  MPATSSVFSAYTTFVASAMLVKTMLHEVQTLAKQLVPQQLQDKILSGIGRLLGDPSSQMT 118

Query: 61  LIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEG 120
           L+IDEYNG+++NQ++EAS++YL TKI+ ++ +L+VS++ +EKNL VTI+ GEK+ D+FEG
Sbjct: 119 LVIDEYNGYTMNQIFEASQIYLQTKISPAVSRLRVSRSPREKNLLVTISNGEKVIDVFEG 178

Query: 121 ICLVWEMTCKETEERSSQRGKAERVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVV 180
           I L WEM     +     +G+  R IELSF KK ME++L+ YLPYV+E+S +IKE+NKVV
Sbjct: 179 IQLKWEMVSSTEKVMGGDKGE-RRSIELSFLKKNMEKVLSSYLPYVVERSESIKEENKVV 237

Query: 181 KLYAVGHF-GGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRV 239
           KLY++G+F GG    GGAWGS NLDHP+TF+ +AMD  +K+  I DLDRFV+RR FY+RV
Sbjct: 238 KLYSLGNFQGGAMVGGGAWGSINLDHPSTFETLAMDLKLKEDLIKDLDRFVRRRKFYKRV 297

Query: 240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR 288
           GK WKRGYLL+GPPGTGK+SLIAAMANYLKF++YD+ELTS+  NS+LR+
Sbjct: 298 GKAWKRGYLLYGPPGTGKTSLIAAMANYLKFDVYDLELTSLQRNSQLRK 346

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297738373|emb|CBI27574.3| unnamed protein product [Vitis vinifera]

 Score =  360 bits (923), Expect = 5e-97,   Method: Compositional matrix adjust.
 Identities = 177/288 (61%), Positives = 223/288 (77%), Gaps = 25/288 (8%)

Query: 1   MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMT 60
           MPS  SVLSTYT FAASAMLVRTV++EV+T+ +Q+IP+QL+  ++SKLGGL  +HSS+M 
Sbjct: 7   MPSTASVLSTYTTFAASAMLVRTVVSEVETMANQLIPQQLREKIVSKLGGLLGSHSSEMV 66

Query: 61  LIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEG 120
           L+I E+NG S+NQ+Y+ASELYL TKIT S+ +L VSK  +EKNLSVT++KGE + D    
Sbjct: 67  LVIQEFNGLSVNQIYQASELYLRTKITPSVGRLNVSKGLREKNLSVTVSKGEMVVD---- 122

Query: 121 ICLVWEMTCKETEERSSQRGKAERVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVV 180
                     ++E+RS         IEL F KKY E +L+ YLPYV+E+S AIKE+NKVV
Sbjct: 123 ----------KSEQRS---------IELIFHKKYKEVVLSTYLPYVIERSRAIKEENKVV 163

Query: 181 KLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVG 240
           KL ++G+F  D D  G WGS NL HP TFD +AMDP++K+  I DLDRFV+RR FY++VG
Sbjct: 164 KLCSLGNFSEDYD--GPWGSINLSHPCTFDTLAMDPTLKKELIADLDRFVRRREFYQKVG 221

Query: 241 KVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR 288
           K WKRGYLL+GPPGTGKSSLIAAMANYLKFNIYD+ELTS++ NS+LRR
Sbjct: 222 KAWKRGYLLYGPPGTGKSSLIAAMANYLKFNIYDLELTSLWNNSDLRR 269

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359473721|ref|XP_003631352.1| PREDICTED: mitochondrial chaperone BCS1-like isoform 2 [Vitis vinifera]

 Score =  355 bits (911), Expect = 1e-95,   Method: Compositional matrix adjust.
 Identities = 172/289 (59%), Positives = 225/289 (77%), Gaps = 12/289 (4%)

Query: 1   MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMT 60
           MPSAT+VLSTY+ FAASAMLVRTV +E+QT  +QIIP +++  +LSK+G L  N SSQ+T
Sbjct: 1   MPSATTVLSTYSTFAASAMLVRTVFSEIQTTVTQIIPPKIREKILSKIGSLLGNPSSQIT 60

Query: 61  LIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEG 120
           LI D+Y+G+++NQ+YEA +++L TKI  S++KL V +  + +NL +TI +GE   DIFEG
Sbjct: 61  LIFDDYDGYAVNQMYEACKIFLRTKIPPSVQKLNVFRAPERQNLLITIGEGETAIDIFEG 120

Query: 121 ICLVWEMTCKETEERSSQRGKAE-RVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKV 179
           I + WEM C  T++RS +    E R +ELSFPKK M+RIL+ YLPYV+E+S A  E+NKV
Sbjct: 121 IQVKWEMVC--TKKRSIEGVDYEARSMELSFPKKNMDRILSSYLPYVVERSKAFIEENKV 178

Query: 180 VKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRV 239
           +KLY+ G         G+W STNL HP+TF+ +AMD  +KQ  I+DLDRFVKR+ +Y+RV
Sbjct: 179 LKLYSYG---------GSWESTNLHHPSTFETLAMDSKLKQDLINDLDRFVKRKKYYKRV 229

Query: 240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR 288
           G+ WKRGYLL+GPPGTGKSSLIAAMANYLKF+IYD+ELTS+ CNSE RR
Sbjct: 230 GRAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDLELTSLRCNSEFRR 278

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359473719|ref|XP_003631351.1| PREDICTED: mitochondrial chaperone BCS1-like isoform 1 [Vitis vinifera]

 Score =  355 bits (910), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 172/289 (59%), Positives = 225/289 (77%), Gaps = 12/289 (4%)

Query: 1   MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMT 60
           MPSAT+VLSTY+ FAASAMLVRTV +E+QT  +QIIP +++  +LSK+G L  N SSQ+T
Sbjct: 1   MPSATTVLSTYSTFAASAMLVRTVFSEIQTTVTQIIPPKIREKILSKIGSLLGNPSSQIT 60

Query: 61  LIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEG 120
           LI D+Y+G+++NQ+YEA +++L TKI  S++KL V +  + +NL +TI +GE   DIFEG
Sbjct: 61  LIFDDYDGYAVNQMYEACKIFLRTKIPPSVQKLNVFRAPERQNLLITIGEGETAIDIFEG 120

Query: 121 ICLVWEMTCKETEERSSQRGKAE-RVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKV 179
           I + WEM C  T++RS +    E R +ELSFPKK M+RIL+ YLPYV+E+S A  E+NKV
Sbjct: 121 IQVKWEMVC--TKKRSIEGVDYEARSMELSFPKKNMDRILSSYLPYVVERSKAFIEENKV 178

Query: 180 VKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRV 239
           +KLY+ G         G+W STNL HP+TF+ +AMD  +KQ  I+DLDRFVKR+ +Y+RV
Sbjct: 179 LKLYSYG---------GSWESTNLHHPSTFETLAMDSKLKQDLINDLDRFVKRKKYYKRV 229

Query: 240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR 288
           G+ WKRGYLL+GPPGTGKSSLIAAMANYLKF+IYD+ELTS+ CNSE RR
Sbjct: 230 GRAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDLELTSLRCNSEFRR 278

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147782591|emb|CAN70582.1| hypothetical protein VITISV_031444 [Vitis vinifera]

 Score =  355 bits (910), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 172/289 (59%), Positives = 225/289 (77%), Gaps = 12/289 (4%)

Query: 1   MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMT 60
           MPSAT+VLSTY+ FAASAMLVRTV +E+QT  +QIIP +++  +LSK+G L  N SSQ+T
Sbjct: 13  MPSATTVLSTYSTFAASAMLVRTVFSEIQTTVTQIIPPKIREKILSKIGSLLGNPSSQIT 72

Query: 61  LIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEG 120
           LI D+Y+G+++NQ+YEA +++L TKI  S++KL V +  + +NL +TI +GE   DIFEG
Sbjct: 73  LIFDDYDGYAVNQMYEACKIFLRTKIPPSVQKLNVFRAPERQNLLITIAEGETAIDIFEG 132

Query: 121 ICLVWEMTCKETEERSSQRGKAE-RVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKV 179
           I + WEM C  T++RS +    E R +ELSFPKK M+RIL+ YLPYV+E+S A  E+NKV
Sbjct: 133 IQVKWEMVC--TKKRSIEGVDYEARSMELSFPKKNMDRILSSYLPYVVERSKAFIEENKV 190

Query: 180 VKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRV 239
           +KLY+ G         G+W STNL HP+TF+ +AMD  +KQ  I+DLDRFVKR+ +Y+RV
Sbjct: 191 LKLYSYG---------GSWESTNLHHPSTFETLAMDSKLKQDLINDLDRFVKRKKYYKRV 241

Query: 240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR 288
           G+ WKRGYLL+GPPGTGKSSLIAAMANYLKF+IYD+ELTS+ CNSE RR
Sbjct: 242 GRAWKRGYLLYGPPGTGKSSLIAAMANYLKFDIYDLELTSLRCNSEFRR 290

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297738388|emb|CBI27589.3| unnamed protein product [Vitis vinifera]

 Score =  349 bits (896), Expect = 6e-94,   Method: Compositional matrix adjust.
 Identities = 169/289 (58%), Positives = 225/289 (77%), Gaps = 22/289 (7%)

Query: 1   MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMT 60
           MPS +SVLS YT FAASAM+V+T+++EVQT+  Q+IP+ LQ  +LS +G L  + SSQMT
Sbjct: 7   MPSTSSVLSAYTTFAASAMVVKTMLHEVQTMAKQLIPQPLQDKILSGIGRLLGDPSSQMT 66

Query: 61  LIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEG 120
           L+IDEYNG+++NQ++EASE+YL T+I+ ++ +L+VS+  +EK+L +TINKGEK+      
Sbjct: 67  LVIDEYNGYAMNQIFEASEIYLQTRISPAVSRLRVSRAPREKDLLITINKGEKV------ 120

Query: 121 ICLVWEMTCKETEERSSQRGKAERVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVV 180
                 M   + E RS         IELSF KKYME++L+ YLPYV+E+S +IKE+NKVV
Sbjct: 121 ------MGGDKGERRS---------IELSFLKKYMEKVLSSYLPYVVERSESIKEENKVV 165

Query: 181 KLYAVGHF-GGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRV 239
           KLY++G+F GG    GGAWGS NLDHP+TF+ +AMD  +K+  I DLDRFV+RR FY+RV
Sbjct: 166 KLYSLGNFQGGAMVGGGAWGSINLDHPSTFETLAMDLKLKEDLIKDLDRFVRRRKFYKRV 225

Query: 240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR 288
           GK WKRGYLL+GPPGTGK+SLIAAMANYLKF++YD+ELTS+  NS+LR+
Sbjct: 226 GKAWKRGYLLYGPPGTGKTSLIAAMANYLKFDVYDLELTSLQRNSQLRK 274

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147865124|emb|CAN79835.1| hypothetical protein VITISV_036161 [Vitis vinifera]

 Score =  346 bits (888), Expect = 6e-93,   Method: Compositional matrix adjust.
 Identities = 162/271 (59%), Positives = 218/271 (80%), Gaps = 2/271 (0%)

Query: 19  MLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMTLIIDEYNGFSINQLYEAS 78
           M+V+T+++EVQT+  Q+IP+ LQ  +LS +G L  + SSQMTL+IDEYNG+++NQ++EAS
Sbjct: 1   MVVKTMLHEVQTMAKQLIPQPLQDKILSGIGRLLGDPSSQMTLVIDEYNGYAMNQIFEAS 60

Query: 79  ELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEGICLVWEMTCKETEERSSQ 138
           E+YL T I+ ++ +L+VS+  +EK+L +TINKGEK+ D+FEGI L WEM     +     
Sbjct: 61  EIYLQTXISPAVSRLRVSRAPREKDLLITINKGEKVIDVFEGIQLKWEMVSSTEKVMGGD 120

Query: 139 RGKAERVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVVKLYAVGHF-GGDSDRGGA 197
           +G+  R IELSF KKYME++L+ YLPYV+E+S  IKE+NKVVKLY++G+F GG    GGA
Sbjct: 121 KGE-RRSIELSFLKKYMEKVLSSYLPYVVERSELIKEENKVVKLYSLGNFQGGAMVGGGA 179

Query: 198 WGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGK 257
           WGS NLDHP+TF+ +AMD  +K+  I DLDRFV+RR FY+RVGK WKRGYLL+GPPGTGK
Sbjct: 180 WGSINLDHPSTFETLAMDLKLKEDLIKDLDRFVRRRKFYKRVGKAWKRGYLLYGPPGTGK 239

Query: 258 SSLIAAMANYLKFNIYDMELTSVYCNSELRR 288
           +SLIAAMANYLKF++YD+ELTS+  NS+LR+
Sbjct: 240 TSLIAAMANYLKFDVYDLELTSLQRNSQLRK 270

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	288
TAIR|locus:1005716649	495	AT2G18193 [Arabidopsis thalian	0.954	0.555	0.456	8.5e-65
TAIR|locus:2077997	576	BCS1 "cytochrome BC1 synthesis	0.961	0.480	0.433	4.8e-62
TAIR|locus:2053109	494	AT2G18190 [Arabidopsis thalian	0.951	0.554	0.447	1e-61
TAIR|locus:2078007	451	AT3G50940 [Arabidopsis thalian	0.954	0.609	0.425	4.3e-61
TAIR|locus:2175956	533	AT5G17740 [Arabidopsis thalian	0.951	0.514	0.406	2e-56
TAIR|locus:2175946	470	AT5G17730 [Arabidopsis thalian	0.947	0.580	0.402	6.8e-56
TAIR|locus:2175986	505	AT5G17760 [Arabidopsis thalian	0.944	0.538	0.403	2.3e-55
TAIR|locus:2174502	520	AT5G57480 [Arabidopsis thalian	0.902	0.5	0.399	1.1e-48
TAIR|locus:2175976	392	AT5G17750 [Arabidopsis thalian	0.739	0.543	0.407	4.7e-48
TAIR|locus:505006520	506	AT4G25835 [Arabidopsis thalian	0.899	0.511	0.401	2.6e-47

TAIR|locus:1005716649 AT2G18193 [Arabidopsis thaliana (taxid:3702)]

 Score = 660 (237.4 bits), Expect = 8.5e-65, P = 8.5e-65
 Identities = 132/289 (45%), Positives = 193/289 (66%)

Query:     3 SATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMTLI 62
             S +S+ S Y +     ML R+++++        +P++L++   S L   FT  S  +T+I
Sbjct:    10 SPSSLFSAYASLTGFLMLFRSMLHD-------FVPEKLRSYFSSLLDRFFTPKSKYLTVI 62

Query:    63 IDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEGIC 122
             IDE  G + NQ+++A+E+YL +KI    E+L+V K  K+K+ +++I +GE+I D FE   
Sbjct:    63 IDENFGLNRNQVFDAAEMYLRSKIGPETERLRVGKIPKQKHFTISIERGEEILDTFEESE 122

Query:   123 LVWEMTCKETEERSSQRGKAERVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVVKL 182
             + W     E E+      K +R  EL+F KK  +++LN YL +V+ +S  IK   +VVKL
Sbjct:   123 VKWSYVQSENEKGD----KVKRYYELTFEKKLRDKVLNSYLTHVVAESEEIKRNLRVVKL 178

Query:   183 YAVGHFGGDSD---RGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRV 239
             Y+   +  D D    GG WG  NL+HP+TFD +AMDP+ K+  IDDL+RF+KR+ FY+RV
Sbjct:   179 YSRDVYASDDDDGMAGGNWGCINLEHPSTFDTLAMDPNAKKKIIDDLERFLKRKEFYKRV 238

Query:   240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR 288
             GK WKRGYLL+GPPGTGKSSLIAAMANYLKF+++D+EL+S+Y N EL+R
Sbjct:   239 GKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIYDNGELKR 287

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0016887 "ATPase activity" evidence=ISS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0005783 "endoplasmic reticulum" evidence=IDA

TAIR|locus:2077997 BCS1 "cytochrome BC1 synthesis" [Arabidopsis thaliana (taxid:3702)]

 Score = 634 (228.2 bits), Expect = 4.8e-62, P = 4.8e-62
 Identities = 130/300 (43%), Positives = 201/300 (67%)

Query:     1 MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMT 60
             + +A +VL+T  + AA+AML R+++ +        +P ++   +      +F   SSQMT
Sbjct:    55 LATAKTVLTTAASVAATAMLARSLVQDY-------LPDEVHHYISYGFRSIFGYFSSQMT 107

Query:    61 LIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEG 120
             +II+E+ GF+ N+++EA+E YL+TKI+ S +++KVSK  KE N +VT+ + E++ D + G
Sbjct:   108 IIIEEFEGFAHNEVFEAAEAYLATKISPSNKRIKVSKHEKENNYNVTVERDEEVVDTYNG 167

Query:   121 ICLVWEMTCKETEER---------SSQRGKAERVIELSFPKKYMERILNIYLPYVMEKSN 171
             +   W + C+  E +         S+ R +  R  EL+F KK+ +  L  YLP++++++ 
Sbjct:   168 VKFQWILHCRHVESKHFHNPRDLNSTLRSEV-RSFELNFHKKFKDVALESYLPFMVKRAT 226

Query:   172 AIKEQNKVVKLYAVGH---FGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDR 228
              +K++ K +K++ +     +G  SD   AW S  LDHP+TF  +AMD  +K + ++DLD+
Sbjct:   227 LMKQEKKTLKIFTLSPENMYGNYSD---AWTSVTLDHPSTFKTLAMDSDVKTSVMEDLDK 283

Query:   229 FVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR 288
             FVKRR+FY+RVGK WKRGYLL+GPPGTGKSSLIAAMAN+L F+IYD+ELT+V  NSELRR
Sbjct:   284 FVKRRDFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLNFDIYDLELTAVNNNSELRR 343

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0009611 "response to wounding" evidence=RCA

GO:0009612 "response to mechanical stimulus" evidence=RCA

GO:0009627 "systemic acquired resistance" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

GO:0010200 "response to chitin" evidence=RCA

GO:0052542 "defense response by callose deposition" evidence=RCA

TAIR|locus:2053109 AT2G18190 [Arabidopsis thaliana (taxid:3702)]

 Score = 631 (227.2 bits), Expect = 1.0e-61, P = 1.0e-61
 Identities = 129/288 (44%), Positives = 189/288 (65%)

Query:     3 SATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMTLI 62
             S +S+ + Y +     ML R++ N+        +P++L++ +   L   FT  S  +T++
Sbjct:    11 SPSSLFTAYASLTGFLMLFRSLFNDE-------VPERLRSYITDLLNRFFTPKSKNLTMV 63

Query:    63 IDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEGIC 122
             IDE  GF  NQ+++A+E+YL  KI     +L+V K  K+K+ ++ I KGE+I D FE   
Sbjct:    64 IDEIIGFKRNQVFDAAEVYLRNKIGPETARLRVGKLPKQKHFTIYIEKGEEILDTFENSE 123

Query:   123 LVWEMTCKETEERSSQRGKAERVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVVKL 182
             L W  T  E+E  +SQ+ K  R  EL+F KK  ++++N YL +V+ +S   K   + VKL
Sbjct:   124 LRW--TYVESENEASQKEK--RYYELTFEKKLRDKVMNSYLSHVVAESEETKRDLRAVKL 179

Query:   183 YAVGHFGGDSDRG--GA-WGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRV 239
             Y+        D G  GA WG  NL+HP+TF+ +AMDP  K+  IDD++RF+KRR FY+RV
Sbjct:   180 YSRDVRASKDDDGMAGAGWGCINLEHPSTFETLAMDPGAKKKIIDDMERFLKRREFYKRV 239

Query:   240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELR 287
             GK WKRGYLL+GPPGTGKSSLIAAMANYLKF+++D+EL+S+Y N++L+
Sbjct:   240 GKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIYENAQLK 287

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0016887 "ATPase activity" evidence=ISS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

TAIR|locus:2078007 AT3G50940 [Arabidopsis thaliana (taxid:3702)]

 Score = 625 (225.1 bits), Expect = 4.3e-61, P = 4.3e-61
 Identities = 126/296 (42%), Positives = 196/296 (66%)

Query:     1 MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMT 60
             + +A + L+   + AA+A+L R+V+ +        +P ++   +       F+  S QMT
Sbjct:     9 LATAKTALTAVASVAAAAILARSVVQDY-------MPNEVHEYISHGFRRFFSYFSYQMT 61

Query:    61 LIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEG 120
              +I+E+ GF  NQ++EA+E YLSTKI+ S  ++KV+K  K+ N SVT+ + E++ DIF+G
Sbjct:    62 AVIEEFGGFEHNQVFEAAEAYLSTKISNSTRRIKVNKLEKQSNYSVTVERDEEVVDIFDG 121

Query:   121 ICLVWEMTCKETEERSSQRG-------KAE-RVIELSFPKKYMERILNIYLPYVMEKSNA 172
             + L W + C+  +++  +         K+E R  ELSF KK+   +L  YLP+V+E++ +
Sbjct:   122 VKLSWILVCRHVDKKDFRNPRDLNSTLKSEVRSYELSFRKKFKNMVLESYLPFVVEQAAS 181

Query:   173 IKEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKR 232
             IK++ K +K++ V  +  +      W S  LDHP+TF  +A+DP +K+  ++DLDRFV+R
Sbjct:   182 IKQKFKTLKIFTVDSYSVE------WTSVTLDHPSTFRTLALDPEVKKNLVEDLDRFVQR 235

Query:   233 RNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR 288
             + FY RVGK WKRGYLL+GPPGTGKSSLIAA+AN+L F+IYD++LTS+  N+ELRR
Sbjct:   236 KGFYGRVGKAWKRGYLLYGPPGTGKSSLIAAIANHLNFDIYDLDLTSLNNNAELRR 291

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

TAIR|locus:2175956 AT5G17740 [Arabidopsis thaliana (taxid:3702)]

 Score = 581 (209.6 bits), Expect = 2.0e-56, P = 2.0e-56
 Identities = 120/295 (40%), Positives = 185/295 (62%)

Query:     1 MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMT 60
             +PS  S+ STY +     M+++ +IN        IIP+ +Q  + S L     + SS +T
Sbjct:     7 IPSPASMFSTYASMMGYVMIIKPMINT-------IIPRPVQNFVFSYLKSFAGSRSSTLT 59

Query:    61 LIIDEYNGFSI-NQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFE 119
             L ID+ +   I ++LY A++ YLSTKI+ +  +L +++   EK + + ++ GE +SD++ 
Sbjct:    60 LTIDQMSSMYIPDELYAAAQAYLSTKISPNSVRLIMARDPAEKKVKLYLSDGEVVSDVYN 119

Query:   120 GICLVWEMTCKE-----TEERS-SQRGKAERV-IELSFPKKYMERILNIYLPYVMEKSNA 172
             GI L W    +       EE   S +G  +R  +ELSF KK+ + ++N Y+PYV  K+  
Sbjct:   120 GIKLKWRFLARNKNNTMVEEYGQSYQGNIQRESLELSFDKKHRDLVVNSYIPYVESKAKE 179

Query:   173 IKEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKR 232
             +  + +++K++   H          W S N  HP+TFD +AM+  +K++ I+DLDRFV R
Sbjct:   180 VNNKRRILKMHCYSHMAQ------TWQSVNFKHPSTFDTMAMNDDLKRSMIEDLDRFVGR 233

Query:   233 RNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELR 287
             ++FY+RVGK WKRGYLL+GPPGTGKSSL+AAMANYLKF+IYD++L SV  ++ LR
Sbjct:   234 KDFYKRVGKAWKRGYLLYGPPGTGKSSLVAAMANYLKFDIYDLQLASVQGDAHLR 288

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

TAIR|locus:2175946 AT5G17730 [Arabidopsis thaliana (taxid:3702)]

 Score = 576 (207.8 bits), Expect = 6.8e-56, P = 6.8e-56
 Identities = 120/298 (40%), Positives = 189/298 (63%)

Query:     1 MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMT 60
             +PS    +S Y +     M+++  +     +T   IP  LQ  M+S L     +  S +T
Sbjct:     7 LPSLAPFVSAYASLTGYVMMIKPFLE----MT---IPPPLQNYMISYLNSFLHSTPSTLT 59

Query:    61 LIIDEY--NGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIF 118
             LIID++  NG   N+LY A+++Y+STK+  + E+L++S+   EKN+++  + GE +SDI+
Sbjct:    60 LIIDDHIKNGM-YNELYGAAQVYISTKVNHNAERLRISRDRSEKNVNIHFSVGEVVSDIY 118

Query:   119 EGICLVWEMTCKETEERSSQRGKAERV--------IELSFPKKYMERILNIYLPYVMEKS 170
             +GI + W   C ++ + +      E          +ELSF KK+ E +LN Y+PYV  K+
Sbjct:   119 QGIEVKWRF-CVDSNKSNMVHYFGEHFKLNPDRECVELSFEKKHTELVLNSYIPYVESKA 177

Query:   171 NAIKEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFV 230
               I  + K++K+Y+             W S NL+HP+TFD +AM+  +K++ + DLDRF+
Sbjct:   178 KVINNERKILKMYSY------CCMYLKWQSVNLEHPSTFDTMAMNEELKRSVMGDLDRFI 231

Query:   231 KRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR 288
             +R++FY+RVGK WKRGYLL+GPPGTGK+SL+AA+ANYLKF+IYD++L SV  +++LRR
Sbjct:   232 RRKDFYKRVGKPWKRGYLLYGPPGTGKTSLVAAIANYLKFDIYDLQLASVREDADLRR 289

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

TAIR|locus:2175986 AT5G17760 [Arabidopsis thaliana (taxid:3702)]

 Score = 571 (206.1 bits), Expect = 2.3e-55, P = 2.3e-55
 Identities = 124/307 (40%), Positives = 197/307 (64%)

Query:     1 MPSATSVLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLF-TNHSSQM 59
             +PS TSV + Y + A   M++R++ +E       +IP  LQ  +   L  LF  + SS +
Sbjct:     7 LPSPTSVFTAYASMAGYMMMIRSMAHE-------LIPAPLQDFIYRTLRSLFFRSSSSTL 59

Query:    60 TLIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFE 119
             TL ID+ N    N++Y A++ YLSTKI+    +L++SK  K+K++++ ++ GE ++D++E
Sbjct:    60 TLTIDDDNMGMNNEIYRAAQTYLSTKISPDAVRLRISKGHKDKHVNLYLSDGEIVNDVYE 119

Query:   120 GICLVWEMTCKETEERSS------------QRG------KAERVIELSFPKKYMERILNI 161
              + LVW       +++              +RG      K+E   ELSF KK+ + ILN 
Sbjct:   120 DVQLVWRFVTDGGDKKGGGGGVGGRGGGGGRRGGMDDDGKSE-YFELSFDKKHKDLILNS 178

Query:   162 YLPYVMEKSNAIKEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQA 221
             Y+PY+  K+  I+++ +++ L+++     +S R   W S  L+HP+TF+ +AM+  +K+ 
Sbjct:   179 YVPYIESKAKEIRDERRILMLHSL-----NSLR---WESVILEHPSTFETMAMEDDLKRD 230

Query:   222 SIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY 281
              I+DLDRF++R+ FY+RVGK WKRGYLL+GPPGTGKSSL+AAMANYLKF++YD++L SV 
Sbjct:   231 VIEDLDRFIRRKEFYKRVGKAWKRGYLLYGPPGTGKSSLVAAMANYLKFDVYDLQLASVM 290

Query:   282 CNSELRR 288
              +S+LRR
Sbjct:   291 RDSDLRR 297

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

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

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0009627 "systemic acquired resistance" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

TAIR|locus:2174502 AT5G57480 [Arabidopsis thaliana (taxid:3702)]

 Score = 508 (183.9 bits), Expect = 1.1e-48, P = 1.1e-48
 Identities = 105/263 (39%), Positives = 158/263 (60%)

Query:    29 QTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMTLIIDEYNGFSINQLYEASELYLSTKITA 88
             Q+L   I P +L+   L     +F   SS     I E +G + N+LY A +LYLS+ ++ 
Sbjct:    19 QSLMQSIFPPELRFAFLKFFNRIFHVFSSYCYFDITEIDGVNTNELYNAVQLYLSSSVSI 78

Query:    89 SLEKLKVSKTTKEKNLSVTINKGEKISDIFEGICLVWE--MTCKETEERSSQRGKAE-RV 145
             +  +L +++     +++  ++  + I D F G+ ++WE  +T ++T+  + +    E R 
Sbjct:    79 AGNRLSLTRAVNSSSITFGLSNNDSIVDTFNGVTVLWEHVVTQRQTQTFAWRPLPEEKRG 138

Query:   146 IELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDH 205
               L   KK    ILN YL Y+ME++N I+ +N+   LY     G    RG  W S    H
Sbjct:   139 FTLRIKKKDKTLILNSYLDYIMERANEIRRKNQDRLLYTNSRGGSLDSRGHPWESVPFKH 198

Query:   206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMA 265
             P+TF+ +AMDP  KQ  +DDL  F + + FY++ G+ WKRGYLL+GPPGTGKSS+IAAMA
Sbjct:   199 PSTFETLAMDPRKKQQIMDDLKDFAEGQVFYQKTGRAWKRGYLLYGPPGTGKSSMIAAMA 258

Query:   266 NYLKFNIYDMELTSVYCNSELRR 288
             NYL ++IYD+ELT V+ NSELR+
Sbjct:   259 NYLGYDIYDLELTEVHSNSELRK 281

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0009407 "toxin catabolic process" evidence=RCA

GO:0010583 "response to cyclopentenone" evidence=RCA

TAIR|locus:2175976 AT5G17750 [Arabidopsis thaliana (taxid:3702)]

 Score = 464 (168.4 bits), Expect = 4.7e-48, Sum P(2) = 4.7e-48
 Identities = 92/226 (40%), Positives = 150/226 (66%)

Query:    69 FS-INQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEKISDIFEGICLVW-- 125
             FS I     + + YLS+KI+    KL++++    KN+++ +++GE +SD+++GI L W  
Sbjct:    44 FSYIKSFVGSPQAYLSSKISPDASKLRMTRDPNNKNVNLHLSQGEVVSDVYKGIELKWRY 103

Query:   126 -EMTCKETEERSSQRGKAE---RVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVVK 181
              E   K+T     +  +A    +  ELSF KK+ + ++  Y+ YV  K+  IKE+ +++K
Sbjct:   104 LEGRNKKTTVVGEETEEAIVNWQCFELSFDKKHKDLVVKSYIAYVERKAKVIKEERRIIK 163

Query:   182 LYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGK 241
             +++   +   + R   W S   +HP+TF  +AM P +K + ++DLDRF+KR+++Y+RVGK
Sbjct:   164 MHSYSSY---TLR---WQSVKFEHPSTFHTMAMTPKLKSSVMEDLDRFIKRKDYYKRVGK 217

Query:   242 VWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELR 287
              WKR Y L+GPPGTGKSSL+AAMANYLKF+IYD++L +V  +++LR
Sbjct:   218 AWKRSYFLYGPPGTGKSSLVAAMANYLKFDIYDLQLANVQGDAQLR 263

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

TAIR|locus:505006520 AT4G25835 [Arabidopsis thaliana (taxid:3702)]

 Score = 495 (179.3 bits), Expect = 2.6e-47, P = 2.6e-47
 Identities = 106/264 (40%), Positives = 158/264 (59%)

Query:    29 QTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMTLI-IDEYNGFSINQLYEASELYLSTKIT 87
             Q+L + + P +L+   +SKL   F    S      I E +G + N+LY A +LYLS+ ++
Sbjct:    19 QSLMNSVFPPELR-FAISKLFNKFFKLFSTFCYFDITEIDGVNTNELYNAVQLYLSSSVS 77

Query:    88 ASLEKLKVSKTTKEKNLSVTINKGEKISDIFEGICLVWE--MTCKETEERSSQRGKAE-R 144
              +  +L +++     +++  ++  + I D F  + +VWE  +T ++T+  + +    E R
Sbjct:    78 IAGNRLSLTRAVNSSSVTFGLSNNDSIVDTFNSVTVVWEHIVTQRQTQTFAWRPMPEEKR 137

Query:   145 VIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVVKLYAVGHFGGDSDRGGAWGSTNLD 204
                L   KK    IL+ YL Y+MEK+N I+  N+   LY     G    RG  W S    
Sbjct:   138 GFTLRIKKKDKNLILDSYLDYIMEKANEIRRLNQDRLLYTNSRGGSLDSRGLPWESVPFK 197

Query:   205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAM 264
             HP+TFD +AMDP  KQ  ++DL  F + ++FY R G+ WKRGYLL+GPPGTGKSS+IAAM
Sbjct:   198 HPSTFDTLAMDPVKKQQIMEDLKDFAECQSFYERTGRAWKRGYLLYGPPGTGKSSMIAAM 257

Query:   265 ANYLKFNIYDMELTSVYCNSELRR 288
             ANYL+++IYD+ELT V  NSELR+
Sbjct:   258 ANYLRYDIYDLELTEVKSNSELRK 281

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by 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	288
pfam14363	100	pfam14363, AAA_assoc, Domain associated at C-termi	2e-32
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	2e-06
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	3e-05
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	3e-05
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	8e-05
smart00382	148	smart00382, AAA, ATPases associated with a variety	5e-04
PRK08939	306	PRK08939, PRK08939, primosomal protein DnaI; Revie	5e-04
COG1484	254	COG1484, DnaC, DNA replication protein [DNA replic	7e-04
PRK06851	367	PRK06851, PRK06851, hypothetical protein; Provisio	0.001
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	0.001
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	0.002
PRK08116	268	PRK08116, PRK08116, hypothetical protein; Validate	0.002
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	0.002
pfam13207	114	pfam13207, AAA_17, AAA domain	0.003
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	0.004

>gnl|CDD|222710 pfam14363, AAA_assoc, Domain associated at C-terminal with AAA

 Score =  114 bits (289), Expect = 2e-32
 Identities = 44/100 (44%), Positives = 68/100 (68%), Gaps = 3/100 (3%)

Query: 35  IIPKQLQTMMLSKLGGLFTNH-SSQMTLIIDEYNGFSINQLYEASELYLSTKITASLEKL 93
           ++P +L+  + S L  LF +  S  +T++IDEY+GFS NQLY+A+E YLSTKI+ S  +L
Sbjct: 1   LLPHELREYLSSLLRRLFGSRFSPYLTIVIDEYDGFSRNQLYDAAEAYLSTKISPSARRL 60

Query: 94  KVSKTTKEKN--LSVTINKGEKISDIFEGICLVWEMTCKE 131
           K SK  K KN  L ++++ GE+++D+FEG+ + W     E
Sbjct: 61  KASKAKKSKNSSLVLSLDDGEEVTDVFEGVKVWWTSVVTE 100

This domain is found in association with the AAA family, pfam00004. Length = 100

>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular activities (AAA)

 Score = 46.1 bits (110), Expect = 2e-06
 Identities = 17/38 (44%), Positives = 23/38 (60%), Gaps = 3/38 (7%)

Query: 247 YLLFGPPGTGKSSLIAAMANYLKFNIYDM---ELTSVY 281
            LL+GPPGTGK++L  A+A  L     ++   EL S Y
Sbjct: 1   LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKY 38

AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes. Length = 131

>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

 Score = 44.8 bits (106), Expect = 3e-05
 Identities = 24/77 (31%), Positives = 38/77 (49%), Gaps = 3/77 (3%)

Query: 208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANY 267
           T D I      K+   + ++  +KR   +R++G    +G LL+GPPGTGK+ L  A+A  
Sbjct: 240 TLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALE 299

Query: 268 LKFNIY---DMELTSVY 281
            +         EL S +
Sbjct: 300 SRSRFISVKGSELLSKW 316

Length = 494

>gnl|CDD|99707 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

 Score = 42.9 bits (101), Expect = 3e-05
 Identities = 14/32 (43%), Positives = 19/32 (59%)

Query: 244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDM 275
            +  LL+GPPGTGK++L  A+AN L       
Sbjct: 19  PKNLLLYGPPGTGKTTLARAIANELFRPGAPF 50

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. Length = 151

>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated

 Score = 43.5 bits (103), Expect = 8e-05
 Identities = 22/59 (37%), Positives = 32/59 (54%), Gaps = 1/59 (1%)

Query: 208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMAN 266
           TF  IA     K+   +++  F+K+   +  VG    +G LL GPPGTGK+ L  A+A 
Sbjct: 181 TFRDIAGIEEAKE-EFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAG 238

Length = 638

>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular activities

 Score = 39.3 bits (91), Expect = 5e-04
 Identities = 11/36 (30%), Positives = 17/36 (47%)

Query: 244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTS 279
               L+ GPPG+GK++L  A+A  L      +    
Sbjct: 2   GEVILIVGPPGSGKTTLARALARELGPPGGGVIYID 37

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. Length = 148

>gnl|CDD|236353 PRK08939, PRK08939, primosomal protein DnaI; Reviewed

 Score = 40.6 bits (96), Expect = 5e-04
 Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 5/63 (7%)

Query: 207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMAN 266
           A+   I +D   +  ++     F++    Y    KV  +G  L+G  G GKS L+AA+AN
Sbjct: 124 ASLADIDLDDRDRLDALMAALDFLEA---YPPGEKV--KGLYLYGDFGVGKSYLLAAIAN 178

Query: 267 YLK 269
            L 
Sbjct: 179 ELA 181

Length = 306

>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication, recombination, and repair]

 Score = 40.1 bits (94), Expect = 7e-04
 Identities = 19/69 (27%), Positives = 31/69 (44%), Gaps = 10/69 (14%)

Query: 202 NLDHPATFD--KIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSS 259
           +     TF+       P + + +++DL   V+   F+ R         +L GPPG GK+ 
Sbjct: 69  SFPAKKTFEEFDFEFQPGIDKKALEDLASLVE---FFER-----GENLVLLGPPGVGKTH 120

Query: 260 LIAAMANYL 268
           L  A+ N L
Sbjct: 121 LAIAIGNEL 129

Length = 254

>gnl|CDD|235878 PRK06851, PRK06851, hypothetical protein; Provisional

 Score = 39.6 bits (93), Expect = 0.001
 Identities = 14/44 (31%), Positives = 22/44 (50%)

Query: 233 RNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDME 276
            + Y  +     R ++L G PGTGKS+L+  +        YD+E
Sbjct: 19  YSLYDSIIDGANRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVE 62

Length = 367

>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed

 Score = 39.3 bits (93), Expect = 0.001
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 248 LLFGPPGTGKSSLIAAMANYLKFNIY 273
           +L+GPPGTGK++L   +A        
Sbjct: 40  ILWGPPGTGKTTLARIIAGATDAPFE 65

Length = 413

>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like protein; Provisional

 Score = 39.0 bits (91), Expect = 0.002
 Identities = 16/34 (47%), Positives = 23/34 (67%)

Query: 234 NFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANY 267
             Y ++G    RG LL+GPPGTGK+ L  A+A++
Sbjct: 169 ELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHH 202

Length = 398

>gnl|CDD|236153 PRK08116, PRK08116, hypothetical protein; Validated

 Score = 38.8 bits (91), Expect = 0.002
 Identities = 13/24 (54%), Positives = 16/24 (66%)

Query: 245 RGYLLFGPPGTGKSSLIAAMANYL 268
            G LL+G  GTGK+ L A +AN L
Sbjct: 115 VGLLLWGSVGTGKTYLAACIANEL 138

Length = 268

>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily

 Score = 39.1 bits (91), Expect = 0.002
 Identities = 18/48 (37%), Positives = 28/48 (58%)

Query: 219 KQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMAN 266
           KQ   + ++  +K    + ++G    +G LLFGPPGTGK+ L  A+A 
Sbjct: 462 KQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVAT 509

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus. Length = 733

>gnl|CDD|221983 pfam13207, AAA_17, AAA domain

 Score = 36.5 bits (84), Expect = 0.003
 Identities = 11/30 (36%), Positives = 18/30 (60%)

Query: 247 YLLFGPPGTGKSSLIAAMANYLKFNIYDME 276
            L+ GPPG+GKS+L   +A  L   +  ++
Sbjct: 2   ILITGPPGSGKSTLAKKLAEKLGIPVISLD 31

Length = 114

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 38.4 bits (90), Expect = 0.004
 Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 5/38 (13%)

Query: 243 WKRGY-----LLFGPPGTGKSSLIAAMANYLKFNIYDM 275
           W +G      LL+GPPG GK+SL  A+AN   + + ++
Sbjct: 33  WLKGKPKKALLLYGPPGVGKTSLAHALANDYGWEVIEL 70

Length = 482

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	288
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	100.0
PF14363	98	AAA_assoc: Domain associated at C-terminal with AA	99.97
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.76
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.66
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	99.63
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.61
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.6
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	99.6
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.53
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	99.52
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.52
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	99.51
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	99.5
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.49
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	99.49
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.48
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	99.46
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.46
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	99.45
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	99.41
CHL00195	489	ycf46 Ycf46; Provisional	99.4
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	99.39
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.39
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.38
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.37
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.37
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.36
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.32
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	99.31
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.3
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.3
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.26
CHL00176	638	ftsH cell division protein; Validated	99.23
PRK04195	482	replication factor C large subunit; Provisional	99.15
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	99.05
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.05
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.01
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.96
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.95
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	98.93
PLN03025	319	replication factor C subunit; Provisional	98.93
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	98.92
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.91
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.89
PHA02544	316	44 clamp loader, small subunit; Provisional	98.88
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.85
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.84
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.84
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	98.84
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.83
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.82
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.82
CHL00206	2281	ycf2 Ycf2; Provisional	98.81
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.8
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.8
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.79
KOG1969	877	consensus DNA replication checkpoint protein CHL12	98.79
CHL00181	287	cbbX CbbX; Provisional	98.79
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.78
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.78
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	98.78
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	98.77
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.77
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.77
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	98.73
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	98.73
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.72
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.71
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.71
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.71
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.71
PRK12402	337	replication factor C small subunit 2; Reviewed	98.7
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.7
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.69
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.69
PRK13342	413	recombination factor protein RarA; Reviewed	98.68
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	98.68
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.68
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.68
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.67
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	98.67
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	98.66
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.64
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.64
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.63
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.62
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.61
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.6
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.59
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.59
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	98.59
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.58
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.58
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	98.58
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.57
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.57
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.56
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.54
PRK07952	244	DNA replication protein DnaC; Validated	98.53
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	98.51
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	98.48
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.48
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.48
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	98.45
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	98.44
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	98.42
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	98.41
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.39
PRK13341	725	recombination factor protein RarA/unknown domain f	98.38
PRK08939	306	primosomal protein DnaI; Reviewed	98.35
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.34
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	98.34
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	98.34
KOG2028	554	consensus ATPase related to the helicase subunit o	98.33
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.32
PF08740	187	BCS1_N: BCS1 N terminal; InterPro: IPR014851 AAA A	98.31
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.3
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	98.28
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	98.26
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.25
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	98.25
PRK15455	644	PrkA family serine protein kinase; Provisional	98.24
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	98.24
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	98.23
PRK12377	248	putative replication protein; Provisional	98.21
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.2
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.19
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.17
PHA02244	383	ATPase-like protein	98.16
PRK08116	268	hypothetical protein; Validated	98.14
PRK06893	229	DNA replication initiation factor; Validated	98.14
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	98.13
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.13
COG0714	329	MoxR-like ATPases [General function prediction onl	98.13
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.12
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.1
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.07
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	98.07
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	98.04
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	98.03
PRK10865	857	protein disaggregation chaperone; Provisional	98.03
PRK06620	214	hypothetical protein; Validated	98.03
PHA02624	647	large T antigen; Provisional	98.02
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	98.02
PRK08084	235	DNA replication initiation factor; Provisional	97.98
PRK09112	351	DNA polymerase III subunit delta'; Validated	97.98
CHL00095	821	clpC Clp protease ATP binding subunit	97.97
PRK00411	394	cdc6 cell division control protein 6; Reviewed	97.97
PRK05564	313	DNA polymerase III subunit delta'; Validated	97.96
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.93
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.9
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	97.89
COG0606	490	Predicted ATPase with chaperone activity [Posttran	97.88
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.88
PRK06921	266	hypothetical protein; Provisional	97.86
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	97.85
PRK05642	234	DNA replication initiation factor; Validated	97.83
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.83
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.82
PRK08181	269	transposase; Validated	97.82
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	97.81
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.8
PRK06835	329	DNA replication protein DnaC; Validated	97.8
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	97.78
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.75
CHL00095	821	clpC Clp protease ATP binding subunit	97.74
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.73
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.72
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	97.7
PRK13765	637	ATP-dependent protease Lon; Provisional	97.69
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.67
COG1855	604	ATPase (PilT family) [General function prediction	97.67
PRK10865	857	protein disaggregation chaperone; Provisional	97.67
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.63
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	97.62
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	97.62
PHA00729	226	NTP-binding motif containing protein	97.61
PRK12422	445	chromosomal replication initiation protein; Provis	97.6
PRK15424	538	propionate catabolism operon regulatory protein Pr	97.59
KOG0736	953	consensus Peroxisome assembly factor 2 containing	97.59
PRK08727	233	hypothetical protein; Validated	97.58
PRK06526	254	transposase; Provisional	97.55
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.54
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.52
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	97.52
PRK09087	226	hypothetical protein; Validated	97.52
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	97.52
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.51
PHA02774	613	E1; Provisional	97.51
PRK09183	259	transposase/IS protein; Provisional	97.5
PRK11608	326	pspF phage shock protein operon transcriptional ac	97.49
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	97.48
PRK13531	498	regulatory ATPase RavA; Provisional	97.48
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.47
PRK06547	172	hypothetical protein; Provisional	97.45
PF13245	76	AAA_19: Part of AAA domain	97.45
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.44
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	97.41
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	97.4
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	97.4
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	97.4
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	97.38
PLN02200	234	adenylate kinase family protein	97.37
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.37
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	97.36
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.35
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.35
PTZ00112	1164	origin recognition complex 1 protein; Provisional	97.35
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.33
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.29
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	97.27
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.26
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	97.26
PLN02199	303	shikimate kinase	97.24
PRK05022	509	anaerobic nitric oxide reductase transcription reg	97.22
PF13173	128	AAA_14: AAA domain	97.22
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	97.21
PRK06696	223	uridine kinase; Validated	97.2
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.11
PLN02674	244	adenylate kinase	97.1
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.07
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.06
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	97.05
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	97.03
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	97.02
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	97.02
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.01
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	97.01
COG1221	403	PspF Transcriptional regulators containing an AAA-	96.98
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	96.98
PLN02459	261	probable adenylate kinase	96.95
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	96.95
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.95
PRK13764	602	ATPase; Provisional	96.94
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.94
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	96.94
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	96.94
PRK06067	234	flagellar accessory protein FlaH; Validated	96.93
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.93
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.92
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	96.92
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.91
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.9
PRK05973	237	replicative DNA helicase; Provisional	96.86
PLN02165	334	adenylate isopentenyltransferase	96.84
PRK10416	318	signal recognition particle-docking protein FtsY;	96.83
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.82
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	96.8
PRK13833	323	conjugal transfer protein TrbB; Provisional	96.8
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	96.8
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	96.8
PF00519	432	PPV_E1_C: Papillomavirus helicase; InterPro: IPR00	96.79
KOG1968	871	consensus Replication factor C, subunit RFC1 (larg	96.77
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.77
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.77
TIGR00376	637	DNA helicase, putative. The gene product may repre	96.76
PTZ00202	550	tuzin; Provisional	96.74
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.71
PRK04220	301	2-phosphoglycerate kinase; Provisional	96.71
TIGR02533	486	type_II_gspE general secretory pathway protein E.	96.68
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.68
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	96.68
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.67
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.65
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	96.65
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.64
PRK10867	433	signal recognition particle protein; Provisional	96.63
PRK10436	462	hypothetical protein; Provisional	96.63
PRK12337	475	2-phosphoglycerate kinase; Provisional	96.62
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.61
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	96.61
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.6
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	96.6
PRK05707	328	DNA polymerase III subunit delta'; Validated	96.59
PRK03846	198	adenylylsulfate kinase; Provisional	96.59
PRK04328	249	hypothetical protein; Provisional	96.57
PLN03210	1153	Resistant to P. syringae 6; Provisional	96.57
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.55
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.54
COG4619	223	ABC-type uncharacterized transport system, ATPase	96.54
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	96.54
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	96.53
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.52
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	96.52
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	96.52
PF04851	184	ResIII: Type III restriction enzyme, res subunit;	96.51
PRK11823	446	DNA repair protein RadA; Provisional	96.51
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.51
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	96.49
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	96.43
PRK14974	336	cell division protein FtsY; Provisional	96.43
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.41
KOG2680	454	consensus DNA helicase TIP49, TBP-interacting prot	96.41
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	96.41
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	96.4
TIGR01526	325	nadR_NMN_Atrans nicotinamide-nucleotide adenylyltr	96.4
PRK06964	342	DNA polymerase III subunit delta'; Validated	96.39
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.39
PRK13477	512	bifunctional pantoate ligase/cytidylate kinase; Pr	96.39
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.38
PRK07667	193	uridine kinase; Provisional	96.37
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.36
PRK10536	262	hypothetical protein; Provisional	96.35
PLN02840	421	tRNA dimethylallyltransferase	96.33
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	96.33
PRK08099	399	bifunctional DNA-binding transcriptional repressor	96.31
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	96.3
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.29
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	96.27
smart00350	509	MCM minichromosome maintenance proteins.	96.25
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.25
PF06431	417	Polyoma_lg_T_C: Polyomavirus large T antigen C-ter	96.23
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.22
PRK04132	846	replication factor C small subunit; Provisional	96.21
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	96.21
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	96.21
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	96.2
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.17
PF13555	62	AAA_29: P-loop containing region of AAA domain	96.16
TIGR00959	428	ffh signal recognition particle protein. This mode	96.15
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.12
PRK06851	367	hypothetical protein; Provisional	96.12
PRK11860	661	bifunctional 3-phosphoshikimate 1-carboxyvinyltran	96.11
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	96.09
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.09
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	96.07
PRK06851	367	hypothetical protein; Provisional	96.04
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	96.04
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	96.03
COG2204	464	AtoC Response regulator containing CheY-like recei	96.02
PRK09376	416	rho transcription termination factor Rho; Provisio	96.02
cd01918	149	HprK_C HprK/P, the bifunctional histidine-containi	96.0
PRK08769	319	DNA polymerase III subunit delta'; Validated	96.0
PRK12608	380	transcription termination factor Rho; Provisional	95.98
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	95.97
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	95.94
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	95.93
PRK13851	344	type IV secretion system protein VirB11; Provision	95.93
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	95.91
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	95.91
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	95.9
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	95.89
cd01128	249	rho_factor Transcription termination factor rho is	95.86
PRK09302	509	circadian clock protein KaiC; Reviewed	95.86
COG4178	604	ABC-type uncharacterized transport system, permeas	95.85
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	95.85
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	95.85
PRK10646	153	ADP-binding protein; Provisional	95.85
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	95.84
PLN02748	468	tRNA dimethylallyltransferase	95.84
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	95.83
PRK09354	349	recA recombinase A; Provisional	95.83
PRK05439	311	pantothenate kinase; Provisional	95.82
COG0593	408	DnaA ATPase involved in DNA replication initiation	95.82
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	95.81
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	95.81
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	95.8
PRK12269	863	bifunctional cytidylate kinase/ribosomal protein S	95.79
KOG0060	659	consensus Long-chain acyl-CoA transporter, ABC sup	95.78
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	95.76
COG2074	299	2-phosphoglycerate kinase [Carbohydrate transport	95.74
PTZ00035	337	Rad51 protein; Provisional	95.72
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	95.71
COG4525	259	TauB ABC-type taurine transport system, ATPase com	95.71
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	95.7
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	95.69
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	95.69
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	95.69
cd03269	210	ABC_putative_ATPase This subfamily is involved in	95.69
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	95.68
TIGR01663	526	PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase	95.66
PRK09862	506	putative ATP-dependent protease; Provisional	95.66
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	95.65
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	95.65
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	95.65
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	95.64
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	95.63
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	95.63
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	95.63
cd02034	116	CooC The accessory protein CooC, which contains a	95.63
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	95.61
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	95.61
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	95.6
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	95.6
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	95.58
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	95.58
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	95.56
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	95.56
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	95.54
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	95.53
PRK06871	325	DNA polymerase III subunit delta'; Validated	95.53
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	95.53
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	95.51
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	95.51
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	95.49
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	95.49
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	95.49
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	95.48
PLN02796	347	D-glycerate 3-kinase	95.48
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	95.48
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	95.47
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	95.46
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	95.46
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	95.46
cd03246	173	ABCC_Protease_Secretion This family represents the	95.45
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	95.44
PF13476	202	AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V	95.44
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	95.42
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	95.42
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	95.4
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	95.39
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	95.39
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	95.39
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	95.39
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	95.38
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	95.38
cd03234	226	ABCG_White The White subfamily represents ABC tran	95.37
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	95.37
PRK07993	334	DNA polymerase III subunit delta'; Validated	95.37
PRK09435	332	membrane ATPase/protein kinase; Provisional	95.36
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	95.36
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	95.34
cd03216	163	ABC_Carb_Monos_I This family represents the domain	95.33
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	95.32
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	95.31
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	95.31
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	95.29
cd03215	182	ABC_Carb_Monos_II This family represents domain II	95.29
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	95.28
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	95.28
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	95.28
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	95.27
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	95.27
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	95.27
COG0802	149	Predicted ATPase or kinase [General function predi	95.27
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	95.26
PRK14256	252	phosphate ABC transporter ATP-binding protein; Pro	95.26
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	95.26
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	95.25
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	95.24
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	95.24
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	95.23
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	95.23
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	95.22
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	95.22
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	95.21
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	95.21
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	95.21
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	95.21
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	95.2
PRK14262	250	phosphate ABC transporter ATP-binding protein; Pro	95.2
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	95.2
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	95.19
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	95.19
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	95.18
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	95.18
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	95.18
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	95.18
TIGR00767	415	rho transcription termination factor Rho. Members	95.16
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	95.16
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	95.16
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	95.15
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	95.15
PRK09302	509	circadian clock protein KaiC; Reviewed	95.15
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	95.15
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	95.14
TIGR03819	340	heli_sec_ATPase helicase/secretion neighborhood AT	95.13
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	95.13
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.13
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	95.13
PRK10875	615	recD exonuclease V subunit alpha; Provisional	95.13
TIGR03238	504	dnd_assoc_3 dnd system-associated protein 3. cereu	95.11
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	95.11
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	95.11
PRK06090	319	DNA polymerase III subunit delta'; Validated	95.11
cd03290	218	ABCC_SUR1_N The SUR domain 1. The sulfonylurea rec	95.1
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	95.1
PLN02348	395	phosphoribulokinase	95.1
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	95.09
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	95.08
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	95.08
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	95.08
cd03248	226	ABCC_TAP TAP, the Transporter Associated with Anti	95.08
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	95.08
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	95.07
COG4136	213	ABC-type uncharacterized transport system, ATPase	95.07
PRK13547	272	hmuV hemin importer ATP-binding subunit; Provision	95.07
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	95.06
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	95.06
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	95.06
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	95.05
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	95.04
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	95.03
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	95.03
COG4240	300	Predicted kinase [General function prediction only	95.03
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	95.02
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	95.01
PRK10908	222	cell division protein FtsE; Provisional	95.01
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	95.01
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	94.99

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=6.7e-65  Score=477.04  Aligned_cols=276  Identities=42%  Similarity=0.698  Sum_probs=260.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhhhhcCCCCCeEEEEecCCCCCcChHHHHHHHHhhhccCCCcCc
Q 045456           13 AFAASAMLVRTVINEVQTLTSQIIPKQLQTMMLSKLGGLFTNHSSQMTLIIDEYNGFSINQLYEASELYLSTKITASLEK   92 (288)
Q Consensus        13 ~~~~~~~S~~a~~~~~r~~~~~~~P~~l~~~~~~~~~~l~~~~~~~~ti~i~e~~~~~~N~ly~a~~~YL~~~~~~~~~r   92 (288)
                      ++|+.+||.+|++|++|+|+++++|.+++.|+.+++++|++.++++.++.|.|++|+.+||+|.|+|+||++++++.++|
T Consensus         2 ~~~~~~~s~~~~~~~~~~~~~~~~p~~~~~y~~~~~~~l~g~~s~~~~~~~~e~~g~~~n~~~~aie~yl~~k~~~~~~r   81 (457)
T KOG0743|consen    2 SVFTAYASLLGSLMFIKSMLQDIIPPSINPYFISALRGLFGVFSSYALIRIGEQDGVFRNQLYVAIEVYLSSKSSAIAKR   81 (457)
T ss_pred             CccchhHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHhhccCcccEEEEeehhccchHHHHHHHHHHhhhccchhhhhh
Confidence            46889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eEEeecCCCCceEEecCCCCeEEeccCCeeEEEEEeeeccccccc-cCCCcceEEEEEeccchhhHHHHhhhhHHHHHHH
Q 045456           93 LKVSKTTKEKNLSVTINKGEKISDIFEGICLVWEMTCKETEERSS-QRGKAERVIELSFPKKYMERILNIYLPYVMEKSN  171 (288)
Q Consensus        93 L~~~~~~~~~~~~l~~~~ge~v~D~F~Gv~~~W~~~~~~~~~~~~-~~~~~~r~~eL~f~~~~r~~vl~syl~~Il~~~~  171 (288)
                      ++.+.+.+++++++.++++++|.|+|+||+++|.+++..++.+.+ .+..+.|+|+|+|++++|+.|+++||+||.++++
T Consensus        82 l~~~~~~~s~~~~l~~~~~~~i~d~f~gv~~~w~~~~~~~~~~~~~~~~~~~r~~~L~f~k~~~e~V~~syl~~v~~~~k  161 (457)
T KOG0743|consen   82 LTQNLSKNSKSLVLGLDDNEEISDEFEGVPVKWRHFVDYNEKWIFVEREREKRYFELTFHKKPRELVTLSYLPYVVSKAK  161 (457)
T ss_pred             hhhhhccccccceEEecCCcEEEEEEeceEEEEEEEEEecCcccccccCCcceEEEEEecCccHHHhHHhHHHHHHHHHH
Confidence            999999999999999999999999999999999999887666532 2356889999999999999999999999999999


Q ss_pred             HHHhccceeEEEEecCCCCC-CCCCCCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEE
Q 045456          172 AIKEQNKVVKLYAVGHFGGD-SDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLF  250 (288)
Q Consensus       172 ~i~~~~~~~kl~~~~~~~~~-~~~~~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~  250 (288)
                      +|.++++.++||++++.... ...++.|+++.+.||++|++|+++++.|++|.+|+..|++++++|++.|++|+||||||
T Consensus       162 ~I~~~~r~~kl~t~~~~~~~~~~~~~~W~~v~f~HpstF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLY  241 (457)
T KOG0743|consen  162 EILEENRELKLYTNSGKTVIYTAKGGEWRSVGFPHPSTFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLY  241 (457)
T ss_pred             HHHHHHHHHHHhhcCCCcccccccCCcceecCCCCCCCccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceee
Confidence            99999999999999864332 12578999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCChHHHHHHHHHHhCCcEEEEecCCCCCcccccC
Q 045456          251 GPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELRR  288 (288)
Q Consensus       251 GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~~  288 (288)
                      |||||||||++.|||++|+++||+++++++.+++|||+
T Consensus       242 GPPGTGKSS~IaAmAn~L~ydIydLeLt~v~~n~dLr~  279 (457)
T KOG0743|consen  242 GPPGTGKSSFIAAMANYLNYDIYDLELTEVKLDSDLRH  279 (457)
T ss_pred             CCCCCCHHHHHHHHHhhcCCceEEeeeccccCcHHHHH
Confidence            99999999999999999999999999999999999985

>PF14363 AAA_assoc: Domain associated at C-terminal with AAA

Probab=99.97  E-value=2.2e-30  Score=201.20  Aligned_cols=97  Identities=39%  Similarity=0.774  Sum_probs=93.7

Q ss_pred             hchHHHHHHHHHHHhhhhc-CCCCCeEEEEecCCCCCcChHHHHHHHHhhhccCCCcCceEEeecCCCCceEEecCCCCe
Q 045456           35 IIPKQLQTMMLSKLGGLFT-NHSSQMTLIIDEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKEKNLSVTINKGEK  113 (288)
Q Consensus        35 ~~P~~l~~~~~~~~~~l~~-~~~~~~ti~i~e~~~~~~N~ly~a~~~YL~~~~~~~~~rL~~~~~~~~~~~~l~~~~ge~  113 (288)
                      +||++||+++.+++++++. +++|++||+|+|++|+..|++|+|||+||+++++++++||++++++++++++++|++||+
T Consensus         1 ~~P~~lr~~~~~~~~~~~~~~~s~~~ti~I~E~~g~~~N~ly~a~~~YL~s~~s~~a~rL~~~~~~~~~~~~l~l~~~e~   80 (98)
T PF14363_consen    1 LLPHELRSYLRSLLRRLFSSRFSPYLTIVIPEFDGLSRNELYDAAQAYLSSKISPSARRLKASKSKNSKNLVLSLDDGEE   80 (98)
T ss_pred             CCCHHHHHHHHHHHHHHHhccCCCcEEEEEEeCCCccccHHHHHHHHHHhhccCcccceeeecccCCCCceEEecCCCCE
Confidence            6899999999999988876 899999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEeccCCeeEEEEEeeec
Q 045456          114 ISDIFEGICLVWEMTCKE  131 (288)
Q Consensus       114 v~D~F~Gv~~~W~~~~~~  131 (288)
                      |+|+|+||++||.+++++
T Consensus        81 V~D~F~Gv~v~W~~~~~e   98 (98)
T PF14363_consen   81 VVDVFEGVKVWWSSVCTE   98 (98)
T ss_pred             EEEEECCEEEEEEEEccC
Confidence            999999999999999864

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.76  E-value=5.5e-19  Score=162.78  Aligned_cols=82  Identities=23%  Similarity=0.304  Sum_probs=76.9

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      +...+..||+||+|.++++++|++.++.++.+|++|+++|+.+|+|+|||||||||||.||+|+|++.++.|+.+.+|++
T Consensus       142 v~e~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSEl  221 (406)
T COG1222         142 VEEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSEL  221 (406)
T ss_pred             eccCCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHHH
Confidence            34555679999999999999999999999999999999999999999999999999999999999999999999999887


Q ss_pred             CC
Q 045456          281 YC  282 (288)
Q Consensus       281 ~~  282 (288)
                      ..
T Consensus       222 Vq  223 (406)
T COG1222         222 VQ  223 (406)
T ss_pred             HH
Confidence            54

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.66  E-value=5.9e-17  Score=158.78  Aligned_cols=81  Identities=25%  Similarity=0.384  Sum_probs=76.9

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      ..+..+|+||+|++++|+++.+.+.+++++++.|.++|+.+++|+|||||||||||++|+|+|++.+.+|+.|.++++.+
T Consensus       427 e~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~s  506 (693)
T KOG0730|consen  427 EMPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELFS  506 (693)
T ss_pred             cCCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCeeeccCHHHHH
Confidence            44567999999999999999999999999999999999999999999999999999999999999999999999988876


Q ss_pred             c
Q 045456          283 N  283 (288)
Q Consensus       283 ~  283 (288)
                      +
T Consensus       507 k  507 (693)
T KOG0730|consen  507 K  507 (693)
T ss_pred             H
Confidence            4

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=99.63  E-value=2.9e-16  Score=139.18  Aligned_cols=77  Identities=26%  Similarity=0.375  Sum_probs=73.4

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                      +..++.|++|.+-+|++|+++++.++.+.++|+++|+.++||+|||||||||||++++|+|++....|+.+.+++..
T Consensus       150 pdvsy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~firvvgsefv  226 (408)
T KOG0727|consen  150 PDVSYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSEFV  226 (408)
T ss_pred             CCccccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHHHH
Confidence            44699999999999999999999999999999999999999999999999999999999999999999999988764

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=99.61  E-value=5.7e-16  Score=150.66  Aligned_cols=76  Identities=25%  Similarity=0.371  Sum_probs=72.0

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      .+|++|+|.+..-.++.+.+.. +.+++.|..+|+.++||+|||||||||||+||+|||++++.||+.|+++++.+.
T Consensus       187 v~f~diGG~d~~~~el~~li~~-i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApeivSG  262 (802)
T KOG0733|consen  187 VSFSDIGGLDKTLAELCELIIH-IKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSG  262 (802)
T ss_pred             cchhhccChHHHHHHHHHHHHH-hcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchhhhcc
Confidence            4899999999999999998776 999999999999999999999999999999999999999999999999998764

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=99.60  E-value=5.3e-16  Score=150.84  Aligned_cols=84  Identities=24%  Similarity=0.286  Sum_probs=78.4

Q ss_pred             ccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCC
Q 045456          200 STNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTS  279 (288)
Q Consensus       200 ~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~  279 (288)
                      .+...+..+|+||++.++++.++..++.+++++++.|+++|+..+.|+|||||||||||.||+|+|++.|.+|+.|.+++
T Consensus       501 GF~tVPdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEag~NFisVKGPE  580 (802)
T KOG0733|consen  501 GFATVPDVTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEAGANFISVKGPE  580 (802)
T ss_pred             cceecCCCChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhccCceEeecCHH
Confidence            34455667999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             CCCc
Q 045456          280 VYCN  283 (288)
Q Consensus       280 ~~~~  283 (288)
                      +.++
T Consensus       581 LlNk  584 (802)
T KOG0733|consen  581 LLNK  584 (802)
T ss_pred             HHHH
Confidence            8664

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=99.60  E-value=9.5e-16  Score=153.91  Aligned_cols=77  Identities=26%  Similarity=0.440  Sum_probs=71.9

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                      ..+.+|+|++|.++.|++|.+.++ |+++|+.|.++|...|||+||+||||||||.||+|+|+|.|.||+.+++++..
T Consensus       305 ~t~V~FkDVAG~deAK~El~E~V~-fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFv  381 (774)
T KOG0731|consen  305 NTGVKFKDVAGVDEAKEELMEFVK-FLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFV  381 (774)
T ss_pred             CCCCccccccCcHHHHHHHHHHHH-HhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHH
Confidence            345799999999999999999655 89999999999999999999999999999999999999999999999998764

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=99.53  E-value=9.6e-15  Score=139.76  Aligned_cols=78  Identities=26%  Similarity=0.340  Sum_probs=73.3

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                      .+..+|+||+|.+.+|++|.+.++.++.+++.|.++|+.+++|+|||||||||||++|+++|++++.+++.+..+++.
T Consensus       139 ~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l~  216 (398)
T PTZ00454        139 KPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFV  216 (398)
T ss_pred             CCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHH
Confidence            456799999999999999999999999999999999999999999999999999999999999999999999876553

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=99.52  E-value=3.4e-15  Score=134.72  Aligned_cols=82  Identities=22%  Similarity=0.308  Sum_probs=76.3

Q ss_pred             ccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCC
Q 045456          200 STNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTS  279 (288)
Q Consensus       200 ~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~  279 (288)
                      .++..+..+|+|++|.+.+.++|.+.++.++.+|++|+++|+.+|+|++|||+||||||.||+|+||.....|+.+-+++
T Consensus       175 K~eKaP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGse  254 (440)
T KOG0726|consen  175 KVEKAPQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSE  254 (440)
T ss_pred             ecccCchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHH
Confidence            35667778999999999999999999999999999999999999999999999999999999999999999998887776


Q ss_pred             CC
Q 045456          280 VY  281 (288)
Q Consensus       280 ~~  281 (288)
                      +.
T Consensus       255 Li  256 (440)
T KOG0726|consen  255 LI  256 (440)
T ss_pred             HH
Confidence            54

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=99.52  E-value=6.8e-15  Score=146.24  Aligned_cols=79  Identities=24%  Similarity=0.385  Sum_probs=72.0

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      +.+..+|+||+|.+++|++|++.+..++++++++.. |...+.|+|||||||||||.+|+|+|.++...|+.|.++++.+
T Consensus       665 KIPnV~WdDVGGLeevK~eIldTIqlPL~hpeLfss-glrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPELLN  743 (953)
T KOG0736|consen  665 KIPNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSS-GLRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPELLN  743 (953)
T ss_pred             CCCccchhcccCHHHHHHHHHHHhcCcccChhhhhc-cccccceeEEECCCCCchHHHHHHHHhhceeeEEeecCHHHHH
Confidence            345579999999999999999999999999999965 6666789999999999999999999999999999999988754

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=99.51  E-value=1e-14  Score=129.35  Aligned_cols=82  Identities=22%  Similarity=0.315  Sum_probs=76.8

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      ++..+..+++.++|.+.+.++|.+.++.+.++|++|+.+|++.|+|+|||||||||||.+|+|+|.+..+.|+.++++++
T Consensus       138 VeKvPDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c~firvsgsel  217 (404)
T KOG0728|consen  138 VEKVPDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGSEL  217 (404)
T ss_pred             hhhCCccHHHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcceEEEEechHHH
Confidence            45566779999999999999999999999999999999999999999999999999999999999999999999999876


Q ss_pred             CC
Q 045456          281 YC  282 (288)
Q Consensus       281 ~~  282 (288)
                      ..
T Consensus       218 vq  219 (404)
T KOG0728|consen  218 VQ  219 (404)
T ss_pred             HH
Confidence            53

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.50  E-value=2.4e-14  Score=133.33  Aligned_cols=77  Identities=23%  Similarity=0.424  Sum_probs=73.3

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      ...|+||+|..++|+-|.++|..++.-|++|+.+-.|| +|+||+||||||||+||+|+|.++|..|+.|+.+.+.++
T Consensus       208 ~ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPW-kgvLm~GPPGTGKTlLAKAvATEc~tTFFNVSsstltSK  284 (491)
T KOG0738|consen  208 NIKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPW-KGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSK  284 (491)
T ss_pred             CcChHhhcchHHHHHHHHHHHhhhhhhHHHHhhccccc-ceeeeeCCCCCcHHHHHHHHHHhhcCeEEEechhhhhhh
Confidence            35899999999999999999999999999999988888 599999999999999999999999999999999999876

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=99.49  E-value=5.6e-14  Score=135.70  Aligned_cols=82  Identities=21%  Similarity=0.296  Sum_probs=76.3

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      +...++.+|+||+|.++++++|.+.++.++.++++|..+|+.+++|+|||||||||||++|++||++++.+++.+..+++
T Consensus       174 ~~~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL  253 (438)
T PTZ00361        174 VDKAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSEL  253 (438)
T ss_pred             cccCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchh
Confidence            44566789999999999999999999999999999999999999999999999999999999999999999999998876


Q ss_pred             CC
Q 045456          281 YC  282 (288)
Q Consensus       281 ~~  282 (288)
                      .+
T Consensus       254 ~~  255 (438)
T PTZ00361        254 IQ  255 (438)
T ss_pred             hh
Confidence            44

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=99.49  E-value=3.3e-14  Score=136.72  Aligned_cols=74  Identities=28%  Similarity=0.414  Sum_probs=69.5

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                      .+|+|+.|.++.|+++.+.++ |++.|+.|.++|-..|+|+||.||||||||.||+|+|++.|.||+..++++..
T Consensus       301 v~F~dVkG~DEAK~ELeEiVe-fLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFd  374 (752)
T KOG0734|consen  301 VTFEDVKGVDEAKQELEEIVE-FLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFD  374 (752)
T ss_pred             cccccccChHHHHHHHHHHHH-HhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccchh
Confidence            589999999999999988555 89999999999999999999999999999999999999999999999988753

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.48  E-value=6e-14  Score=134.11  Aligned_cols=80  Identities=23%  Similarity=0.323  Sum_probs=74.6

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      ..+..+|++|+|.++++++|.+.+..++.+++.|+.+|+.+++|+|||||||||||++|+++|++++.+++.++.+++..
T Consensus       124 ~~p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~  203 (389)
T PRK03992        124 ESPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQ  203 (389)
T ss_pred             CCCCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhH
Confidence            34456999999999999999999999999999999999999999999999999999999999999999999999887643

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.46  E-value=5.1e-14  Score=125.90  Aligned_cols=82  Identities=18%  Similarity=0.200  Sum_probs=76.4

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      ++-.+..+++|++|..++.+.+++.++.++-+++.|-.+|+.+++|+|||||||||||.+|+|+||..+..|+.+-++++
T Consensus       168 veekpdvty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdacfirvigsel  247 (435)
T KOG0729|consen  168 VEEKPDVTYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVIGSEL  247 (435)
T ss_pred             eecCCCcccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCceEEeehhHHH
Confidence            45556679999999999999999999999999999999999999999999999999999999999999999999988876


Q ss_pred             CC
Q 045456          281 YC  282 (288)
Q Consensus       281 ~~  282 (288)
                      ..
T Consensus       248 vq  249 (435)
T KOG0729|consen  248 VQ  249 (435)
T ss_pred             HH
Confidence            43

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.46  E-value=1e-13  Score=135.94  Aligned_cols=70  Identities=27%  Similarity=0.333  Sum_probs=65.8

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      ...++.+|++|+|.++++++|.+.++.++.++++|+++|+++++|+|||||||||||++|+++|++++.+
T Consensus       174 ~~~p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~  243 (512)
T TIGR03689       174 EEVPDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQR  243 (512)
T ss_pred             ecCCCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccc
Confidence            3445679999999999999999999999999999999999999999999999999999999999999876

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=99.45  E-value=4.6e-14  Score=125.85  Aligned_cols=79  Identities=18%  Similarity=0.291  Sum_probs=72.3

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      .-.+..+++|++|.+.+.+++.+++..++.+++.|.++|+.+|+|+|+|||||||||.+|+|.|...+..|+.+.++.+
T Consensus       163 DekPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgPQL  241 (424)
T KOG0652|consen  163 DEKPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGPQL  241 (424)
T ss_pred             ccCCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhcchHH
Confidence            3445569999999999999999999999999999999999999999999999999999999999999988887776654

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.41  E-value=1.9e-13  Score=126.83  Aligned_cols=77  Identities=26%  Similarity=0.386  Sum_probs=70.7

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCC-cccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGK-VWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~-~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      .+|+||+|.+++++.+.+.+..++.++++|...+. .+++|+|||||||||||++|+|+|++.|.+++.|..+.++++
T Consensus        89 v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s~lt~K  166 (386)
T KOG0737|consen   89 VSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVSNLTSK  166 (386)
T ss_pred             eehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCcceeeccccchh
Confidence            48999999999999999999999999999974333 357999999999999999999999999999999999999875

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.40  E-value=5.8e-13  Score=130.38  Aligned_cols=74  Identities=24%  Similarity=0.276  Sum_probs=64.3

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      +.+|++|+|.+.+|+.+.+....|..   ...++|++.++|+|||||||||||++|+++|++++.|++.++.+++.+
T Consensus       224 ~~~~~dvgGl~~lK~~l~~~~~~~~~---~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~~  297 (489)
T CHL00195        224 NEKISDIGGLDNLKDWLKKRSTSFSK---QASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFG  297 (489)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHhhH---HHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhcc
Confidence            45899999999999999876665533   346679999999999999999999999999999999999999877654

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.39  E-value=1.8e-13  Score=124.01  Aligned_cols=76  Identities=28%  Similarity=0.440  Sum_probs=70.9

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      ..|+|++|.+..|+.+.+++..+++-|+++..-..|| +|+|||||||||||.||+|+|.+.+-.|+.|+.+++.++
T Consensus       130 VkWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~Pw-rgiLLyGPPGTGKSYLAKAVATEAnSTFFSvSSSDLvSK  205 (439)
T KOG0739|consen  130 VKWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPW-RGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSK  205 (439)
T ss_pred             CchhhhccchhHHHHHHhheeecccchhhhcCCCCcc-eeEEEeCCCCCcHHHHHHHHHhhcCCceEEeehHHHHHH
Confidence            4789999999999999999999999999998766676 699999999999999999999999999999999988775

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=99.39  E-value=6.3e-13  Score=130.71  Aligned_cols=80  Identities=28%  Similarity=0.436  Sum_probs=75.6

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      .+..+|++++|.++.|+.+.+.++.++.+++.|.+.|+..++|+|||||||||||++|+|+|++++.+|+.++.+++.++
T Consensus       236 ~~~v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~l~sk  315 (494)
T COG0464         236 DEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSK  315 (494)
T ss_pred             CCCcceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHHHhcc
Confidence            34569999999999999999999999999999999999999999999999999999999999999999999999988775

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.38  E-value=5.4e-13  Score=126.40  Aligned_cols=79  Identities=22%  Similarity=0.326  Sum_probs=72.9

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      ...+..+|++++|.++++++|.+.+..++.+++.+..+|+.+++|+|||||||||||++|+++|++++.+++.+..+++
T Consensus       114 ~~~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l  192 (364)
T TIGR01242       114 EERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSEL  192 (364)
T ss_pred             ccCCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHH
Confidence            3445679999999999999999999999999999999999999999999999999999999999999999999876654

Many proteins may score above the trusted cutoff because an internal

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=99.37  E-value=5.8e-13  Score=118.74  Aligned_cols=75  Identities=21%  Similarity=0.320  Sum_probs=64.4

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      ....+|||++|+++.|+...- +..|+.+|+.+.   .-.|+.+|||||||||||++|+|+|++.+.|++.+.++++..
T Consensus       115 ~~~it~ddViGqEeAK~kcrl-i~~yLenPe~Fg---~WAPknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liG  189 (368)
T COG1223         115 ISDITLDDVIGQEEAKRKCRL-IMEYLENPERFG---DWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIG  189 (368)
T ss_pred             hccccHhhhhchHHHHHHHHH-HHHHhhChHHhc---ccCcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHH
Confidence            345699999999999987654 566888998874   446899999999999999999999999999999999887654

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.37  E-value=7.3e-13  Score=136.08  Aligned_cols=79  Identities=25%  Similarity=0.370  Sum_probs=74.4

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      +..+|++++|.+++|+.|.+.+..++.+++.+.++|+.+++|+|||||||||||++|+++|++++.+++.++.+++.++
T Consensus       448 ~~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~~  526 (733)
T TIGR01243       448 PNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSK  526 (733)
T ss_pred             cccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhhc
Confidence            3468999999999999999999999999999999999999999999999999999999999999999999999877554

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.36  E-value=8.9e-13  Score=129.79  Aligned_cols=77  Identities=27%  Similarity=0.450  Sum_probs=70.2

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                      .+..+|+|++|.+++|+++.+.+. ++.+++.|.+.|...++|+|||||||||||++|+++|++++.|++.++.+++.
T Consensus        49 ~~~~~~~di~g~~~~k~~l~~~~~-~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~  125 (495)
T TIGR01241        49 KPKVTFKDVAGIDEAKEELMEIVD-FLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFV  125 (495)
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHH-HHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHH
Confidence            456799999999999999998666 58899999999999999999999999999999999999999999999887653

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=99.32  E-value=3.3e-12  Score=112.46  Aligned_cols=76  Identities=25%  Similarity=0.287  Sum_probs=53.3

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      .-+|.+|+|++|++++++.+.-.++....+       + .....+||||||||||||+|..||++++.++..++++.+..
T Consensus        17 ~lRP~~L~efiGQ~~l~~~l~i~i~aa~~r-------~-~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~k   88 (233)
T PF05496_consen   17 RLRPKSLDEFIGQEHLKGNLKILIRAAKKR-------G-EALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIEK   88 (233)
T ss_dssp             HTS-SSCCCS-S-HHHHHHHHHHHHHHHCT-------T-S---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--S
T ss_pred             hcCCCCHHHccCcHHHHhhhHHHHHHHHhc-------C-CCcceEEEECCCccchhHHHHHHHhccCCCeEeccchhhhh
Confidence            467999999999999988765544433221       1 12347999999999999999999999999999999988776


Q ss_pred             cccc
Q 045456          283 NSEL  286 (288)
Q Consensus       283 ~~~l  286 (288)
                      ..||
T Consensus        89 ~~dl   92 (233)
T PF05496_consen   89 AGDL   92 (233)
T ss_dssp             CHHH
T ss_pred             HHHH
Confidence            6665

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=99.31  E-value=1.1e-12  Score=119.30  Aligned_cols=76  Identities=24%  Similarity=0.365  Sum_probs=74.1

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      +|++++|.-.+..++.+.++.++.+++++.++|+.+|+|++||||||||||.+|+++|..+|.+++.+..+++.++
T Consensus       130 s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~k  205 (388)
T KOG0651|consen  130 SFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDK  205 (388)
T ss_pred             CHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhh
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999998876

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=99.30  E-value=2.1e-12  Score=127.72  Aligned_cols=76  Identities=29%  Similarity=0.435  Sum_probs=70.9

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                      ...+|.|++|.++.|+++.+.++ |++.++.|.++|.-.|+|+||+||||||||++|+|+|++.+.|++.+++++..
T Consensus       145 ~~v~F~DVAG~dEakeel~EiVd-fLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FV  220 (596)
T COG0465         145 VKVTFADVAGVDEAKEELSELVD-FLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFV  220 (596)
T ss_pred             cCcChhhhcCcHHHHHHHHHHHH-HHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhh
Confidence            45699999999999999999555 89999999999999999999999999999999999999999999999998754

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.30  E-value=3.9e-12  Score=130.72  Aligned_cols=79  Identities=24%  Similarity=0.362  Sum_probs=73.8

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      +..+|++|+|.+++++.|.+.+..++.+++.|+.+|+.+++|+|||||||||||+++++||++++.+++.++.+++.++
T Consensus       173 ~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~~  251 (733)
T TIGR01243       173 PKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSK  251 (733)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhcc
Confidence            4569999999999999999999999999999999999999999999999999999999999999999999998776543

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.26  E-value=3.2e-12  Score=126.51  Aligned_cols=77  Identities=19%  Similarity=0.308  Sum_probs=73.7

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      ..|+|++|..++|+.+.+.++++.+.+.+|.+.++..+.|+|||||||||||.+|.|+|..++..|+.+.++++.++
T Consensus       664 i~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~fisvKGPElL~K  740 (952)
T KOG0735|consen  664 IRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLRFISVKGPELLSK  740 (952)
T ss_pred             CCceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCeeEEEecCHHHHHH
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999987664

>CHL00176 ftsH cell division protein; Validated

Probab=99.23  E-value=1.3e-11  Score=124.45  Aligned_cols=77  Identities=30%  Similarity=0.438  Sum_probs=69.4

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                      ....+|+|++|.+++|+++.+.+ .+++.++.|..+|...++|+||+||||||||++|+++|++++.|++.++++++.
T Consensus       177 ~~~~~f~dv~G~~~~k~~l~eiv-~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~  253 (638)
T CHL00176        177 DTGITFRDIAGIEEAKEEFEEVV-SFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFV  253 (638)
T ss_pred             CCCCCHHhccChHHHHHHHHHHH-HHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHH
Confidence            34569999999999999997755 568899999999999999999999999999999999999999999999887654

>PRK04195 replication factor C large subunit; Provisional

Probab=99.15  E-value=4.7e-11  Score=117.23  Aligned_cols=78  Identities=27%  Similarity=0.531  Sum_probs=67.1

Q ss_pred             CCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEe
Q 045456          197 AWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDME  276 (288)
Q Consensus       197 ~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  276 (288)
                      .|  +++++|.++++|+|++++++.+.+.+..+..        |.+ ++.+||+||||||||++|+++|++++++++.++
T Consensus         3 ~W--~eKyrP~~l~dlvg~~~~~~~l~~~l~~~~~--------g~~-~~~lLL~GppG~GKTtla~ala~el~~~~ieln   71 (482)
T PRK04195          3 PW--VEKYRPKTLSDVVGNEKAKEQLREWIESWLK--------GKP-KKALLLYGPPGVGKTSLAHALANDYGWEVIELN   71 (482)
T ss_pred             Cc--hhhcCCCCHHHhcCCHHHHHHHHHHHHHHhc--------CCC-CCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEc
Confidence            47  5799999999999999999999988876552        322 678999999999999999999999999999999


Q ss_pred             cCCCCCccc
Q 045456          277 LTSVYCNSE  285 (288)
Q Consensus       277 ~~~~~~~~~  285 (288)
                      +++..+...
T Consensus        72 asd~r~~~~   80 (482)
T PRK04195         72 ASDQRTADV   80 (482)
T ss_pred             ccccccHHH
Confidence            988765543

>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.05  E-value=1.1e-10  Score=111.34  Aligned_cols=79  Identities=28%  Similarity=0.360  Sum_probs=72.4

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      .++..|+|++|.+.+|+.+.+.+.+++.+++.+..+. ++.+|+||+||||||||++++|||.|++..|+.++++++.++
T Consensus       147 ~~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr-~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSassLtsK  225 (428)
T KOG0740|consen  147 LRNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLR-EPVRGLLLFGPPGTGKTMLAKAIATESGATFFNISASSLTSK  225 (428)
T ss_pred             CCcccccCCcchhhHHHHhhhhhhhcccchHhhhccc-cccchhheecCCCCchHHHHHHHHhhhcceEeeccHHHhhhh
Confidence            4457899999999999999999999999999998765 456899999999999999999999999999999999999876

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=99.05  E-value=2.6e-10  Score=107.06  Aligned_cols=78  Identities=13%  Similarity=0.054  Sum_probs=55.8

Q ss_pred             CCCCCcccccc-ChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          204 DHPATFDKIAM-DPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       204 ~~p~~~~~l~~-~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      .+..+|+++.+ .--.+..+.+ +...+. +++....|+.+++|++||||||||||++|+|+|+++|.+++.++++++.+
T Consensus       109 ~~~~~f~~~~g~~~~~p~f~dk-~~~hi~-kn~l~~~~ik~PlgllL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~s  186 (413)
T PLN00020        109 QRTRSFDNLVGGYYIAPAFMDK-VAVHIA-KNFLALPNIKVPLILGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELES  186 (413)
T ss_pred             hhhcchhhhcCccccCHHHHHH-HHHHHH-hhhhhccCCCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhc
Confidence            34457777733 3322322222 221121 23344478899999999999999999999999999999999999999886


Q ss_pred             c
Q 045456          283 N  283 (288)
Q Consensus       283 ~  283 (288)
                      +
T Consensus       187 k  187 (413)
T PLN00020        187 E  187 (413)
T ss_pred             C
Confidence            5

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=99.01  E-value=4.6e-10  Score=101.43  Aligned_cols=76  Identities=28%  Similarity=0.280  Sum_probs=61.6

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      .-+|.+|++.+|++++|+.+.-.++.-..+        ......+|||||||.||||||..||+++|.++-..+++.+..
T Consensus        19 ~lRP~~l~efiGQ~~vk~~L~ifI~AAk~r--------~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~leK   90 (332)
T COG2255          19 SLRPKTLDEFIGQEKVKEQLQIFIKAAKKR--------GEALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPALEK   90 (332)
T ss_pred             ccCcccHHHhcChHHHHHHHHHHHHHHHhc--------CCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecccccccC
Confidence            346899999999999888776655443222        233567999999999999999999999999999999988877


Q ss_pred             cccc
Q 045456          283 NSEL  286 (288)
Q Consensus       283 ~~~l  286 (288)
                      ..||
T Consensus        91 ~gDl   94 (332)
T COG2255          91 PGDL   94 (332)
T ss_pred             hhhH
Confidence            7665

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=98.96  E-value=6.2e-10  Score=101.46  Aligned_cols=69  Identities=32%  Similarity=0.455  Sum_probs=54.2

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC------cEEE
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF------NIYD  274 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~------~i~~  274 (288)
                      +++++|.+|+++++++.+.+.+...+..             ..-..|||||||||||||.|.|.|.++..      -+..
T Consensus        27 teKYrPkt~de~~gQe~vV~~L~~a~~~-------------~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~   93 (346)
T KOG0989|consen   27 TEKYRPKTFDELAGQEHVVQVLKNALLR-------------RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLE   93 (346)
T ss_pred             HHHhCCCcHHhhcchHHHHHHHHHHHhh-------------cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhh
Confidence            4699999999999999998888876663             11236999999999999999999999976      2444


Q ss_pred             EecCCCCC
Q 045456          275 MELTSVYC  282 (288)
Q Consensus       275 l~~~~~~~  282 (288)
                      +++++-..
T Consensus        94 lnaSderG  101 (346)
T KOG0989|consen   94 LNASDERG  101 (346)
T ss_pred             hccccccc
Confidence            55554433

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.95  E-value=8.1e-10  Score=108.07  Aligned_cols=57  Identities=26%  Similarity=0.483  Sum_probs=46.8

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..++|.+|++++|++++++.|...+..           | ..+.++||+||||||||++|+++|+.++.
T Consensus         6 ~kyRP~~~~divGq~~i~~~L~~~i~~-----------~-~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~   62 (472)
T PRK14962          6 RKYRPKTFSEVVGQDHVKKLIINALKK-----------N-SISHAYIFAGPRGTGKTTVARILAKSLNC   62 (472)
T ss_pred             HHHCCCCHHHccCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            478999999999999887776654442           1 23567999999999999999999999876

>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]

Probab=98.93  E-value=8.6e-10  Score=114.33  Aligned_cols=80  Identities=20%  Similarity=0.268  Sum_probs=69.4

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC-----CcEEEEecC
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK-----FNIYDMELT  278 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~-----~~i~~l~~~  278 (288)
                      ..-.+|++++|.+..+..+++.+..++-.++.|..+++.++||+|||||||||||++|+|+|..+.     ..++.-++.
T Consensus       259 ~~~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkga  338 (1080)
T KOG0732|consen  259 DSSVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGA  338 (1080)
T ss_pred             hcccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCc
Confidence            344689999999999999999999999999999999999999999999999999999999999883     345555555


Q ss_pred             CCCCc
Q 045456          279 SVYCN  283 (288)
Q Consensus       279 ~~~~~  283 (288)
                      +..++
T Consensus       339 D~lsk  343 (1080)
T KOG0732|consen  339 DCLSK  343 (1080)
T ss_pred             hhhcc
Confidence            55444

>PLN03025 replication factor C subunit; Provisional

Probab=98.93  E-value=1.2e-09  Score=101.80  Aligned_cols=70  Identities=23%  Similarity=0.278  Sum_probs=53.2

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC-----CcEEEE
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK-----FNIYDM  275 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~-----~~i~~l  275 (288)
                      +++++|.+|++++|++++.+.|...+.    .       +.  ...+|||||||||||++|.++|+++.     ..++.+
T Consensus         4 ~~kyrP~~l~~~~g~~~~~~~L~~~~~----~-------~~--~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~el   70 (319)
T PLN03025          4 VEKYRPTKLDDIVGNEDAVSRLQVIAR----D-------GN--MPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLEL   70 (319)
T ss_pred             hhhcCCCCHHHhcCcHHHHHHHHHHHh----c-------CC--CceEEEECCCCCCHHHHHHHHHHHHhcccCccceeee
Confidence            468999999999999988777655333    1       21  12599999999999999999999982     346777


Q ss_pred             ecCCCCCc
Q 045456          276 ELTSVYCN  283 (288)
Q Consensus       276 ~~~~~~~~  283 (288)
                      +.++..+.
T Consensus        71 n~sd~~~~   78 (319)
T PLN03025         71 NASDDRGI   78 (319)
T ss_pred             cccccccH
Confidence            77665443

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.92  E-value=8.3e-10  Score=109.06  Aligned_cols=78  Identities=23%  Similarity=0.340  Sum_probs=73.0

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      ++.+ +++++...+-..+.+.++.++.++..+...|+.+++|+|+|||||||||.+++|+|++.+..++.++++++.++
T Consensus       180 ~~~~-~~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~~a~~~~i~~peli~k  257 (693)
T KOG0730|consen  180 PEVG-DDIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEYGAFLFLINGPELISK  257 (693)
T ss_pred             cccc-cccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHhCceeEecccHHHHHh
Confidence            5667 89999999999999999999999999999999999999999999999999999999999999999999887654

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.91  E-value=2.8e-09  Score=99.69  Aligned_cols=76  Identities=25%  Similarity=0.297  Sum_probs=60.2

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                      ...+|.+|++++|.++.++.+...+......       + ...++++|+||||||||++|+++|++++.++..++.+.+.
T Consensus        17 ~~~rP~~~~~~vG~~~~~~~l~~~l~~~~~~-------~-~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~   88 (328)
T PRK00080         17 RSLRPKSLDEFIGQEKVKENLKIFIEAAKKR-------G-EALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALE   88 (328)
T ss_pred             hhcCcCCHHHhcCcHHHHHHHHHHHHHHHhc-------C-CCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEeccccc
Confidence            3567899999999999999887766543221       1 3356899999999999999999999999999888877655


Q ss_pred             Cccc
Q 045456          282 CNSE  285 (288)
Q Consensus       282 ~~~~  285 (288)
                      ...+
T Consensus        89 ~~~~   92 (328)
T PRK00080         89 KPGD   92 (328)
T ss_pred             ChHH
Confidence            4443

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.89  E-value=1.9e-09  Score=108.03  Aligned_cols=57  Identities=25%  Similarity=0.462  Sum_probs=48.3

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+++|.+|++|+|++.+++.|...+..           | ..+..|||+||||||||++|+++|+.+++
T Consensus         7 rKyRPktFddVIGQe~vv~~L~~aI~~-----------g-rl~HAyLF~GPpGvGKTTlAriLAK~LnC   63 (702)
T PRK14960          7 RKYRPRNFNELVGQNHVSRALSSALER-----------G-RLHHAYLFTGTRGVGKTTIARILAKCLNC   63 (702)
T ss_pred             HHhCCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            467899999999999998888776551           2 23568999999999999999999999976

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.88  E-value=3.6e-09  Score=97.97  Aligned_cols=70  Identities=20%  Similarity=0.289  Sum_probs=58.8

Q ss_pred             CCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEE
Q 045456          196 GAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDM  275 (288)
Q Consensus       196 ~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  275 (288)
                      ..|  +++++|.+|++++++++.++.+...+..           |. .+..+||+||||+|||++++++|++++.+++.+
T Consensus         9 ~~w--~~kyrP~~~~~~~~~~~~~~~l~~~~~~-----------~~-~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i   74 (316)
T PHA02544          9 FMW--EQKYRPSTIDECILPAADKETFKSIVKK-----------GR-IPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFV   74 (316)
T ss_pred             Ccc--eeccCCCcHHHhcCcHHHHHHHHHHHhc-----------CC-CCeEEEeeCcCCCCHHHHHHHHHHHhCccceEe
Confidence            468  4799999999999999998887775541           22 345677799999999999999999999999999


Q ss_pred             ecCC
Q 045456          276 ELTS  279 (288)
Q Consensus       276 ~~~~  279 (288)
                      +.++
T Consensus        75 ~~~~   78 (316)
T PHA02544         75 NGSD   78 (316)
T ss_pred             ccCc
Confidence            9876

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.85  E-value=3.4e-09  Score=104.63  Aligned_cols=57  Identities=23%  Similarity=0.390  Sum_probs=48.3

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+++|.+|++|+|++.+++.|...+..           + ..+..|||+||||||||++|+++|+.+++
T Consensus         8 ~kyRP~~f~divGq~~v~~~L~~~~~~-----------~-~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c   64 (509)
T PRK14958          8 RKWRPRCFQEVIGQAPVVRALSNALDQ-----------Q-YLHHAYLFTGTRGVGKTTISRILAKCLNC   64 (509)
T ss_pred             HHHCCCCHHHhcCCHHHHHHHHHHHHh-----------C-CCCeeEEEECCCCCCHHHHHHHHHHHhcC
Confidence            578899999999999998888776642           1 23557999999999999999999999976

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.84  E-value=4.5e-09  Score=102.93  Aligned_cols=74  Identities=14%  Similarity=0.249  Sum_probs=57.5

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC------------
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK------------  269 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~------------  269 (288)
                      .+++|.+|++|+|++.+++.+...+..           | ..+.++||+||||+|||++|+++|+.++            
T Consensus         5 ~KyRP~~f~dliGQe~vv~~L~~a~~~-----------~-ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~   72 (491)
T PRK14964          5 LKYRPSSFKDLVGQDVLVRILRNAFTL-----------N-KIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGT   72 (491)
T ss_pred             HHhCCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccc
Confidence            367899999999999888877654431           2 2467899999999999999999999763            


Q ss_pred             ------------CcEEEEecCCCCCccccc
Q 045456          270 ------------FNIYDMELTSVYCNSELR  287 (288)
Q Consensus       270 ------------~~i~~l~~~~~~~~~~l~  287 (288)
                                  .+++.+++++-.+..++|
T Consensus        73 C~~C~~i~~~~~~Dv~eidaas~~~vddIR  102 (491)
T PRK14964         73 CHNCISIKNSNHPDVIEIDAASNTSVDDIK  102 (491)
T ss_pred             cHHHHHHhccCCCCEEEEecccCCCHHHHH
Confidence                        467888887666555554

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.84  E-value=4.9e-09  Score=94.95  Aligned_cols=73  Identities=14%  Similarity=0.174  Sum_probs=53.2

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCccc---ceeEEEcCCCCChHHHHHHHHHHhC-------CcEEEEec
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWK---RGYLLFGPPGTGKSSLIAAMANYLK-------FNIYDMEL  277 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~---rg~LL~GPpGtGKTsla~aiA~~l~-------~~i~~l~~  277 (288)
                      .+++++|.+++|+.|.+.+...... ....+.|....   .+++|+||||||||++|+++|+.+.       .+++.++.
T Consensus         4 ~l~~~~Gl~~vk~~i~~~~~~~~~~-~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~   82 (261)
T TIGR02881         4 ELSRMVGLDEVKALIKEIYAWIQIN-EKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVER   82 (261)
T ss_pred             HHHHhcChHHHHHHHHHHHHHHHHH-HHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecH
Confidence            3678999999999999877655433 44445566543   3589999999999999999998752       25666665


Q ss_pred             CCCC
Q 045456          278 TSVY  281 (288)
Q Consensus       278 ~~~~  281 (288)
                      +++.
T Consensus        83 ~~l~   86 (261)
T TIGR02881        83 ADLV   86 (261)
T ss_pred             HHhh
Confidence            5443

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=98.84  E-value=4.3e-09  Score=106.79  Aligned_cols=76  Identities=24%  Similarity=0.441  Sum_probs=67.6

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                      ...+|+++.+.+..++++.+.+. ++..++.+...|...++|+||+||||||||++++++|++++.|++.++++++.
T Consensus       147 ~~~~~~di~g~~~~~~~l~~i~~-~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~  222 (644)
T PRK10733        147 IKTTFADVAGCDEAKEEVAELVE-YLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFV  222 (644)
T ss_pred             hhCcHHHHcCHHHHHHHHHHHHH-HhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhH
Confidence            45689999999999999988665 46778888888989999999999999999999999999999999999987654

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.83  E-value=6.1e-09  Score=95.96  Aligned_cols=68  Identities=21%  Similarity=0.217  Sum_probs=53.6

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      +|++++|.++.++.+...+......        .....+++|+||||||||++|+++|++++.++..+..+.....
T Consensus         2 ~~~~~iG~~~~~~~l~~~l~~~~~~--------~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~~~   69 (305)
T TIGR00635         2 LLAEFIGQEKVKEQLQLFIEAAKMR--------QEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEKP   69 (305)
T ss_pred             CHHHHcCHHHHHHHHHHHHHHHHhc--------CCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhcCc
Confidence            7899999999999887766543322        1224579999999999999999999999999888776654433

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=98.82  E-value=2.4e-09  Score=100.82  Aligned_cols=64  Identities=20%  Similarity=0.371  Sum_probs=49.6

Q ss_pred             CCCCCCccccccChhhhHH---HHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCC
Q 045456          203 LDHPATFDKIAMDPSMKQA---SIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTS  279 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~---i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~  279 (288)
                      .-+|.++++++|++++...   |.+.++.           |  --..++|||||||||||+|++||+..+.+|..+++..
T Consensus        17 rmRP~~lde~vGQ~HLlg~~~~lrr~v~~-----------~--~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~   83 (436)
T COG2256          17 RLRPKSLDEVVGQEHLLGEGKPLRRAVEA-----------G--HLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVT   83 (436)
T ss_pred             HhCCCCHHHhcChHhhhCCCchHHHHHhc-----------C--CCceeEEECCCCCCHHHHHHHHHHhhCCceEEecccc
Confidence            4579999999999876432   3332221           1  1236999999999999999999999999999998753

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.82  E-value=3.7e-09  Score=102.86  Aligned_cols=58  Identities=26%  Similarity=0.454  Sum_probs=48.0

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..+++|.+|++++|++.+.+.|...+..           |. .+..+||+||||||||++|+++|+.+++
T Consensus         9 ~~KyRP~~f~dvVGQe~iv~~L~~~i~~-----------~r-i~ha~Lf~GP~GtGKTTlAriLAk~Lnc   66 (484)
T PRK14956          9 SRKYRPQFFRDVIHQDLAIGALQNALKS-----------GK-IGHAYIFFGPRGVGKTTIARILAKRLNC   66 (484)
T ss_pred             HHHhCCCCHHHHhChHHHHHHHHHHHHc-----------CC-CCeEEEEECCCCCCHHHHHHHHHHhcCc
Confidence            3578999999999999888877665542           22 3456999999999999999999999986

>CHL00206 ycf2 Ycf2; Provisional

Probab=98.81  E-value=2.5e-09  Score=115.82  Aligned_cols=52  Identities=27%  Similarity=0.324  Sum_probs=47.2

Q ss_pred             cHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          232 RRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       232 ~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      .+....++|..+++|+||+||||||||.+|+|+|+++++|++.|+++++.++
T Consensus      1618 ~kP~slrLGl~pPKGILLiGPPGTGKTlLAKALA~es~VPFIsISgs~fl~~ 1669 (2281)
T CHL00206       1618 GKPFSLRLALSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLDN 1669 (2281)
T ss_pred             CcCHHHHcCCCCCCceEEECCCCCCHHHHHHHHHHhcCCceEEEEHHHHhhc
Confidence            3456678899999999999999999999999999999999999999988753

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.80  E-value=6.4e-09  Score=95.57  Aligned_cols=70  Identities=17%  Similarity=0.178  Sum_probs=56.3

Q ss_pred             ccccChhhhHHHHHHHHHHhhcHHHHHHhCCcc---cceeEEEcCCCCChHHHHHHHHHHhC-------CcEEEEecCCC
Q 045456          211 KIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVW---KRGYLLFGPPGTGKSSLIAAMANYLK-------FNIYDMELTSV  280 (288)
Q Consensus       211 ~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~---~rg~LL~GPpGtGKTsla~aiA~~l~-------~~i~~l~~~~~  280 (288)
                      +++|.+++|++|.+.+.. +..++...+.|+..   ..+++|+||||||||++|+++|+.+.       -+++.++.+++
T Consensus        23 ~l~Gl~~vk~~i~e~~~~-~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l  101 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAAL-LLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDL  101 (284)
T ss_pred             hccCHHHHHHHHHHHHHH-HHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHH
Confidence            689999999999886665 66667777888864   34799999999999999999998873       26888876554


Q ss_pred             C
Q 045456          281 Y  281 (288)
Q Consensus       281 ~  281 (288)
                      .
T Consensus       102 ~  102 (284)
T TIGR02880       102 V  102 (284)
T ss_pred             h
Confidence            3

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.80  E-value=7.3e-09  Score=99.45  Aligned_cols=57  Identities=21%  Similarity=0.369  Sum_probs=47.9

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..++|.+|++|+|++.+++.|...+..           | ..+..+||+||||||||++|+++|+.+.+
T Consensus         8 ~k~RP~~~~eiiGq~~~~~~L~~~~~~-----------~-~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c   64 (397)
T PRK14955          8 RKYRPKKFADITAQEHITRTIQNSLRM-----------G-RVGHGYIFSGLRGVGKTTAARVFAKAVNC   64 (397)
T ss_pred             HhcCCCcHhhccChHHHHHHHHHHHHh-----------C-CcceeEEEECCCCCCHHHHHHHHHHHhcC
Confidence            467899999999999998877665542           2 24567999999999999999999999976

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.79  E-value=8e-09  Score=98.04  Aligned_cols=57  Identities=25%  Similarity=0.338  Sum_probs=47.0

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+++|.+|++++|+++.++.+...+..           | ..+..+||+||||||||++|+++|+.+++
T Consensus         8 ~kyrP~~~~~iiGq~~~~~~l~~~~~~-----------~-~~~h~~L~~Gp~G~GKTtla~~la~~l~c   64 (363)
T PRK14961          8 RKWRPQYFRDIIGQKHIVTAISNGLSL-----------G-RIHHAWLLSGTRGVGKTTIARLLAKSLNC   64 (363)
T ss_pred             HHhCCCchhhccChHHHHHHHHHHHHc-----------C-CCCeEEEEecCCCCCHHHHHHHHHHHhcC
Confidence            467899999999999988877665541           2 23567999999999999999999999864

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.79  E-value=1.1e-08  Score=102.18  Aligned_cols=89  Identities=18%  Similarity=0.357  Sum_probs=72.2

Q ss_pred             CCCccCCCCCCCccccccChhhhHHHHHHHHHHhh---c--------------HHHHH----HhCCcccceeEEEcCCCC
Q 045456          197 AWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVK---R--------------RNFYR----RVGKVWKRGYLLFGPPGT  255 (288)
Q Consensus       197 ~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~---~--------------~~~~~----~~g~~~~rg~LL~GPpGt  255 (288)
                      .|  |+.+.|..|.||.+++.+.+.+..+|+.|-.   +              .+.+.    ..+.|.++-+||+||||-
T Consensus       260 LW--Vdky~Pk~FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppGl  337 (877)
T KOG1969|consen  260 LW--VDKYRPKKFTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPGL  337 (877)
T ss_pred             ee--ecccChhHHHHHhcchhHHHHHHHHHHhhcHHhhcchHhhhccccccchhhhhhcccCccCCCccceEEeecCCCC
Confidence            68  7899999999999999999999998876521   1              11121    234455666899999999


Q ss_pred             ChHHHHHHHHHHhCCcEEEEecCCCCCccccc
Q 045456          256 GKSSLIAAMANYLKFNIYDMELTSVYCNSELR  287 (288)
Q Consensus       256 GKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~  287 (288)
                      ||||||..||++.|+.+++|++++-++...++
T Consensus       338 GKTTLAHViAkqaGYsVvEINASDeRt~~~v~  369 (877)
T KOG1969|consen  338 GKTTLAHVIAKQAGYSVVEINASDERTAPMVK  369 (877)
T ss_pred             ChhHHHHHHHHhcCceEEEecccccccHHHHH
Confidence            99999999999999999999999988776554

>CHL00181 cbbX CbbX; Provisional

Probab=98.79  E-value=6.6e-09  Score=95.62  Aligned_cols=70  Identities=17%  Similarity=0.232  Sum_probs=54.7

Q ss_pred             cccccChhhhHHHHHHHHHHhhcHHHHHHhCCccc-ce--eEEEcCCCCChHHHHHHHHHHhC-------CcEEEEecCC
Q 045456          210 DKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWK-RG--YLLFGPPGTGKSSLIAAMANYLK-------FNIYDMELTS  279 (288)
Q Consensus       210 ~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~-rg--~LL~GPpGtGKTsla~aiA~~l~-------~~i~~l~~~~  279 (288)
                      ++++|.+++|++|.+.+.. +...+...+.|...+ .|  +||+||||||||++|+++|+.+.       -+++.++.++
T Consensus        23 ~~l~Gl~~vK~~i~e~~~~-~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~  101 (287)
T CHL00181         23 EELVGLAPVKTRIREIAAL-LLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDD  101 (287)
T ss_pred             HhcCCcHHHHHHHHHHHHH-HHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHH
Confidence            4799999999999987654 445566777887654 34  89999999999999999999862       2577777554


Q ss_pred             C
Q 045456          280 V  280 (288)
Q Consensus       280 ~  280 (288)
                      +
T Consensus       102 l  102 (287)
T CHL00181        102 L  102 (287)
T ss_pred             H
Confidence            4

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.78  E-value=7.3e-09  Score=103.69  Aligned_cols=57  Identities=23%  Similarity=0.355  Sum_probs=48.4

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+++|.+|++|+|++++++.|.+.+..           | ..+..+||+||+|||||++|+++|+.+++
T Consensus         8 rKYRPqtFddVIGQe~vv~~L~~al~~-----------g-RLpHA~LFtGP~GvGKTTLAriLAkaLnC   64 (700)
T PRK12323          8 RKWRPRDFTTLVGQEHVVRALTHALEQ-----------Q-RLHHAYLFTGTRGVGKTTLSRILAKSLNC   64 (700)
T ss_pred             HHhCCCcHHHHcCcHHHHHHHHHHHHh-----------C-CCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            478999999999999999888776552           1 23567999999999999999999999986

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.78  E-value=9.8e-09  Score=101.16  Aligned_cols=57  Identities=19%  Similarity=0.273  Sum_probs=47.3

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..++|.+|++++|++.+.+.+...+..           | ..+.++||+||||||||++|+++|+.+++
T Consensus        13 ~kyRP~~f~dliGq~~vv~~L~~ai~~-----------~-ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc   69 (507)
T PRK06645         13 RKYRPSNFAELQGQEVLVKVLSYTILN-----------D-RLAGGYLLTGIRGVGKTTSARIIAKAVNC   69 (507)
T ss_pred             hhhCCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence            478999999999999888876664432           2 23568999999999999999999999975

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=98.78  E-value=1.6e-08  Score=99.94  Aligned_cols=74  Identities=26%  Similarity=0.406  Sum_probs=60.1

Q ss_pred             CCCCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEE
Q 045456          194 RGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIY  273 (288)
Q Consensus       194 ~~~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~  273 (288)
                      +...|  ++.+.|.+.++|+......+++..+++..+.        +....+-+||+||||||||++++++|+++|..+.
T Consensus         5 ~~~~W--~~ky~P~~~~eLavhkkKv~eV~~wl~~~~~--------~~~~~~iLlLtGP~G~GKtttv~~La~elg~~v~   74 (519)
T PF03215_consen    5 ESEPW--VEKYAPKTLDELAVHKKKVEEVRSWLEEMFS--------GSSPKRILLLTGPSGCGKTTTVKVLAKELGFEVQ   74 (519)
T ss_pred             ccCcc--chhcCCCCHHHhhccHHHHHHHHHHHHHHhc--------cCCCcceEEEECCCCCCHHHHHHHHHHHhCCeeE
Confidence            45679  6799999999999998888888887775432        3334455778999999999999999999999998


Q ss_pred             EEec
Q 045456          274 DMEL  277 (288)
Q Consensus       274 ~l~~  277 (288)
                      ...-
T Consensus        75 Ew~n   78 (519)
T PF03215_consen   75 EWIN   78 (519)
T ss_pred             EecC
Confidence            8643

>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.77  E-value=9.8e-09  Score=96.89  Aligned_cols=122  Identities=17%  Similarity=0.158  Sum_probs=79.7

Q ss_pred             chhhHHHHhhhhHHHHHHHHHHhccceeEEEEecCCC-CCCCCCCCCCccCCCCCCCccccccChhhhHHHHHHHHHHhh
Q 045456          153 KYMERILNIYLPYVMEKSNAIKEQNKVVKLYAVGHFG-GDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVK  231 (288)
Q Consensus       153 ~~r~~vl~syl~~Il~~~~~i~~~~~~~kl~~~~~~~-~~~~~~~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~  231 (288)
                      +.-.+|..+|+..++....-|++..+...=.+..-+. -+.-.+  -..........|+++++.+.++++|.+.-..-- 
T Consensus       299 keg~~V~w~yi~r~LGqPSLiREsSrg~~pw~gsls~~k~~i~~--~~~~s~~gk~pl~~ViL~psLe~Rie~lA~aTa-  375 (630)
T KOG0742|consen  299 KEGTLVTWRYIERRLGQPSLIRESSRGRFPWIGSLSALKHPIQG--SRSASSRGKDPLEGVILHPSLEKRIEDLAIATA-  375 (630)
T ss_pred             cccchhHHHHHHHHcCCchhhhhhccccCCCcccHHHHhchhhh--hHhhhhcCCCCcCCeecCHHHHHHHHHHHHHhc-
Confidence            4455688888888888876666544422100000000 000000  011123344579999999999999877443322 


Q ss_pred             cHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          232 RRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       232 ~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                          ..+....+-|++|||||||||||++|+-||.+.|+++-.+.+++|.
T Consensus       376 ----NTK~h~apfRNilfyGPPGTGKTm~ArelAr~SGlDYA~mTGGDVA  421 (630)
T KOG0742|consen  376 ----NTKKHQAPFRNILFYGPPGTGKTMFARELARHSGLDYAIMTGGDVA  421 (630)
T ss_pred             ----ccccccchhhheeeeCCCCCCchHHHHHHHhhcCCceehhcCCCcc
Confidence                2223456678999999999999999999999999999999988874

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.77  E-value=8.4e-09  Score=104.58  Aligned_cols=57  Identities=26%  Similarity=0.387  Sum_probs=47.7

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+++|.+|++|+|++++++.|...++.           | ..+..|||+||+|||||++++++|+.+++
T Consensus         8 rKYRPqtFdEVIGQe~Vv~~L~~aL~~-----------g-RL~HAyLFtGPpGvGKTTlAriLAKaLnC   64 (830)
T PRK07003          8 RKWRPKDFASLVGQEHVVRALTHALDG-----------G-RLHHAYLFTGTRGVGKTTLSRIFAKALNC   64 (830)
T ss_pred             HHhCCCcHHHHcCcHHHHHHHHHHHhc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            578999999999999988877765541           1 23567999999999999999999999975

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=98.77  E-value=1.2e-08  Score=91.13  Aligned_cols=82  Identities=26%  Similarity=0.363  Sum_probs=68.9

Q ss_pred             CCCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCc
Q 045456          195 GGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFN  271 (288)
Q Consensus       195 ~~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~  271 (288)
                      ++...+|....|..+++|+|.+.+|+.|.+..+.|+.        |. +...+||+|+.||||||+++|+.+++   |+-
T Consensus        12 ~~~l~~i~~~~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~--------G~-pannvLL~G~rGtGKSSlVkall~~y~~~GLR   82 (249)
T PF05673_consen   12 SGYLEPIKHPDPIRLDDLIGIERQKEALIENTEQFLQ--------GL-PANNVLLWGARGTGKSSLVKALLNEYADQGLR   82 (249)
T ss_pred             CCcEEecCCCCCCCHHHhcCHHHHHHHHHHHHHHHHc--------CC-CCcceEEecCCCCCHHHHHHHHHHHHhhcCce
Confidence            3457777778888999999999999999999999987        44 36789999999999999999999977   677


Q ss_pred             EEEEecCCCCCccc
Q 045456          272 IYDMELTSVYCNSE  285 (288)
Q Consensus       272 i~~l~~~~~~~~~~  285 (288)
                      ++.|.-.++.+-.+
T Consensus        83 lIev~k~~L~~l~~   96 (249)
T PF05673_consen   83 LIEVSKEDLGDLPE   96 (249)
T ss_pred             EEEECHHHhccHHH
Confidence            88887777665443

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.73  E-value=7.8e-09  Score=94.98  Aligned_cols=75  Identities=25%  Similarity=0.378  Sum_probs=52.7

Q ss_pred             CCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHH-HhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          196 GAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYR-RVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       196 ~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~-~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..|..-...-..-|+.|+.+.++|+++..-...-+.-.+.-. .-=+.|.|-+|||||||||||+||+|+|+.|..
T Consensus       128 n~w~LPa~eF~glWEsLiyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSI  203 (423)
T KOG0744|consen  128 NHWYLPAAEFDGLWESLIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSI  203 (423)
T ss_pred             hheeccchhhhhhHHHHhhcccHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhhee
Confidence            356543333344688899999999998876554443222111 122467888999999999999999999999854

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=98.73  E-value=1.8e-08  Score=96.49  Aligned_cols=71  Identities=20%  Similarity=0.281  Sum_probs=54.3

Q ss_pred             ccccChhhhHHHHHHHHHHhhcHHHHHHhC-CcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          211 KIAMDPSMKQASIDDLDRFVKRRNFYRRVG-KVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       211 ~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g-~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                      -++|+++.|+.+..++.....+...-..++ ...++++||+||||||||++|+++|+.++.|++.++.+.+.
T Consensus        13 ~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vdat~~~   84 (441)
T TIGR00390        13 YIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFT   84 (441)
T ss_pred             hccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeEEEeecceee
Confidence            468899999999887775443322211111 12358999999999999999999999999999999988664

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.72  E-value=1.6e-08  Score=100.33  Aligned_cols=57  Identities=23%  Similarity=0.390  Sum_probs=47.5

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+++|.+|++|+|++++++.+...+..           + ..+..|||+||||||||++|+++|+.+++
T Consensus         8 ~k~rP~~f~divGq~~v~~~L~~~i~~-----------~-~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c   64 (527)
T PRK14969          8 RKWRPKSFSELVGQEHVVRALTNALEQ-----------Q-RLHHAYLFTGTRGVGKTTLARILAKSLNC   64 (527)
T ss_pred             HHhCCCcHHHhcCcHHHHHHHHHHHHc-----------C-CCCEEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            456899999999999998877766552           1 23567999999999999999999999976

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.71  E-value=1.8e-08  Score=100.80  Aligned_cols=57  Identities=30%  Similarity=0.447  Sum_probs=47.1

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+++|.+|++|+|++.+++.|...+..           | ..+..|||+||+|||||++|+++|+.+++
T Consensus         5 ~kyRP~~f~eivGq~~i~~~L~~~i~~-----------~-r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c   61 (584)
T PRK14952          5 RKYRPATFAEVVGQEHVTEPLSSALDA-----------G-RINHAYLFSGPRGCGKTSSARILARSLNC   61 (584)
T ss_pred             HHhCCCcHHHhcCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            468899999999999888887765542           2 23557999999999999999999998873

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.71  E-value=1.7e-08  Score=99.61  Aligned_cols=57  Identities=26%  Similarity=0.462  Sum_probs=46.9

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+++|.+|++|+|++++++.|...+..           + ..+..+||+||||||||++|+++|+.+.+
T Consensus         6 ~KyRP~~~~dvvGq~~v~~~L~~~i~~-----------~-~l~ha~Lf~GppGtGKTTlA~~lA~~l~c   62 (504)
T PRK14963          6 QRARPITFDEVVGQEHVKEVLLAALRQ-----------G-RLGHAYLFSGPRGVGKTTTARLIAMAVNC   62 (504)
T ss_pred             HhhCCCCHHHhcChHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            468899999999999988887765552           1 23456899999999999999999999864

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.71  E-value=1.7e-08  Score=103.96  Aligned_cols=58  Identities=28%  Similarity=0.391  Sum_probs=47.7

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      .+++|.+|++|+|++.+++.|...+..           | ..+..|||+||||||||++|+++|+.+++.
T Consensus         8 eKyRP~tFddIIGQe~Iv~~LknaI~~-----------~-rl~HAyLFtGPpGtGKTTLARiLAk~Lnce   65 (944)
T PRK14949          8 RKWRPATFEQMVGQSHVLHALTNALTQ-----------Q-RLHHAYLFTGTRGVGKTSLARLFAKGLNCE   65 (944)
T ss_pred             HHhCCCCHHHhcCcHHHHHHHHHHHHh-----------C-CCCeEEEEECCCCCCHHHHHHHHHHhccCc
Confidence            467899999999999988877665442           1 235678999999999999999999999764

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.71  E-value=7.6e-08  Score=93.39  Aligned_cols=77  Identities=19%  Similarity=0.308  Sum_probs=60.4

Q ss_pred             CCccccc--c-ChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC-cEEEEecCCCCC
Q 045456          207 ATFDKIA--M-DPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF-NIYDMELTSVYC  282 (288)
Q Consensus       207 ~~~~~l~--~-~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~-~i~~l~~~~~~~  282 (288)
                      -.|++++  | +.+--+..+++...-+-.|+..+++|+..-+|+|||||||||||.+||.|.+.|+. +=-.|+++++.+
T Consensus       216 f~Fe~mGIGGLd~EFs~IFRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVNGPeIL~  295 (744)
T KOG0741|consen  216 FNFESMGIGGLDKEFSDIFRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVNGPEILN  295 (744)
T ss_pred             CChhhcccccchHHHHHHHHHHHHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccCcHHHHH
Confidence            3788874  2 34445556667776677899999999999999999999999999999999999974 455566666654


Q ss_pred             c
Q 045456          283 N  283 (288)
Q Consensus       283 ~  283 (288)
                      +
T Consensus       296 K  296 (744)
T KOG0741|consen  296 K  296 (744)
T ss_pred             H
Confidence            4

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.70  E-value=1.9e-08  Score=93.49  Aligned_cols=69  Identities=25%  Similarity=0.413  Sum_probs=53.3

Q ss_pred             CCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC-----Cc
Q 045456          197 AWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK-----FN  271 (288)
Q Consensus       197 ~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~-----~~  271 (288)
                      .|  +..++|.+|++++|.+++++.+...+..           +.  ..+++|+||||||||++|+++|+++.     .+
T Consensus         4 ~w--~~ky~P~~~~~~~g~~~~~~~L~~~~~~-----------~~--~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~   68 (337)
T PRK12402          4 LW--TEKYRPALLEDILGQDEVVERLSRAVDS-----------PN--LPHLLVQGPPGSGKTAAVRALARELYGDPWENN   68 (337)
T ss_pred             ch--HHhhCCCcHHHhcCCHHHHHHHHHHHhC-----------CC--CceEEEECCCCCCHHHHHHHHHHHhcCcccccc
Confidence            57  4688999999999999887777664431           21  12699999999999999999999984     34


Q ss_pred             EEEEecCCC
Q 045456          272 IYDMELTSV  280 (288)
Q Consensus       272 i~~l~~~~~  280 (288)
                      +..+++++.
T Consensus        69 ~~~i~~~~~   77 (337)
T PRK12402         69 FTEFNVADF   77 (337)
T ss_pred             eEEechhhh
Confidence            667776553

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.70  E-value=2.2e-08  Score=99.96  Aligned_cols=57  Identities=21%  Similarity=0.391  Sum_probs=47.4

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..++|.+|++++|++.+++.+...+..           | ..++++||+||||||||++|+++|+.+.+
T Consensus         8 ~KyRP~~F~dIIGQe~iv~~L~~aI~~-----------~-rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C   64 (605)
T PRK05896          8 RKYRPHNFKQIIGQELIKKILVNAILN-----------N-KLTHAYIFSGPRGIGKTSIAKIFAKAINC   64 (605)
T ss_pred             HHhCCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence            578999999999999988877765431           2 23578999999999999999999999853

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.69  E-value=1.9e-08  Score=101.46  Aligned_cols=57  Identities=26%  Similarity=0.391  Sum_probs=47.5

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+++|.+|++|+|++.+++.|...+..           | ..+..|||+||||||||++|+++|+.+++
T Consensus         8 ~KyRP~~f~divGQe~vv~~L~~~l~~-----------~-rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c   64 (647)
T PRK07994          8 RKWRPQTFAEVVGQEHVLTALANALDL-----------G-RLHHAYLFSGTRGVGKTTIARLLAKGLNC   64 (647)
T ss_pred             HHhCCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHhhhh
Confidence            356899999999999998877765542           2 23567999999999999999999999977

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.69  E-value=2.4e-08  Score=100.79  Aligned_cols=57  Identities=28%  Similarity=0.434  Sum_probs=48.3

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+++|.+|++|+|++.+++.|...+..           | ..+.++||+||||||||++|+++|+.+++
T Consensus         8 rKYRP~tFddIIGQe~vv~~L~~ai~~-----------~-rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC   64 (709)
T PRK08691          8 RKWRPKTFADLVGQEHVVKALQNALDE-----------G-RLHHAYLLTGTRGVGKTTIARILAKSLNC   64 (709)
T ss_pred             HHhCCCCHHHHcCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCcHHHHHHHHHHHhcc
Confidence            477899999999999998888776552           1 23568999999999999999999999865

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.68  E-value=2.3e-08  Score=96.47  Aligned_cols=66  Identities=21%  Similarity=0.350  Sum_probs=53.0

Q ss_pred             CCCCCCCccccccChhhhHH---HHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecC
Q 045456          202 NLDHPATFDKIAMDPSMKQA---SIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELT  278 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~---i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  278 (288)
                      +..+|.+|++++|+++..+.   +.+.+.    .       +  ....++|+||||||||++|+++|+.++.+++.++..
T Consensus         4 ~~~RP~~l~d~vGq~~~v~~~~~L~~~i~----~-------~--~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~   70 (413)
T PRK13342          4 ERMRPKTLDEVVGQEHLLGPGKPLRRMIE----A-------G--RLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAV   70 (413)
T ss_pred             hhhCCCCHHHhcCcHHHhCcchHHHHHHH----c-------C--CCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecc
Confidence            46789999999999887554   544442    1       1  134799999999999999999999999999999876


Q ss_pred             CC
Q 045456          279 SV  280 (288)
Q Consensus       279 ~~  280 (288)
                      ..
T Consensus        71 ~~   72 (413)
T PRK13342         71 TS   72 (413)
T ss_pred             cc
Confidence            43

>smart00763 AAA_PrkA PrkA AAA domain

Probab=98.68  E-value=5e-08  Score=91.85  Aligned_cols=64  Identities=23%  Similarity=0.294  Sum_probs=51.9

Q ss_pred             CCcc-ccccChhhhHHHHHHHHHHhhcHHHHHHhCC-cccceeEEEcCCCCChHHHHHHHHHHhCC-------cEEEEec
Q 045456          207 ATFD-KIAMDPSMKQASIDDLDRFVKRRNFYRRVGK-VWKRGYLLFGPPGTGKSSLIAAMANYLKF-------NIYDMEL  277 (288)
Q Consensus       207 ~~~~-~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~-~~~rg~LL~GPpGtGKTsla~aiA~~l~~-------~i~~l~~  277 (288)
                      .-|+ ++.|.++.++++.+.+.....        |. ..++.++|+|||||||||+|+++|+.++.       ++|.+..
T Consensus        47 ~~F~~~~~G~~~~i~~lv~~l~~~a~--------g~~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~  118 (361)
T smart00763       47 RFFDHDFFGMEEAIERFVNYFKSAAQ--------GLEERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKW  118 (361)
T ss_pred             cccchhccCcHHHHHHHHHHHHHHHh--------cCCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEe
Confidence            3567 899999998888876665442        22 23567899999999999999999999987       9999998


Q ss_pred             C
Q 045456          278 T  278 (288)
Q Consensus       278 ~  278 (288)
                      .
T Consensus       119 ~  119 (361)
T smart00763      119 N  119 (361)
T ss_pred             c
Confidence            3

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.68  E-value=2.6e-08  Score=98.88  Aligned_cols=57  Identities=23%  Similarity=0.366  Sum_probs=47.0

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+++|.+|++++|++.+++.+...+..           | ..+..+||+||||||||++|+++|+.+++
T Consensus         8 ~KyRP~~f~diiGq~~~v~~L~~~i~~-----------~-rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c   64 (546)
T PRK14957          8 RKYRPQSFAEVAGQQHALNSLVHALET-----------Q-KVHHAYLFTGTRGVGKTTLGRLLAKCLNC   64 (546)
T ss_pred             HHHCcCcHHHhcCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            467899999999999988877665542           1 23557999999999999999999998875

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.68  E-value=2.2e-08  Score=100.70  Aligned_cols=57  Identities=23%  Similarity=0.374  Sum_probs=47.0

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+++|.+|++++|++.+.+.|...+..           | ..+..|||+||+|||||++|+++|+.+++
T Consensus         8 ~KyRP~~f~dviGQe~vv~~L~~~l~~-----------~-rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC   64 (618)
T PRK14951          8 RKYRPRSFSEMVGQEHVVQALTNALTQ-----------Q-RLHHAYLFTGTRGVGKTTVSRILAKSLNC   64 (618)
T ss_pred             HHHCCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            478899999999999888777665442           1 23557999999999999999999999875

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.67  E-value=2.8e-08  Score=100.04  Aligned_cols=57  Identities=19%  Similarity=0.338  Sum_probs=47.7

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..++|.+|++|+|++.+++.|...+..           | ..+.+|||+||||||||++|+++|+.+.+
T Consensus         8 ~kyRP~~f~eivGQe~i~~~L~~~i~~-----------~-ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c   64 (620)
T PRK14954          8 RKYRPSKFADITAQEHITHTIQNSLRM-----------D-RVGHGYIFSGLRGVGKTTAARVFAKAVNC   64 (620)
T ss_pred             HHHCCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCeeEEEECCCCCCHHHHHHHHHHHhCC
Confidence            357899999999999988887665442           2 34667999999999999999999999976

>TIGR00763 lon ATP-dependent protease La

Probab=98.67  E-value=4e-08  Score=101.79  Aligned_cols=69  Identities=28%  Similarity=0.284  Sum_probs=52.7

Q ss_pred             ccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCcccc
Q 045456          211 KIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSEL  286 (288)
Q Consensus       211 ~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l  286 (288)
                      ++.|++++|+.|.+.+......       +......+||+||||||||++|++||+.++.+++.++++.+.+.+++
T Consensus       321 ~~~G~~~~k~~i~~~~~~~~~~-------~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~~~i  389 (775)
T TIGR00763       321 DHYGLKKVKERILEYLAVQKLR-------GKMKGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEI  389 (775)
T ss_pred             hcCChHHHHHHHHHHHHHHHhh-------cCCCCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccHHHH
Confidence            4778888888888765543221       22223469999999999999999999999999999998877654443

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=98.66  E-value=3.7e-08  Score=98.51  Aligned_cols=68  Identities=26%  Similarity=0.278  Sum_probs=53.7

Q ss_pred             cccChhhhHHHHHHHHHHhhcHHHHHHhCCcccce-eEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCccccc
Q 045456          212 IAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRG-YLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELR  287 (288)
Q Consensus       212 l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg-~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~  287 (288)
                      -.|.+++|++|.+-+.-....    .    ..+.. ++|+||||+||||+++.||+.+|..|+.++++.+.+-+++|
T Consensus       325 HYGLekVKeRIlEyLAV~~l~----~----~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIR  393 (782)
T COG0466         325 HYGLEKVKERILEYLAVQKLT----K----KLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIR  393 (782)
T ss_pred             ccCchhHHHHHHHHHHHHHHh----c----cCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhc
Confidence            356788999998865532221    1    11212 66899999999999999999999999999999999999886

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.64  E-value=4.2e-08  Score=98.09  Aligned_cols=56  Identities=25%  Similarity=0.442  Sum_probs=47.1

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      ..++|.+|++++|++++++.+...+..           | ..+..|||+||+|||||++|+++|+.++
T Consensus         8 ~k~rP~~f~~viGq~~v~~~L~~~i~~-----------~-~~~hayLf~Gp~GtGKTt~Ak~lAkal~   63 (559)
T PRK05563          8 RKWRPQTFEDVVGQEHITKTLKNAIKQ-----------G-KISHAYLFSGPRGTGKTSAAKIFAKAVN   63 (559)
T ss_pred             HHhCCCcHHhccCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            467899999999999988887776552           1 2356799999999999999999999986

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.64  E-value=3.8e-08  Score=98.76  Aligned_cols=57  Identities=23%  Similarity=0.381  Sum_probs=48.1

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+++|.+|++|+|++++++.|...+..           | ..+..||||||||||||++|+++|+.+++
T Consensus         8 ~k~RP~~f~~iiGq~~v~~~L~~~i~~-----------~-~~~hayLf~Gp~G~GKtt~A~~lak~l~c   64 (576)
T PRK14965          8 RKYRPQTFSDLTGQEHVSRTLQNAIDT-----------G-RVAHAFLFTGARGVGKTSTARILAKALNC   64 (576)
T ss_pred             HHhCCCCHHHccCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHhhcC
Confidence            467899999999999998888776552           2 24668999999999999999999999864

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.63  E-value=4.6e-08  Score=95.39  Aligned_cols=57  Identities=26%  Similarity=0.312  Sum_probs=47.1

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      +.++|.+|++|+|++.+++.+...+..           | ..+..+|||||||+|||++|+++|+.+..
T Consensus         9 ~kyRP~~~~diiGq~~~v~~L~~~i~~-----------~-~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c   65 (451)
T PRK06305          9 RKYRPQTFSEILGQDAVVAVLKNALRF-----------N-RAAHAYLFSGIRGTGKTTLARIFAKALNC   65 (451)
T ss_pred             HHhCCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCceEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence            467899999999999988877765542           2 24567999999999999999999998854

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.62  E-value=4.2e-08  Score=101.68  Aligned_cols=57  Identities=30%  Similarity=0.441  Sum_probs=47.9

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+++|.+|++|+|++.+++.|...+..           | .....|||+||+|||||++|+++|+.|++
T Consensus         7 ~KyRP~~f~eiiGqe~v~~~L~~~i~~-----------~-ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C   63 (824)
T PRK07764          7 RRYRPATFAEVIGQEHVTEPLSTALDS-----------G-RINHAYLFSGPRGCGKTSSARILARSLNC   63 (824)
T ss_pred             HHhCCCCHHHhcCcHHHHHHHHHHHHh-----------C-CCCceEEEECCCCCCHHHHHHHHHHHhCc
Confidence            578999999999999988887776542           2 23457999999999999999999999964

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.61  E-value=5.5e-08  Score=92.20  Aligned_cols=57  Identities=19%  Similarity=0.405  Sum_probs=47.7

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..++|.+|++++|++..++.+.+.+..           | ..+.++|||||||+|||++|+++|+.+..
T Consensus         9 ~k~rP~~~~~iig~~~~~~~l~~~i~~-----------~-~~~~~~L~~G~~G~GKt~~a~~la~~l~~   65 (367)
T PRK14970          9 RKYRPQTFDDVVGQSHITNTLLNAIEN-----------N-HLAQALLFCGPRGVGKTTCARILARKINQ   65 (367)
T ss_pred             HHHCCCcHHhcCCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            578999999999999988877776542           2 34568999999999999999999998854

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.60  E-value=5.9e-08  Score=98.67  Aligned_cols=57  Identities=32%  Similarity=0.436  Sum_probs=48.7

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..++|.+|++|+|++.+++.+...+..           | ..+..|||+||||||||++|+++|+.+.+
T Consensus        10 ~KyRP~~f~dIiGQe~~v~~L~~aI~~-----------~-rl~HAYLF~GP~GtGKTt~AriLAk~LnC   66 (725)
T PRK07133         10 RKYRPKTFDDIVGQDHIVQTLKNIIKS-----------N-KISHAYLFSGPRGTGKTSVAKIFANALNC   66 (725)
T ss_pred             HHhCCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCcHHHHHHHHHHHhcc
Confidence            578999999999999998888776652           1 24668999999999999999999999865

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.59  E-value=6.5e-08  Score=96.64  Aligned_cols=57  Identities=21%  Similarity=0.370  Sum_probs=47.8

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..++|.+|++|+|++.+++.+...+..           | ..+..||||||||+|||++|+++|+.+++
T Consensus         8 ~kyRP~~f~diiGqe~iv~~L~~~i~~-----------~-~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c   64 (563)
T PRK06647          8 TKRRPRDFNSLEGQDFVVETLKHSIES-----------N-KIANAYIFSGPRGVGKTSSARAFARCLNC   64 (563)
T ss_pred             HHhCCCCHHHccCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHhhcc
Confidence            467899999999999998887776652           2 23567999999999999999999999875

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.59  E-value=7.1e-08  Score=96.72  Aligned_cols=58  Identities=24%  Similarity=0.331  Sum_probs=48.1

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..+++|.+|++|+|++.+++.|...+..           | .....|||+||||||||++|+++|+.+.+
T Consensus         7 a~KyRP~sf~dIiGQe~v~~~L~~ai~~-----------~-ri~ha~Lf~GPpG~GKTtiArilAk~L~C   64 (624)
T PRK14959          7 TARYRPQTFAEVAGQETVKAILSRAAQE-----------N-RVAPAYLFSGTRGVGKTTIARIFAKALNC   64 (624)
T ss_pred             HHHhCCCCHHHhcCCHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHHHHHHhccc
Confidence            3578999999999999888877765542           2 22458999999999999999999999976

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=98.59  E-value=7.8e-08  Score=92.69  Aligned_cols=75  Identities=21%  Similarity=0.221  Sum_probs=55.4

Q ss_pred             Cccc-cccChhhhHHHHHHHHHHhhcHHHHHH--hCCc-ccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          208 TFDK-IAMDPSMKQASIDDLDRFVKRRNFYRR--VGKV-WKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       208 ~~~~-l~~~~~~k~~i~~~l~~~~~~~~~~~~--~g~~-~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      .+++ |+|++++|+.+...+....++-..-..  -+.+ .+.++||+||||||||++|+++|+.++.|++.++.+.+..
T Consensus        68 ~L~~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~~~l~~  146 (412)
T PRK05342         68 HLDQYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTE  146 (412)
T ss_pred             HHhhHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecchhhccc
Confidence            4554 799999999987777554433211000  0122 3567999999999999999999999999999999987654

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.58  E-value=8.1e-08  Score=94.47  Aligned_cols=57  Identities=19%  Similarity=0.329  Sum_probs=47.5

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..++|.+|++++|++.+.+.+...+..           | ..+..||||||||||||++|+++|+.+++
T Consensus         8 ~kyRP~~f~diiGq~~i~~~L~~~i~~-----------~-~i~hayLf~Gp~G~GKTtlAr~lAk~L~c   64 (486)
T PRK14953          8 RKYRPKFFKEVIGQEIVVRILKNAVKL-----------Q-RVSHAYIFAGPRGTGKTTIARILAKVLNC   64 (486)
T ss_pred             HhhCCCcHHHccChHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            467899999999999998887776642           1 24567999999999999999999999864

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.58  E-value=8.9e-08  Score=89.83  Aligned_cols=56  Identities=29%  Similarity=0.471  Sum_probs=47.2

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.++|.+|++++|++++++.+.+.+..           | ..+..+||+||||+|||++|+++|+.+.
T Consensus         6 ~~~rp~~~~~iig~~~~~~~l~~~~~~-----------~-~~~~~~Ll~G~~G~GKt~~a~~la~~l~   61 (355)
T TIGR02397         6 RKYRPQTFEDVIGQEHIVQTLKNAIKN-----------G-RIAHAYLFSGPRGTGKTSIARIFAKALN   61 (355)
T ss_pred             HHhCCCcHhhccCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            567899999999999999888776642           2 2356799999999999999999999975

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=98.58  E-value=7.2e-08  Score=92.39  Aligned_cols=72  Identities=19%  Similarity=0.218  Sum_probs=53.7

Q ss_pred             ccccChhhhHHHHHHHHHHhhcHHHHHHhCCc-ccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          211 KIAMDPSMKQASIDDLDRFVKRRNFYRRVGKV-WKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       211 ~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~-~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      .|+|+++.|+.+..++.....+...-.....+ .++++||+||||||||++|+++|+.++.|++.++.+.+..
T Consensus        16 ~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~f~e   88 (443)
T PRK05201         16 YIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTE   88 (443)
T ss_pred             ccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchhhcc
Confidence            37899999999988775433222111111111 2578999999999999999999999999999999887664

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.57  E-value=8.4e-08  Score=96.48  Aligned_cols=57  Identities=23%  Similarity=0.335  Sum_probs=47.0

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..++|.+|++|+|++++++.|...+..           | .....+||+||||||||++|+++|+.+++
T Consensus         8 ~kyRP~~~~eiiGq~~~~~~L~~~i~~-----------~-~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c   64 (585)
T PRK14950          8 RKWRSQTFAELVGQEHVVQTLRNAIAE-----------G-RVAHAYLFTGPRGVGKTSTARILAKAVNC   64 (585)
T ss_pred             HHhCCCCHHHhcCCHHHHHHHHHHHHh-----------C-CCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            578999999999999998887665542           1 23456899999999999999999998853

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.57  E-value=8.5e-08  Score=96.36  Aligned_cols=58  Identities=22%  Similarity=0.429  Sum_probs=48.9

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      .+++|.+|++|+|++..++.|...+..           | ..+..+||+||+|+|||++|+++|+.+++.
T Consensus        16 ~KyRP~~f~dliGq~~~v~~L~~~~~~-----------g-ri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~   73 (598)
T PRK09111         16 RKYRPQTFDDLIGQEAMVRTLTNAFET-----------G-RIAQAFMLTGVRGVGKTTTARILARALNYE   73 (598)
T ss_pred             hhhCCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHHHHHHhhCcC
Confidence            578999999999999988887775542           2 235689999999999999999999998764

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.56  E-value=9.4e-08  Score=94.61  Aligned_cols=56  Identities=27%  Similarity=0.315  Sum_probs=47.3

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .+++|.+|++++|++.+++.+...+..           | ..+..||||||||+|||++|+++|+.+.
T Consensus         6 ~KyRP~~fdeiiGqe~v~~~L~~~I~~-----------g-rl~hayLf~Gp~G~GKTt~Ar~LAk~L~   61 (535)
T PRK08451          6 LKYRPKHFDELIGQESVSKTLSLALDN-----------N-RLAHAYLFSGLRGSGKTSSARIFARALV   61 (535)
T ss_pred             HHHCCCCHHHccCcHHHHHHHHHHHHc-----------C-CCCeeEEEECCCCCcHHHHHHHHHHHhc
Confidence            478999999999999998888776542           2 2466799999999999999999999974

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.54  E-value=1.3e-07  Score=87.23  Aligned_cols=68  Identities=25%  Similarity=0.397  Sum_probs=51.5

Q ss_pred             CCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC-----C
Q 045456          196 GAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK-----F  270 (288)
Q Consensus       196 ~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~-----~  270 (288)
                      -.|  ++.++|.+|+++++.+++++.+...+..           +.  ...++|+||||||||++++++++++.     .
T Consensus         5 ~~w--~~kyrP~~~~~~~g~~~~~~~l~~~i~~-----------~~--~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~   69 (319)
T PRK00440          5 EIW--VEKYRPRTLDEIVGQEEIVERLKSYVKE-----------KN--MPHLLFAGPPGTGKTTAALALARELYGEDWRE   69 (319)
T ss_pred             Ccc--chhhCCCcHHHhcCcHHHHHHHHHHHhC-----------CC--CCeEEEECCCCCCHHHHHHHHHHHHcCCcccc
Confidence            358  4799999999999999888777665431           11  12589999999999999999999973     3


Q ss_pred             cEEEEecC
Q 045456          271 NIYDMELT  278 (288)
Q Consensus       271 ~i~~l~~~  278 (288)
                      +++.++.+
T Consensus        70 ~~i~~~~~   77 (319)
T PRK00440         70 NFLELNAS   77 (319)
T ss_pred             ceEEeccc
Confidence            45555444

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.53  E-value=6e-08  Score=87.25  Aligned_cols=73  Identities=19%  Similarity=0.347  Sum_probs=52.5

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      +..++.+|+++....+..+.+...+..+....   .    ....+++|+||||||||+|+.|||+++   |..++.++.+
T Consensus        64 ~~~~~~tFdnf~~~~~~q~~al~~a~~~~~~~---~----~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~  136 (244)
T PRK07952         64 PLHQNCSFENYRVECEGQMNALSKARQYVEEF---D----GNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVA  136 (244)
T ss_pred             ccccCCccccccCCCchHHHHHHHHHHHHHhh---c----cCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHH
Confidence            35567799999766555444555555555321   1    113489999999999999999999998   7788888776


Q ss_pred             CCC
Q 045456          279 SVY  281 (288)
Q Consensus       279 ~~~  281 (288)
                      ++.
T Consensus       137 ~l~  139 (244)
T PRK07952        137 DIM  139 (244)
T ss_pred             HHH
Confidence            654

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=98.51  E-value=2.2e-07  Score=87.37  Aligned_cols=68  Identities=29%  Similarity=0.442  Sum_probs=49.6

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC--CcEEEEecCCCCCc
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK--FNIYDMELTSVYCN  283 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~--~~i~~l~~~~~~~~  283 (288)
                      .-+-++|+.++++..--.++. ++.       |+-..|++||.||||||||.+|.+||++||  .||..++++++.+.
T Consensus        22 ~~~GlVGQ~~AReAagiiv~m-Ik~-------~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF~~isgSEiyS~   91 (398)
T PF06068_consen   22 IADGLVGQEKAREAAGIIVDM-IKE-------GKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPFVSISGSEIYSS   91 (398)
T ss_dssp             EETTEES-HHHHHHHHHHHHH-HHT-------T--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-EEEEEGGGG-BT
T ss_pred             ccccccChHHHHHHHHHHHHH-Hhc-------ccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCeeEcccceeeec
Confidence            457889999988876544442 222       444578999999999999999999999997  89999999998765

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=98.48  E-value=2.2e-07  Score=86.55  Aligned_cols=69  Identities=28%  Similarity=0.428  Sum_probs=53.1

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC--CcEEEEecCCCCCcc
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK--FNIYDMELTSVYCNS  284 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~--~~i~~l~~~~~~~~~  284 (288)
                      .=+-++|+.+.++..--.++ .++.       |.-..||+|+.||||||||.+|-+||++||  .||..++++++.+..
T Consensus        37 ~~dG~VGQ~~AReAaGvIv~-mik~-------gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvPF~~isgsEiYS~E  107 (450)
T COG1224          37 IGDGLVGQEEAREAAGVIVK-MIKQ-------GKMAGRGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEIYSLE  107 (450)
T ss_pred             cCCcccchHHHHHhhhHHHH-HHHh-------CcccccEEEEECCCCCcHHHHHHHHHHHhCCCCCceeeccceeeeec
Confidence            44667888888776322222 1211       555678999999999999999999999997  799999999987753

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.48  E-value=2e-07  Score=94.12  Aligned_cols=56  Identities=20%  Similarity=0.411  Sum_probs=47.8

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      ..++|.+|++|+|++++++.|...+..           | ..+..||||||+|+|||++|+++|+.+.
T Consensus         9 ~kyRP~~f~~viGq~~~~~~L~~~i~~-----------~-~l~hayLf~Gp~G~GKtt~A~~lAk~l~   64 (614)
T PRK14971          9 RKYRPSTFESVVGQEALTTTLKNAIAT-----------N-KLAHAYLFCGPRGVGKTTCARIFAKTIN   64 (614)
T ss_pred             HHHCCCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCeeEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999998888776652           2 2466799999999999999999999885

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.48  E-value=2.1e-07  Score=93.99  Aligned_cols=57  Identities=26%  Similarity=0.384  Sum_probs=47.8

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..++|.+|++++|++++++.|...+..           | ....++||+||||||||++|+++|+.+++
T Consensus         8 ~kyRP~~f~~liGq~~i~~~L~~~l~~-----------~-rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c   64 (620)
T PRK14948          8 HKYRPQRFDELVGQEAIATTLKNALIS-----------N-RIAPAYLFTGPRGTGKTSSARILAKSLNC   64 (620)
T ss_pred             HHhCCCcHhhccChHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCChHHHHHHHHHHhcC
Confidence            478899999999999988887776552           1 12457999999999999999999999976

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=98.45  E-value=4.6e-07  Score=82.23  Aligned_cols=39  Identities=23%  Similarity=0.210  Sum_probs=34.4

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      .+.+||.||||||||++|+++|+.+|.+++.++++.-..
T Consensus        21 g~~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~~~~~   59 (262)
T TIGR02640        21 GYPVHLRGPAGTGKTTLAMHVARKRDRPVMLINGDAELT   59 (262)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCCccCC
Confidence            356999999999999999999999999999998876433

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=98.44  E-value=3.5e-07  Score=91.50  Aligned_cols=70  Identities=19%  Similarity=0.271  Sum_probs=53.2

Q ss_pred             ccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCccccc
Q 045456          211 KIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSELR  287 (288)
Q Consensus       211 ~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l~  287 (288)
                      |-.|.+++|++|.+.+.--.    +   .|-.-.+-+.|+||||.||||+++.||..||..|+.++.+.+.+..|+|
T Consensus       412 DHYgm~dVKeRILEfiAV~k----L---rgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tDvAeIk  481 (906)
T KOG2004|consen  412 DHYGMEDVKERILEFIAVGK----L---RGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIK  481 (906)
T ss_pred             cccchHHHHHHHHHHHHHHh----h---cccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceEEEeccccccHHhhc
Confidence            44567788998888554211    1   0211122366899999999999999999999999999999999998876

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=98.42  E-value=4.2e-07  Score=84.73  Aligned_cols=44  Identities=30%  Similarity=0.416  Sum_probs=39.8

Q ss_pred             ccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCcccc
Q 045456          243 WKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSEL  286 (288)
Q Consensus       243 ~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l  286 (288)
                      ..+.+||.||||||||++++.+|..+++|++.++++...+..||
T Consensus        63 ~~~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~Dl  106 (327)
T TIGR01650        63 YDRRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDL  106 (327)
T ss_pred             cCCcEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhc
Confidence            35689999999999999999999999999999999888777654

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=98.41  E-value=4.1e-07  Score=87.58  Aligned_cols=74  Identities=26%  Similarity=0.336  Sum_probs=52.5

Q ss_pred             Cccc-cccChhhhHHHHHHHHHHhhcHHHHHH----hCCcc-cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          208 TFDK-IAMDPSMKQASIDDLDRFVKRRNFYRR----VGKVW-KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       208 ~~~~-l~~~~~~k~~i~~~l~~~~~~~~~~~~----~g~~~-~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                      .++. ++|+++.++.+...+....++-.....    -+++. +..+||+||||||||++|+++|..++.|+..++.+.+.
T Consensus        74 ~L~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~da~~L~  153 (413)
T TIGR00382        74 HLDEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTLT  153 (413)
T ss_pred             HhcceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCCeEEechhhcc
Confidence            3444 488899999888777544433111000    01111 35699999999999999999999999999999987764

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.39  E-value=3e-07  Score=88.15  Aligned_cols=61  Identities=20%  Similarity=0.270  Sum_probs=49.0

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      .|++|+|++++++.+...+.....   .+...+...+.++||+||||+|||++|+++|+.+.++
T Consensus         3 ~f~~IiGq~~~~~~L~~~i~~~~~---~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~   63 (394)
T PRK07940          3 VWDDLVGQEAVVAELRAAARAARA---DVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCT   63 (394)
T ss_pred             hhhhccChHHHHHHHHHHHHhccc---cccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            589999999999999888875432   2333455567889999999999999999999987654

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=98.38  E-value=3.4e-07  Score=93.89  Aligned_cols=67  Identities=22%  Similarity=0.405  Sum_probs=50.1

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELT  278 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  278 (288)
                      ...+|.+|++++|+++..... ..+...+..       +.  ...++||||||||||++|+++|+.++.+++.++..
T Consensus        20 ek~RP~tldd~vGQe~ii~~~-~~L~~~i~~-------~~--~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~   86 (725)
T PRK13341         20 DRLRPRTLEEFVGQDHILGEG-RLLRRAIKA-------DR--VGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAV   86 (725)
T ss_pred             HhcCCCcHHHhcCcHHHhhhh-HHHHHHHhc-------CC--CceEEEECCCCCCHHHHHHHHHHHhcCcceeehhh
Confidence            477899999999998776431 112222221       11  23689999999999999999999999999888865

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.35  E-value=7e-07  Score=82.95  Aligned_cols=70  Identities=27%  Similarity=0.385  Sum_probs=49.5

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCC
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSV  280 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  280 (288)
                      ..+|+++...+..+..+.+....|+..   +.. | +..+|++|+||||||||.|+.|||+++   |..+..+..+++
T Consensus       123 ~atf~~~~~~~~~~~~~~~~~~~fi~~---~~~-~-~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~l  195 (306)
T PRK08939        123 QASLADIDLDDRDRLDALMAALDFLEA---YPP-G-EKVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEF  195 (306)
T ss_pred             cCcHHHhcCCChHHHHHHHHHHHHHHH---hhc-c-CCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHHH
Confidence            357888876664455555555555543   111 1 245799999999999999999999998   788887776543

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.34  E-value=1.2e-06  Score=77.44  Aligned_cols=69  Identities=25%  Similarity=0.375  Sum_probs=47.0

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      ....|.+||++.+..+  +.+...+..+..        +....+.++|+||||||||++++++++++   +.+++.+++.
T Consensus        10 ~~~~~~~~d~f~~~~~--~~~~~~l~~~~~--------~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~   79 (227)
T PRK08903         10 GPPPPPTFDNFVAGEN--AELVARLRELAA--------GPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAA   79 (227)
T ss_pred             CCCChhhhcccccCCc--HHHHHHHHHHHh--------ccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehH
Confidence            4456778999874332  223333333322        23345689999999999999999999976   6677777776


Q ss_pred             CC
Q 045456          279 SV  280 (288)
Q Consensus       279 ~~  280 (288)
                      +.
T Consensus        80 ~~   81 (227)
T PRK08903         80 SP   81 (227)
T ss_pred             Hh
Confidence            54

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=98.34  E-value=9.9e-07  Score=91.38  Aligned_cols=69  Identities=25%  Similarity=0.221  Sum_probs=54.1

Q ss_pred             ccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCcccc
Q 045456          211 KIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSEL  286 (288)
Q Consensus       211 ~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l  286 (288)
                      +..|.+++|++|.+.+......       +......++|+||||||||++++++|+.++.+++.++++.+.+..++
T Consensus       323 ~~~g~~~vK~~i~~~l~~~~~~-------~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~~~d~~~i  391 (784)
T PRK10787        323 DHYGLERVKDRILEYLAVQSRV-------NKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEI  391 (784)
T ss_pred             hccCHHHHHHHHHHHHHHHHhc-------ccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCCCCCHHHh
Confidence            3778889999998866643321       11223358899999999999999999999999999999988776555

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=98.34  E-value=2.7e-07  Score=81.74  Aligned_cols=71  Identities=20%  Similarity=0.348  Sum_probs=53.8

Q ss_pred             CCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-C----Cc
Q 045456          197 AWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-K----FN  271 (288)
Q Consensus       197 ~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-~----~~  271 (288)
                      .|  |++++|..++|++|.++..+.+.-..+           -|-.  ..+++.||||||||+.+.++|.+| |    --
T Consensus        16 ~w--VeKYrP~~l~dIVGNe~tv~rl~via~-----------~gnm--P~liisGpPG~GKTTsi~~LAr~LLG~~~ke~   80 (333)
T KOG0991|consen   16 PW--VEKYRPSVLQDIVGNEDTVERLSVIAK-----------EGNM--PNLIISGPPGTGKTTSILCLARELLGDSYKEA   80 (333)
T ss_pred             hH--HHhhCchHHHHhhCCHHHHHHHHHHHH-----------cCCC--CceEeeCCCCCchhhHHHHHHHHHhChhhhhH
Confidence            37  789999999999999988776644222           2332  269999999999999999999987 3    24


Q ss_pred             EEEEecCCCCC
Q 045456          272 IYDMELTSVYC  282 (288)
Q Consensus       272 i~~l~~~~~~~  282 (288)
                      +..+++++-+.
T Consensus        81 vLELNASdeRG   91 (333)
T KOG0991|consen   81 VLELNASDERG   91 (333)
T ss_pred             hhhccCccccc
Confidence            66777766544

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=98.33  E-value=6.1e-07  Score=83.97  Aligned_cols=70  Identities=23%  Similarity=0.344  Sum_probs=48.4

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCc---EEEEecC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFN---IYDMELT  278 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~---i~~l~~~  278 (288)
                      +..+|.+++|.+|++++-.+ .-.+...+.      +-.+   ..++|+||||||||++|+.||+..+.+   |+.++++
T Consensus       130 ermRPktL~dyvGQ~hlv~q-~gllrs~ie------q~~i---pSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt  199 (554)
T KOG2028|consen  130 ERMRPKTLDDYVGQSHLVGQ-DGLLRSLIE------QNRI---PSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSAT  199 (554)
T ss_pred             hhcCcchHHHhcchhhhcCc-chHHHHHHH------cCCC---CceEEecCCCCchHHHHHHHHhhcCCCceEEEEEecc
Confidence            45678899999998876443 222222222      1122   369999999999999999999998777   6666665


Q ss_pred             CCC
Q 045456          279 SVY  281 (288)
Q Consensus       279 ~~~  281 (288)
                      .-.
T Consensus       200 ~a~  202 (554)
T KOG2028|consen  200 NAK  202 (554)
T ss_pred             ccc
Confidence            433

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.32  E-value=4.3e-07  Score=91.69  Aligned_cols=69  Identities=25%  Similarity=0.346  Sum_probs=54.4

Q ss_pred             CCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEE
Q 045456          196 GAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYD  274 (288)
Q Consensus       196 ~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  274 (288)
                      ..|  +++++|.++++|+++++..+++...+....        .+....+-++|+||||||||++++++|++++.+++.
T Consensus        72 ~pW--~eKyrP~~ldel~~~~~ki~~l~~~l~~~~--------~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~E  140 (637)
T TIGR00602        72 EPW--VEKYKPETQHELAVHKKKIEEVETWLKAQV--------LENAPKRILLITGPSGCGKSTTIKILSKELGIQVQE  140 (637)
T ss_pred             Cch--HHHhCCCCHHHhcCcHHHHHHHHHHHHhcc--------cccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHH
Confidence            468  579999999999999988887776655322        122334458999999999999999999999987655

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PF08740 BCS1_N: BCS1 N terminal; InterPro: IPR014851 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=98.31  E-value=4.1e-05  Score=65.73  Aligned_cols=136  Identities=17%  Similarity=0.187  Sum_probs=94.3

Q ss_pred             eEEEEecCCCCCcChHHHHHHHHhhhccC-CCcCceEEeecC----------------------CCCceEEecCCCCeEE
Q 045456           59 MTLIIDEYNGFSINQLYEASELYLSTKIT-ASLEKLKVSKTT----------------------KEKNLSVTINKGEKIS  115 (288)
Q Consensus        59 ~ti~i~e~~~~~~N~ly~a~~~YL~~~~~-~~~~rL~~~~~~----------------------~~~~~~l~~~~ge~v~  115 (288)
                      .|+.|++     .+++|+.+-.+|+.... ..++++.+....                      +.+.+.+.|..| ...
T Consensus        27 ~sv~I~~-----~D~~Y~~lm~Wls~q~~~~~~r~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~G-~h~  100 (187)
T PF08740_consen   27 SSVEIPS-----DDEAYDWLMRWLSSQPFSKRSRHLSATTRSNSSWDDDESDDEDSWDTNTSDDKKKPIRFTPSPG-THW  100 (187)
T ss_pred             EEEEECC-----CCHHHHHHHHHHhhCCcccccceeEEEeecccccccccccccchhccccccCCcCCeEEEeCCC-CEE
Confidence            5667765     45899999999988754 445666665522                      356789999999 566


Q ss_pred             eccCCeeEEEEEeeecccccccc--CCCcceEEEEEeccchhhHHHHhhhhHHHHHHHHHHhccceeEEEEecCCCCCCC
Q 045456          116 DIFEGICLVWEMTCKETEERSSQ--RGKAERVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVVKLYAVGHFGGDSD  193 (288)
Q Consensus       116 D~F~Gv~~~W~~~~~~~~~~~~~--~~~~~r~~eL~f~~~~r~~vl~syl~~Il~~~~~i~~~~~~~kl~~~~~~~~~~~  193 (288)
                      ..|+|   .|..+.++.++...+  .+.+.+.++|+|..+.++ +|..+|.++.+.+.  +++...+.||...+.     
T Consensus       101 F~y~G---~~~~~~R~~~~~~~~~~~~~~~e~l~l~~lg~s~~-~l~~ll~ear~~~~--~~~~~~t~Iy~~~~~-----  169 (187)
T PF08740_consen  101 FWYKG---RWFWFSRQRESNSYNSWTGAPDETLTLSCLGRSPK-PLKDLLEEAREYYL--KKQKGKTTIYRADGS-----  169 (187)
T ss_pred             EEECC---EEEEEEEEeccccccccCCCCceEEEEEEecCCHH-HHHHHHHHHHHHHH--HhcCCcEEEEeCCCC-----
Confidence            77999   688888776443332  134588999999999877 66665555554442  233334559998542     


Q ss_pred             CCCCCCccCCCCCCCcccc
Q 045456          194 RGGAWGSTNLDHPATFDKI  212 (288)
Q Consensus       194 ~~~~w~~~~~~~p~~~~~l  212 (288)
                       +..|..+...+++.+++|
T Consensus       170 -~~~W~~~~~r~~RplsTV  187 (187)
T PF08740_consen  170 -EYRWRRVASRPKRPLSTV  187 (187)
T ss_pred             -CCCCcCCCCcCCCCCCCC
Confidence             226999888888898875

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) []. This domain is found at the N terminus of the mitochondrial BSC1 subfamily, belonging to the AAA ATPase family. At2g21640 and BCS1 are both highly stress responsive genes which encode mitochondrial proteins. The promoter of BCS1 was not responsive to H2O2 or rotenone, but highly responsive to salicylic acid (SA). The SA dependent pathway represented by BCS1 is one of at least three distinctive pathways to regulate mitochondrial stress response at a transcriptional level []. The BCS1 product is a mitochondrial protein required for the assembly of respiratory complex III []. BCS1, a component of the inner membrane of mitochondria, belongs to the group of proteins with internal, noncleavable import signals. It has a transmembrane domain (amino acid residues 51 to 68), a presequence type helix (residues 69 to 83), and an import auxiliary region (residues 84 to 126) [].

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.30  E-value=1.3e-06  Score=76.68  Aligned_cols=68  Identities=22%  Similarity=0.256  Sum_probs=46.5

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      ...+.+|++++..  ..+.+.+.+..+..         ...++.++|+||||||||++|+++++++   +.+++.+++++
T Consensus         8 ~~~~~~~~~~~~~--~~~~~~~~l~~~~~---------~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~   76 (226)
T TIGR03420         8 LPDDPTFDNFYAG--GNAELLAALRQLAA---------GKGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAE   76 (226)
T ss_pred             CCCchhhcCcCcC--CcHHHHHHHHHHHh---------cCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHH
Confidence            3445688888732  23334444444332         1235679999999999999999999887   46788888766


Q ss_pred             CC
Q 045456          280 VY  281 (288)
Q Consensus       280 ~~  281 (288)
                      +.
T Consensus        77 ~~   78 (226)
T TIGR03420        77 LA   78 (226)
T ss_pred             HH
Confidence            54

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.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=98.28  E-value=1.1e-06  Score=87.48  Aligned_cols=65  Identities=22%  Similarity=0.346  Sum_probs=51.2

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----------CCc
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----------KFN  271 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----------~~~  271 (288)
                      ++.+|.+|++++|.++..+.+...+.            + +.+..+||+||||||||++|+++++++          +.+
T Consensus        57 ~~~rp~~f~~iiGqs~~i~~l~~al~------------~-~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~  123 (531)
T TIGR02902        57 EKTRPKSFDEIIGQEEGIKALKAALC------------G-PNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAA  123 (531)
T ss_pred             HhhCcCCHHHeeCcHHHHHHHHHHHh------------C-CCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCC
Confidence            57899999999999988777764321            1 124579999999999999999998753          368


Q ss_pred             EEEEecCC
Q 045456          272 IYDMELTS  279 (288)
Q Consensus       272 i~~l~~~~  279 (288)
                      ++.++++.
T Consensus       124 fi~id~~~  131 (531)
T TIGR02902       124 FVEIDATT  131 (531)
T ss_pred             EEEEcccc
Confidence            89998764

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.26  E-value=1.3e-06  Score=85.36  Aligned_cols=75  Identities=23%  Similarity=0.377  Sum_probs=57.8

Q ss_pred             CCCCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEE
Q 045456          194 RGGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIY  273 (288)
Q Consensus       194 ~~~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~  273 (288)
                      +...|  ++...|++.++|+.......++.+++..+..   ...   ....+-+||.||+|||||++++.||+++|+.+.
T Consensus        68 ~~elW--~eKy~P~t~eeLAVHkkKI~eVk~WL~~~~~---~~~---~l~~~iLLltGPsGcGKSTtvkvLskelg~~~~  139 (634)
T KOG1970|consen   68 EFELW--VEKYKPRTLEELAVHKKKISEVKQWLKQVAE---FTP---KLGSRILLLTGPSGCGKSTTVKVLSKELGYQLI  139 (634)
T ss_pred             ccchh--HHhcCcccHHHHhhhHHhHHHHHHHHHHHHH---hcc---CCCceEEEEeCCCCCCchhHHHHHHHhhCceee
Confidence            34578  6799999999999988888888777762221   111   112345889999999999999999999999998


Q ss_pred             EEe
Q 045456          274 DME  276 (288)
Q Consensus       274 ~l~  276 (288)
                      ...
T Consensus       140 Ew~  142 (634)
T KOG1970|consen  140 EWS  142 (634)
T ss_pred             eec
Confidence            876

>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=98.25  E-value=2.3e-06  Score=68.18  Aligned_cols=40  Identities=35%  Similarity=0.600  Sum_probs=35.4

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCCc
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYCN  283 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~  283 (288)
                      .+.++++||||||||++++.+++.+   +.+++.++..+....
T Consensus        19 ~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~   61 (151)
T cd00009          19 PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEG   61 (151)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhh
Confidence            4679999999999999999999999   999999998776544

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.

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=98.25  E-value=1.9e-06  Score=76.62  Aligned_cols=81  Identities=22%  Similarity=0.338  Sum_probs=67.7

Q ss_pred             CCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcE
Q 045456          196 GAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNI  272 (288)
Q Consensus       196 ~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i  272 (288)
                      +...++...+|..+.+|+|.+.+|+.+.+..+.|+.        |. +...+||+|--||||||+++|+-+++   |..+
T Consensus        46 ~~L~pv~~~~~i~L~~l~Gvd~qk~~L~~NT~~F~~--------G~-pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrL  116 (287)
T COG2607          46 GYLEPVPDPDPIDLADLVGVDRQKEALVRNTEQFAE--------GL-PANNVLLWGARGTGKSSLVKALLNEYADEGLRL  116 (287)
T ss_pred             CcccCCCCCCCcCHHHHhCchHHHHHHHHHHHHHHc--------CC-cccceEEecCCCCChHHHHHHHHHHHHhcCCeE
Confidence            455667778889999999999999999999998886        44 35689999999999999999999887   5678


Q ss_pred             EEEecCCCCCccc
Q 045456          273 YDMELTSVYCNSE  285 (288)
Q Consensus       273 ~~l~~~~~~~~~~  285 (288)
                      +.|+-.++.+-++
T Consensus       117 VEV~k~dl~~Lp~  129 (287)
T COG2607         117 VEVDKEDLATLPD  129 (287)
T ss_pred             EEEcHHHHhhHHH
Confidence            8888777665443

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=98.24  E-value=2.1e-06  Score=85.10  Aligned_cols=67  Identities=19%  Similarity=0.282  Sum_probs=51.0

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-CCcEEEEecC
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-KFNIYDMELT  278 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-~~~i~~l~~~  278 (288)
                      +-.-|+|+.|.++.++.|.+.+......      ++ ..++-++|.||||+|||+|+++||+.+ .+|+|.+.++
T Consensus        71 ry~fF~d~yGlee~ieriv~~l~~Aa~g------l~-~~~~IL~LvGPpG~GKSsLa~~la~~le~~~~Y~~kg~  138 (644)
T PRK15455         71 RYPAFEEFYGMEEAIEQIVSYFRHAAQG------LE-EKKQILYLLGPVGGGKSSLAERLKSLMERVPIYVLKAN  138 (644)
T ss_pred             cccchhcccCcHHHHHHHHHHHHHHHHh------cC-CCCceEEEecCCCCCchHHHHHHHHHHHhCcceeecCC
Confidence            3347899999999999988766443322      11 223457799999999999999999988 4799988773

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=98.24  E-value=1.1e-06  Score=76.90  Aligned_cols=46  Identities=35%  Similarity=0.506  Sum_probs=36.0

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .|++|+|++..|+.+.-+..            |   ..++||+||||||||++|++++..|
T Consensus         1 Df~dI~GQe~aKrAL~iAAa------------G---~h~lLl~GppGtGKTmlA~~l~~lL   46 (206)
T PF01078_consen    1 DFSDIVGQEEAKRALEIAAA------------G---GHHLLLIGPPGTGKTMLARRLPSLL   46 (206)
T ss_dssp             -TCCSSSTHHHHHHHHHHHH------------C---C--EEEES-CCCTHHHHHHHHHHCS
T ss_pred             ChhhhcCcHHHHHHHHHHHc------------C---CCCeEEECCCCCCHHHHHHHHHHhC
Confidence            37899999999988765444            3   3589999999999999999999776

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>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=98.23  E-value=1.1e-06  Score=69.52  Aligned_cols=31  Identities=39%  Similarity=0.726  Sum_probs=28.5

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCcEEEEec
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFNIYDMEL  277 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  277 (288)
                      |++.||||+||||+|+.+|+.+|++++.++-
T Consensus         2 I~I~G~~gsGKST~a~~La~~~~~~~i~~d~   32 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERLGFPVISMDD   32 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTCEEEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEEEecc
Confidence            6789999999999999999999999887765

...

>PRK12377 putative replication protein; Provisional

Probab=98.21  E-value=3.1e-06  Score=76.38  Aligned_cols=68  Identities=19%  Similarity=0.311  Sum_probs=44.8

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCC
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVY  281 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~  281 (288)
                      .+|++.....+..+.+...+..+...-   ..    ...+++|+||||||||.||.|||+++   |..+..++.+++.
T Consensus        71 ~tFdnf~~~~~~~~~a~~~a~~~a~~~---~~----~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~l~  141 (248)
T PRK12377         71 CSFANYQVQNDGQRYALSQAKSIADEL---MT----GCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVM  141 (248)
T ss_pred             CCcCCcccCChhHHHHHHHHHHHHHHH---Hh----cCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHHHH
Confidence            477777654433333444444443321   11    13589999999999999999999998   5677777665543

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.20  E-value=2.2e-06  Score=86.70  Aligned_cols=65  Identities=20%  Similarity=0.370  Sum_probs=50.9

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----------CCcE
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----------KFNI  272 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i  272 (288)
                      ..+|.+|++++|.+...+.+.+.+.             .+.+..++|+||||||||++|+++++..          +.++
T Consensus       147 ~~rp~~~~~iiGqs~~~~~l~~~ia-------------~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~f  213 (615)
T TIGR02903       147 LLRPRAFSEIVGQERAIKALLAKVA-------------SPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPF  213 (615)
T ss_pred             hcCcCcHHhceeCcHHHHHHHHHHh-------------cCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCe
Confidence            4568999999999888776654332             1234579999999999999999998776          4578


Q ss_pred             EEEecCCC
Q 045456          273 YDMELTSV  280 (288)
Q Consensus       273 ~~l~~~~~  280 (288)
                      +.+++.++
T Consensus       214 v~i~~~~l  221 (615)
T TIGR02903       214 VEVDGTTL  221 (615)
T ss_pred             EEEechhc
Confidence            99988765

Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=98.19  E-value=2.7e-06  Score=87.76  Aligned_cols=63  Identities=14%  Similarity=0.242  Sum_probs=49.2

Q ss_pred             cccChhhhHHHHHHHHHHhhcHHHHHHhCCc----ccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          212 IAMDPSMKQASIDDLDRFVKRRNFYRRVGKV----WKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       212 l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~----~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      |+|+++.++.|.+.+.....        |..    +...+||+||||||||.+|+++|+.++.+++.++.++...
T Consensus       460 ViGQ~~ai~~l~~~i~~~~~--------gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~  526 (758)
T PRK11034        460 VFGQDKAIEALTEAIKMSRA--------GLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYME  526 (758)
T ss_pred             EeCcHHHHHHHHHHHHHHhc--------cccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcc
Confidence            67788888877777664322        221    1235899999999999999999999999999999887654

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=98.17  E-value=2e-06  Score=88.68  Aligned_cols=65  Identities=25%  Similarity=0.384  Sum_probs=52.0

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----------CCcEEE
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----------KFNIYD  274 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~  274 (288)
                      +|..+++++|.++..+.+.+.+..             .-+.+++|+||||||||++++++|..+          +..++.
T Consensus       177 r~~~l~~~igr~~ei~~~~~~L~~-------------~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~  243 (731)
T TIGR02639       177 KNGKIDPLIGREDELERTIQVLCR-------------RKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYS  243 (731)
T ss_pred             hcCCCCcccCcHHHHHHHHHHHhc-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEE
Confidence            677899999988777765554321             125689999999999999999999998          888999


Q ss_pred             EecCCCCC
Q 045456          275 MELTSVYC  282 (288)
Q Consensus       275 l~~~~~~~  282 (288)
                      ++++.+..
T Consensus       244 ~~~~~l~a  251 (731)
T TIGR02639       244 LDMGSLLA  251 (731)
T ss_pred             ecHHHHhh
Confidence            99877653

>PHA02244 ATPase-like protein

Probab=98.16  E-value=4.6e-06  Score=78.94  Aligned_cols=34  Identities=26%  Similarity=0.439  Sum_probs=31.2

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEec
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMEL  277 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  277 (288)
                      ...+||+||||||||++|++||..++.|++.++.
T Consensus       119 ~~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~  152 (383)
T PHA02244        119 NIPVFLKGGAGSGKNHIAEQIAEALDLDFYFMNA  152 (383)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhCCCEEEEec
Confidence            3469999999999999999999999999999873

>PRK08116 hypothetical protein; Validated

Probab=98.14  E-value=4.2e-06  Score=76.32  Aligned_cols=69  Identities=26%  Similarity=0.447  Sum_probs=45.7

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCC
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSV  280 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  280 (288)
                      .+|++....+.. +.+...+..+...   +.... ...+|++|+||||||||.||.|||+++   +.+++.++.+++
T Consensus        82 ~tFdnf~~~~~~-~~a~~~a~~y~~~---~~~~~-~~~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~l  153 (268)
T PRK08116         82 STFENFLFDKGS-EKAYKIARKYVKK---FEEMK-KENVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQL  153 (268)
T ss_pred             cchhcccCChHH-HHHHHHHHHHHHH---HHhhc-cCCceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHH
Confidence            477777644433 2233444444432   22211 224589999999999999999999986   788888887653

>PRK06893 DNA replication initiation factor; Validated

Probab=98.14  E-value=5.3e-06  Score=73.80  Aligned_cols=66  Identities=20%  Similarity=0.291  Sum_probs=41.5

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEec
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMEL  277 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  277 (288)
                      +....+.+||++++.++.  .....+...      .   .......++||||||||||.|+.|+|+++   +.....++.
T Consensus         7 ~~~~~~~~fd~f~~~~~~--~~~~~~~~~------~---~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~   75 (229)
T PRK06893          7 IHQIDDETLDNFYADNNL--LLLDSLRKN------F---IDLQQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPL   75 (229)
T ss_pred             CCCCCcccccccccCChH--HHHHHHHHH------h---hccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeH
Confidence            345567799999976642  122222211      1   11122357899999999999999999986   344455544

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.13  E-value=4.9e-06  Score=77.25  Aligned_cols=72  Identities=21%  Similarity=0.235  Sum_probs=56.8

Q ss_pred             ccccChhhhHHHHHHHHHHhhcHHHHHHhCC-cccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          211 KIAMDPSMKQASIDDLDRFVKRRNFYRRVGK-VWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       211 ~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~-~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      -++|+++.|+.+.-++..-..+..+-..+.- -.|+++|+.||.|.|||-+|+.+|+..|.||+.|+++..+.
T Consensus        16 yIIGQ~~AKkaVAIALRNR~RR~qL~~~lr~EV~PKNILMIGpTGVGKTEIARRLAkl~~aPFiKVEATKfTE   88 (444)
T COG1220          16 YIIGQDEAKKAVAIALRNRWRRMQLEEELRDEVTPKNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKFTE   88 (444)
T ss_pred             HhcCcHHHHHHHHHHHHHHHHHHhcCHHHhhccCccceEEECCCCCcHHHHHHHHHHHhCCCeEEEEeeeeee
Confidence            4689999999988777765554433333322 24789999999999999999999999999999999986654

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.13  E-value=3.8e-06  Score=79.90  Aligned_cols=54  Identities=28%  Similarity=0.457  Sum_probs=46.1

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .+|+++++|+|+++.++.+.+.+..           | ..+..+||+||+|+||+++|.++|+.+-
T Consensus        13 ~~P~~~~~iiGq~~~~~~L~~~~~~-----------~-rl~HA~Lf~Gp~G~GK~~lA~~~A~~Ll   66 (365)
T PRK07471         13 PHPRETTALFGHAAAEAALLDAYRS-----------G-RLHHAWLIGGPQGIGKATLAYRMARFLL   66 (365)
T ss_pred             CCCCchhhccChHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHHHHHHHHh
Confidence            5899999999999999888776553           2 3456899999999999999999999884

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=98.13  E-value=4.7e-06  Score=78.01  Aligned_cols=43  Identities=35%  Similarity=0.452  Sum_probs=38.2

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCcccc
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSEL  286 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l  286 (288)
                      .+.+||-||||||||++|+++|..++.+++.++++.-...+|+
T Consensus        43 ~~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~p~d~   85 (329)
T COG0714          43 GGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDL   85 (329)
T ss_pred             CCCEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCCHHHh
Confidence            4579999999999999999999999999999999876665554

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.12  E-value=6.8e-06  Score=77.46  Aligned_cols=64  Identities=16%  Similarity=0.249  Sum_probs=48.8

Q ss_pred             cccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC---------CcEEEEecCCC
Q 045456          210 DKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK---------FNIYDMELTSV  280 (288)
Q Consensus       210 ~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~---------~~i~~l~~~~~  280 (288)
                      +++.+-++..+.|...+...+.        | ..+..++++||||||||++++++++++.         .+++.+++...
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~--------~-~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~   85 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILR--------G-SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQIL   85 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHc--------C-CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCC
Confidence            4678888888888887765443        1 2245799999999999999999998764         57888887665


Q ss_pred             CC
Q 045456          281 YC  282 (288)
Q Consensus       281 ~~  282 (288)
                      .+
T Consensus        86 ~~   87 (365)
T TIGR02928        86 DT   87 (365)
T ss_pred             CC
Confidence            54

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=98.10  E-value=5.4e-06  Score=85.59  Aligned_cols=63  Identities=22%  Similarity=0.373  Sum_probs=45.2

Q ss_pred             cccChhhhHHHHHHHHHHhhcHHHHHHhCCcc---cce-eEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          212 IAMDPSMKQASIDDLDRFVKRRNFYRRVGKVW---KRG-YLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       212 l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~---~rg-~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      |+|+++.++.|.+.+..        .+.|+..   +.| +||+||||||||.+|+++|+.++.+++.++.++..+
T Consensus       456 v~GQ~~ai~~l~~~i~~--------~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~  522 (731)
T TIGR02639       456 IFGQDEAIDSLVSSIKR--------SRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYME  522 (731)
T ss_pred             eeCcHHHHHHHHHHHHH--------HhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhh
Confidence            45555555555554432        1233321   333 889999999999999999999999999999887654

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.07  E-value=5.8e-06  Score=74.83  Aligned_cols=67  Identities=24%  Similarity=0.511  Sum_probs=45.6

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCC
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYC  282 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  282 (288)
                      .+.|+-+.+...+.....+..+.   ++|.     -..+++|+||||+|||.||.|||+++   |..++.+..+++..
T Consensus        77 ~~~d~~~~~~~~~~~l~~~~~~~---~~~~-----~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el~~  146 (254)
T COG1484          77 EEFDFEFQPGIDKKALEDLASLV---EFFE-----RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLS  146 (254)
T ss_pred             ccccccCCcchhHHHHHHHHHHH---HHhc-----cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHHHH
Confidence            44555555554444444343333   2232     35689999999999999999999998   67788887776543

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=98.07  E-value=2.3e-06  Score=84.23  Aligned_cols=57  Identities=26%  Similarity=0.475  Sum_probs=48.5

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +++|.+|++++|++.+.+.|...+..           + ....+|||.||-||||||+|+.+|+.+++.
T Consensus         9 KyRP~~F~evvGQe~v~~~L~nal~~-----------~-ri~hAYlfsG~RGvGKTt~Ari~AkalNC~   65 (515)
T COG2812           9 KYRPKTFDDVVGQEHVVKTLSNALEN-----------G-RIAHAYLFSGPRGVGKTTIARILAKALNCE   65 (515)
T ss_pred             HhCcccHHHhcccHHHHHHHHHHHHh-----------C-cchhhhhhcCCCCcCchhHHHHHHHHhcCC
Confidence            56899999999999998888887663           1 235689999999999999999999998764

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=98.04  E-value=8.6e-06  Score=65.78  Aligned_cols=51  Identities=14%  Similarity=0.149  Sum_probs=41.5

Q ss_pred             cccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccce--eEEEcCCCCChHHHHHHHHHHh
Q 045456          210 DKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRG--YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       210 ~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg--~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      ..|.|++-+++.|.+++..++..+        .+++.  +.|+||||||||.+++.||+.+
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~--------~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANP--------NPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCC--------CCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            467888999999999999988653        23333  4589999999999999999985

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.03  E-value=2.5e-06  Score=78.62  Aligned_cols=76  Identities=22%  Similarity=0.229  Sum_probs=52.5

Q ss_pred             Cccc-cccChhhhHHHHHHHHHHhhcHHHH-HHhCCcc-cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          208 TFDK-IAMDPSMKQASIDDLDRFVKRRNFY-RRVGKVW-KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       208 ~~~~-l~~~~~~k~~i~~~l~~~~~~~~~~-~~~g~~~-~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      .+|+ ++|++..|+.+.-++-.+.++-... .+-++.. +.++||.||+|||||.||+.+|+.|+.||..-++++++..
T Consensus        58 ~Ld~YVIGQe~AKKvLsVAVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~LnVPFaiADATtLTEA  136 (408)
T COG1219          58 HLDEYVIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEA  136 (408)
T ss_pred             HhhhheecchhhhceeeeeehhHHHHHhccCCCCceeeeeccEEEECCCCCcHHHHHHHHHHHhCCCeeeccccchhhc
Confidence            3444 4677777777655554433321111 0011222 4569999999999999999999999999999999988754

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.03  E-value=7.8e-06  Score=85.72  Aligned_cols=66  Identities=18%  Similarity=0.359  Sum_probs=51.5

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----------CCcEE
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----------KFNIY  273 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~  273 (288)
                      -+|..++.++|.++..+.+.+.+..             ..+..++|+||||||||++++++|..+          +.+++
T Consensus       172 ~r~~~l~~vigr~~ei~~~i~iL~r-------------~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~  238 (857)
T PRK10865        172 AEQGKLDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVL  238 (857)
T ss_pred             HhcCCCCcCCCCHHHHHHHHHHHhc-------------CCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEE
Confidence            4567899999988765555443331             124579999999999999999999998          88999


Q ss_pred             EEecCCCCC
Q 045456          274 DMELTSVYC  282 (288)
Q Consensus       274 ~l~~~~~~~  282 (288)
                      .++++.+..
T Consensus       239 ~l~l~~l~a  247 (857)
T PRK10865        239 ALDMGALVA  247 (857)
T ss_pred             EEehhhhhh
Confidence            999987653

>PRK06620 hypothetical protein; Validated

Probab=98.03  E-value=1.1e-05  Score=71.24  Aligned_cols=62  Identities=21%  Similarity=0.194  Sum_probs=40.8

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcc-cceeEEEcCCCCChHHHHHHHHHHhCCcE
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVW-KRGYLLFGPPGTGKSSLIAAMANYLKFNI  272 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~-~rg~LL~GPpGtGKTsla~aiA~~l~~~i  272 (288)
                      .++-+|++++..+.-.. ....+..+...      .+..+ .+.++||||||||||++++++++..+..+
T Consensus        10 ~~~~tfd~Fvvg~~N~~-a~~~~~~~~~~------~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~   72 (214)
T PRK06620         10 SSKYHPDEFIVSSSNDQ-AYNIIKNWQCG------FGVNPYKFTLLIKGPSSSGKTYLTKIWQNLSNAYI   72 (214)
T ss_pred             CCCCCchhhEecccHHH-HHHHHHHHHHc------cccCCCcceEEEECCCCCCHHHHHHHHHhccCCEE
Confidence            34458999876553322 33434433221      12222 36799999999999999999999887643

>PHA02624 large T antigen; Provisional

Probab=98.02  E-value=1.2e-05  Score=80.22  Aligned_cols=40  Identities=23%  Similarity=0.313  Sum_probs=34.0

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~  279 (288)
                      |+|.++.++|+||||||||+++.+|++.||-.+..++.+.
T Consensus       427 giPKk~~il~~GPpnTGKTtf~~sLl~~L~G~vlsVNsPt  466 (647)
T PHA02624        427 NVPKRRYWLFKGPVNSGKTTLAAALLDLCGGKSLNVNCPP  466 (647)
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHHcCCeEEEeeCCc
Confidence            6777888999999999999999999999965566677544

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=98.02  E-value=6.6e-06  Score=77.29  Aligned_cols=51  Identities=37%  Similarity=0.451  Sum_probs=40.7

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .|..|++++|+++.++.+.-.+..             +-..++||.||||||||++|+++|+.+
T Consensus         3 ~~~~f~~i~Gq~~~~~~l~~~~~~-------------~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          3 KPFPFSAIVGQEEMKQAMVLTAID-------------PGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHhc-------------cCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            467899999999988876543221             112479999999999999999999998

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.98  E-value=1.3e-05  Score=71.58  Aligned_cols=64  Identities=19%  Similarity=0.230  Sum_probs=40.9

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC---CcEEEEec
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK---FNIYDMEL  277 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~  277 (288)
                      ..++.+||+.+...  .+.+...+..+...         +..+.++||||||||||+++.++|+++.   ..+..+++
T Consensus        15 ~~~~~~fd~f~~~~--n~~a~~~l~~~~~~---------~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~   81 (235)
T PRK08084         15 LPDDETFASFYPGD--NDSLLAALQNALRQ---------EHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPL   81 (235)
T ss_pred             CCCcCCccccccCc--cHHHHHHHHHHHhC---------CCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEH
Confidence            44456899987442  22344444443321         1134799999999999999999998764   33444444

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=97.98  E-value=1.1e-05  Score=76.24  Aligned_cols=55  Identities=20%  Similarity=0.275  Sum_probs=46.3

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .||+.+++|+|++++++.+...+..           | ..+..+||+||+|+|||++|.++|+.+..
T Consensus        17 ~~P~~~~~l~Gh~~a~~~L~~a~~~-----------g-rl~ha~L~~G~~G~GKttlA~~lA~~Llc   71 (351)
T PRK09112         17 PSPSENTRLFGHEEAEAFLAQAYRE-----------G-KLHHALLFEGPEGIGKATLAFHLANHILS   71 (351)
T ss_pred             CCCCchhhccCcHHHHHHHHHHHHc-----------C-CCCeeEeeECCCCCCHHHHHHHHHHHHcC
Confidence            5899999999999998888775542           2 23557999999999999999999999865

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.97  E-value=8.3e-06  Score=85.25  Aligned_cols=63  Identities=19%  Similarity=0.321  Sum_probs=49.9

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----------CCcEEEEe
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----------KFNIYDME  276 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~  276 (288)
                      ..++.++|.++..+.+.+.+..             ..+++++|+||||||||++|+++|..+          +.+++.++
T Consensus       176 ~~~~~~igr~~ei~~~~~~L~r-------------~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~  242 (821)
T CHL00095        176 GNLDPVIGREKEIERVIQILGR-------------RTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLD  242 (821)
T ss_pred             CCCCCCCCcHHHHHHHHHHHcc-------------cccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEee
Confidence            4678888888777777665432             235689999999999999999999987          47899999


Q ss_pred             cCCCCC
Q 045456          277 LTSVYC  282 (288)
Q Consensus       277 ~~~~~~  282 (288)
                      ++++..
T Consensus       243 ~~~l~a  248 (821)
T CHL00095        243 IGLLLA  248 (821)
T ss_pred             HHHHhc
Confidence            877653

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=97.97  E-value=2.2e-05  Score=74.80  Aligned_cols=65  Identities=18%  Similarity=0.242  Sum_probs=47.0

Q ss_pred             ccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-----CCcEEEEecCCCCC
Q 045456          209 FDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-----KFNIYDMELTSVYC  282 (288)
Q Consensus       209 ~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~  282 (288)
                      .+.+++-++..++|...+...+.        | ..+..++++||||||||++++.+++++     +..++.+++....+
T Consensus        29 P~~l~~Re~e~~~l~~~l~~~~~--------~-~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~   98 (394)
T PRK00411         29 PENLPHREEQIEELAFALRPALR--------G-SRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRT   98 (394)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHhC--------C-CCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCC
Confidence            35566667666777666654332        1 124568999999999999999999987     57788888765543

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=97.96  E-value=1.2e-05  Score=74.65  Aligned_cols=50  Identities=20%  Similarity=0.315  Sum_probs=41.7

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +|++++|++.+++.+...+..           | ..+..|||+||+|+|||++|+++|+.+.
T Consensus         2 ~~~~i~g~~~~~~~l~~~~~~-----------~-~~~ha~Lf~G~~G~Gk~~la~~~a~~l~   51 (313)
T PRK05564          2 SFHTIIGHENIKNRIKNSIIK-----------N-RFSHAHIIVGEDGIGKSLLAKEIALKIL   51 (313)
T ss_pred             ChhhccCcHHHHHHHHHHHHc-----------C-CCCceEEeECCCCCCHHHHHHHHHHHHc
Confidence            689999999998888776531           2 3456899999999999999999999874

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=97.93  E-value=1.6e-05  Score=73.30  Aligned_cols=39  Identities=26%  Similarity=0.494  Sum_probs=34.9

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC------------------------CcEEEEecCCCCCc
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK------------------------FNIYDMELTSVYCN  283 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~------------------------~~i~~l~~~~~~~~  283 (288)
                      ..+||+||||||||++|.++|+++.                        .+++.++.++....
T Consensus        25 halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~~~   87 (325)
T COG0470          25 HALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLRKI   87 (325)
T ss_pred             ceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccccCCC
Confidence            3699999999999999999999998                        68999998887664

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.90  E-value=2e-05  Score=82.53  Aligned_cols=66  Identities=17%  Similarity=0.266  Sum_probs=49.9

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----------CCcEE
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----------KFNIY  273 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~  273 (288)
                      -+|..++.++|.++..+++.+.+.   .          ..+.+.+|+||||||||++++.+|..+          +..++
T Consensus       181 ~r~~~ld~~iGr~~ei~~~i~~l~---r----------~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~  247 (852)
T TIGR03345       181 AREGKIDPVLGRDDEIRQMIDILL---R----------RRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLL  247 (852)
T ss_pred             hcCCCCCcccCCHHHHHHHHHHHh---c----------CCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEE
Confidence            367899999998876554444332   1          224579999999999999999999986          36688


Q ss_pred             EEecCCCCC
Q 045456          274 DMELTSVYC  282 (288)
Q Consensus       274 ~l~~~~~~~  282 (288)
                      .++++.+..
T Consensus       248 ~l~l~~l~a  256 (852)
T TIGR03345       248 SLDLGLLQA  256 (852)
T ss_pred             Eeehhhhhc
Confidence            888887653

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]

Probab=97.89  E-value=1.3e-05  Score=73.28  Aligned_cols=68  Identities=31%  Similarity=0.411  Sum_probs=50.1

Q ss_pred             ccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC--CcEEEEecCCCCCcc
Q 045456          209 FDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK--FNIYDMELTSVYCNS  284 (288)
Q Consensus       209 ~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~--~~i~~l~~~~~~~~~  284 (288)
                      -+-++|+.+.++..--.++ .++.+       +-..|++||.||||||||.+|-+|+.+||  .||.-+.++++.++.
T Consensus        37 ~~g~vGQ~~AReAagiivd-lik~K-------kmaGravLlaGppgtGKTAlAlaisqELG~kvPFcpmvgSEvyS~E  106 (456)
T KOG1942|consen   37 AAGFVGQENAREAAGIIVD-LIKSK-------KMAGRAVLLAGPPGTGKTALALAISQELGPKVPFCPMVGSEVYSNE  106 (456)
T ss_pred             ccccccchhhhhhhhHHHH-HHHhh-------hccCcEEEEecCCCCchhHHHHHHHHHhCCCCCcccccchhhhhhh
Confidence            3456788877776322222 22222       12367899999999999999999999996  799999999988764

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=97.88  E-value=8.6e-06  Score=78.73  Aligned_cols=48  Identities=31%  Similarity=0.494  Sum_probs=39.3

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      ...|.||.|++..|+.+.....            |   .+++||+||||||||++|+.+..-|
T Consensus       175 ~~D~~DV~GQ~~AKrAleiAAA------------G---gHnLl~~GpPGtGKTmla~Rl~~lL  222 (490)
T COG0606         175 APDFKDVKGQEQAKRALEIAAA------------G---GHNLLLVGPPGTGKTMLASRLPGLL  222 (490)
T ss_pred             CcchhhhcCcHHHHHHHHHHHh------------c---CCcEEEecCCCCchHHhhhhhcccC
Confidence            3489999999999998765433            2   4589999999999999999988654

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=97.88  E-value=7.6e-06  Score=70.14  Aligned_cols=37  Identities=32%  Similarity=0.654  Sum_probs=29.2

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSV  280 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  280 (288)
                      ..|++|+||||||||.+|.|||+++   |.+++.++.+++
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L   86 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDL   86 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHH
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCce
Confidence            5689999999999999999999876   788888877654

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.

>PRK06921 hypothetical protein; Provisional

Probab=97.86  E-value=3.1e-05  Score=70.57  Aligned_cols=36  Identities=33%  Similarity=0.552  Sum_probs=30.1

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh----CCcEEEEecCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL----KFNIYDMELTS  279 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~~  279 (288)
                      ..+++|+||||||||.|+.|||+++    |..++.+...+
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~  156 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVE  156 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHH
Confidence            4689999999999999999999986    56777776543

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=97.85  E-value=2.9e-05  Score=72.26  Aligned_cols=58  Identities=22%  Similarity=0.292  Sum_probs=43.6

Q ss_pred             cChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEe
Q 045456          214 MDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDME  276 (288)
Q Consensus       214 ~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  276 (288)
                      .+++.++.+.+.++..+....     -...+..+.|.|+||||||++++.+|..+|+++++++
T Consensus       108 l~~~~~~~~~~~l~~~~~~~~-----~~~~~~~I~l~G~~GsGKStvg~~La~~Lg~~~id~D  165 (309)
T PRK08154        108 ASPAQLARVRDALSGMLGAGR-----RAARRRRIALIGLRGAGKSTLGRMLAARLGVPFVELN  165 (309)
T ss_pred             CCHHHHHHHHHHHHHHHhhhh-----hccCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEeHH
Confidence            345566667776666554322     2344567999999999999999999999999999765

>PRK05642 DNA replication initiation factor; Validated

Probab=97.83  E-value=4.1e-05  Score=68.38  Aligned_cols=72  Identities=19%  Similarity=0.239  Sum_probs=45.8

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      ...+..+||+.+...  .....+.+..+....      +-...+.++|+||+|||||.|+.|+++++   +..++.++..
T Consensus        11 ~~~~~~tfdnF~~~~--~~~a~~~~~~~~~~~------~~~~~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~   82 (234)
T PRK05642         11 RLRDDATFANYYPGA--NAAALGYVERLCEAD------AGWTESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLA   82 (234)
T ss_pred             CCCCcccccccCcCC--hHHHHHHHHHHhhcc------ccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHH
Confidence            344556899987433  233444444332211      11123678999999999999999999765   5677777766


Q ss_pred             CCC
Q 045456          279 SVY  281 (288)
Q Consensus       279 ~~~  281 (288)
                      ++.
T Consensus        83 ~~~   85 (234)
T PRK05642         83 ELL   85 (234)
T ss_pred             HHH
Confidence            543

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.83  E-value=3.5e-05  Score=75.20  Aligned_cols=70  Identities=21%  Similarity=0.335  Sum_probs=45.9

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-----CCcEEEEec
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-----KFNIYDMEL  277 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~  277 (288)
                      +.+..+|++.+..+..+. ....+..+...+      |. ..+.++||||||||||.|++|+|+++     +..++.++.
T Consensus       115 l~~~~tfd~fv~g~~n~~-a~~~~~~~~~~~------~~-~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~  186 (450)
T PRK00149        115 LNPKYTFDNFVVGKSNRL-AHAAALAVAENP------GK-AYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTS  186 (450)
T ss_pred             CCCCCcccccccCCCcHH-HHHHHHHHHhCc------Cc-cCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence            455569999764433222 333333333221      22 23569999999999999999999998     566888877


Q ss_pred             CCC
Q 045456          278 TSV  280 (288)
Q Consensus       278 ~~~  280 (288)
                      .++
T Consensus       187 ~~~  189 (450)
T PRK00149        187 EKF  189 (450)
T ss_pred             HHH
Confidence            654

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.82  E-value=3.8e-05  Score=73.89  Aligned_cols=70  Identities=20%  Similarity=0.283  Sum_probs=44.7

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-----CCcEEEEec
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-----KFNIYDMEL  277 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~  277 (288)
                      +.+..+|++.+..+.. ......+..+...+      |. ...+++||||||||||.|++|+|+++     +..++.+++
T Consensus       103 l~~~~tfd~fi~g~~n-~~a~~~~~~~~~~~------~~-~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~  174 (405)
T TIGR00362       103 LNPKYTFDNFVVGKSN-RLAHAAALAVAENP------GK-AYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS  174 (405)
T ss_pred             CCCCCcccccccCCcH-HHHHHHHHHHHhCc------Cc-cCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH
Confidence            4445689995533322 22333333333221      21 23468999999999999999999988     577888876


Q ss_pred             CCC
Q 045456          278 TSV  280 (288)
Q Consensus       278 ~~~  280 (288)
                      .++
T Consensus       175 ~~~  177 (405)
T TIGR00362       175 EKF  177 (405)
T ss_pred             HHH
Confidence            553

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>PRK08181 transposase; Validated

Probab=97.82  E-value=2.9e-05  Score=70.90  Aligned_cols=37  Identities=41%  Similarity=0.607  Sum_probs=30.6

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSV  280 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  280 (288)
                      ..+++|+||||||||.|+.|||+++   |+.++.++..++
T Consensus       106 ~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~L  145 (269)
T PRK08181        106 GANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDL  145 (269)
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHHH
Confidence            4679999999999999999999765   677777766544

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=97.81  E-value=5.3e-05  Score=64.36  Aligned_cols=59  Identities=17%  Similarity=0.115  Sum_probs=41.3

Q ss_pred             ccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCC
Q 045456          213 AMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYC  282 (288)
Q Consensus       213 ~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  282 (288)
                      +|.+...+++.+.++....           .+..+|++|++||||+.+|++|.+..   +.||+.|+++.+..
T Consensus         2 iG~s~~m~~~~~~~~~~a~-----------~~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~   63 (168)
T PF00158_consen    2 IGESPAMKRLREQAKRAAS-----------SDLPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPE   63 (168)
T ss_dssp             S--SHHHHHHHHHHHHHTT-----------STS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-H
T ss_pred             EeCCHHHHHHHHHHHHHhC-----------CCCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhc
Confidence            4555555566665554432           24579999999999999999999976   46999999998743

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.80  E-value=3.1e-05  Score=81.34  Aligned_cols=65  Identities=18%  Similarity=0.369  Sum_probs=49.9

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----------CCcEE
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----------KFNIY  273 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~  273 (288)
                      -+|..++.++|.++..+.+.+.+..             ..+...+|+||||||||++++++|..+          +.+++
T Consensus       167 ~~~~~~~~~igr~~ei~~~~~~l~r-------------~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~  233 (852)
T TIGR03346       167 AREGKLDPVIGRDEEIRRTIQVLSR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLL  233 (852)
T ss_pred             hhCCCCCcCCCcHHHHHHHHHHHhc-------------CCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEE
Confidence            4667899999988765554443321             235678999999999999999999986          78899


Q ss_pred             EEecCCCC
Q 045456          274 DMELTSVY  281 (288)
Q Consensus       274 ~l~~~~~~  281 (288)
                      .++++.+.
T Consensus       234 ~l~~~~l~  241 (852)
T TIGR03346       234 ALDMGALI  241 (852)
T ss_pred             EeeHHHHh
Confidence            99887764

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.80  E-value=3.5e-05  Score=72.33  Aligned_cols=36  Identities=25%  Similarity=0.370  Sum_probs=31.8

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSV  280 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  280 (288)
                      .+++|+||||||||.|+.|||+++   |..++.++..++
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l  222 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADEL  222 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHH
Confidence            689999999999999999999997   778888877654

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=97.78  E-value=2.1e-05  Score=74.29  Aligned_cols=50  Identities=32%  Similarity=0.379  Sum_probs=41.5

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -.|++|+|+++.|..|.-.+..             +...|+||.||+|||||++++++++.+.
T Consensus        14 ~pf~~ivGq~~~k~al~~~~~~-------------p~~~~vli~G~~GtGKs~~ar~~~~~l~   63 (350)
T CHL00081         14 FPFTAIVGQEEMKLALILNVID-------------PKIGGVMIMGDRGTGKSTTIRALVDLLP   63 (350)
T ss_pred             CCHHHHhChHHHHHHHHHhccC-------------CCCCeEEEEcCCCCCHHHHHHHHHHHHh
Confidence            4899999999999888665443             2235899999999999999999988874

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.75  E-value=5.9e-05  Score=73.54  Aligned_cols=68  Identities=19%  Similarity=0.385  Sum_probs=44.3

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-----CCcEEEEec
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-----KFNIYDMEL  277 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~  277 (288)
                      ..+..+|++.+..+.... ....+..+...+      |  +..+++||||||||||.|+.|+|+++     +..++.++.
T Consensus        98 l~~~~tFdnFv~g~~n~~-a~~~~~~~~~~~------~--~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~  168 (440)
T PRK14088         98 LNPDYTFENFVVGPGNSF-AYHAALEVAKNP------G--RYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS  168 (440)
T ss_pred             CCCCCcccccccCCchHH-HHHHHHHHHhCc------C--CCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence            445569999985443322 222333332221      2  23469999999999999999999986     456777776


Q ss_pred             CC
Q 045456          278 TS  279 (288)
Q Consensus       278 ~~  279 (288)
                      .+
T Consensus       169 ~~  170 (440)
T PRK14088        169 EK  170 (440)
T ss_pred             HH
Confidence            54

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.74  E-value=5.9e-05  Score=78.93  Aligned_cols=65  Identities=23%  Similarity=0.349  Sum_probs=46.4

Q ss_pred             cccccChhhhHHHHHHHHHHhhcHHHHHHhCCcc---cc-eeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCC
Q 045456          210 DKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVW---KR-GYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYC  282 (288)
Q Consensus       210 ~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~---~r-g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  282 (288)
                      +.|+|+++..+.|.+.+....        .|...   |. .+||+||||||||++|+++|+.+   +.+++.++.++...
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~--------~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~~~~  580 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRAR--------VGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYME  580 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHh--------hcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEEchhccc
Confidence            456677777777766654321        22211   22 38899999999999999999998   46899998877644

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.73  E-value=5.1e-05  Score=79.57  Aligned_cols=66  Identities=21%  Similarity=0.347  Sum_probs=48.1

Q ss_pred             cccccChhhhHHHHHHHHHHhhcHHHHHHhCCc---ccce-eEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCC
Q 045456          210 DKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKV---WKRG-YLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYC  282 (288)
Q Consensus       210 ~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~---~~rg-~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  282 (288)
                      ..|+|+++..+.|.+.+.....        |+.   .+.| +||+||||||||.+|+++|..+   +..++.++.++...
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~--------gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~  637 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARA--------GLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQE  637 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhc--------CCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhh
Confidence            4567777777777776654321        221   2344 7899999999999999999999   45788998877654


Q ss_pred             c
Q 045456          283 N  283 (288)
Q Consensus       283 ~  283 (288)
                      .
T Consensus       638 ~  638 (852)
T TIGR03345       638 A  638 (852)
T ss_pred             h
Confidence            3

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=97.72  E-value=4e-05  Score=74.38  Aligned_cols=27  Identities=37%  Similarity=0.608  Sum_probs=24.5

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ++.++|+||||||||++|+++|..++.
T Consensus       194 ~~~iil~GppGtGKT~lA~~la~~l~~  220 (459)
T PRK11331        194 KKNIILQGPPGVGKTFVARRLAYLLTG  220 (459)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhcC
Confidence            568999999999999999999998853

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=97.70  E-value=4.6e-05  Score=77.11  Aligned_cols=50  Identities=32%  Similarity=0.401  Sum_probs=41.0

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      .-+++++|+++.++.+...+..               +++++|+||||||||++++++|+.++.+
T Consensus        15 ~~~~~viG~~~a~~~l~~a~~~---------------~~~~ll~G~pG~GKT~la~~la~~l~~~   64 (608)
T TIGR00764        15 RLIDQVIGQEEAVEIIKKAAKQ---------------KRNVLLIGEPGVGKSMLAKAMAELLPDE   64 (608)
T ss_pred             hhHhhccCHHHHHHHHHHHHHc---------------CCCEEEECCCCCCHHHHHHHHHHHcCch
Confidence            5788999988887766665441               2489999999999999999999999755

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=97.69  E-value=4.8e-05  Score=77.11  Aligned_cols=53  Identities=26%  Similarity=0.330  Sum_probs=43.1

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..+|..|++++++++.++.|...+..               ++.++|+||||||||++++++|..+..
T Consensus        24 ~~~~~~~~~vigq~~a~~~L~~~~~~---------------~~~~l~~G~~G~GKttla~~l~~~l~~   76 (637)
T PRK13765         24 EVPERLIDQVIGQEHAVEVIKKAAKQ---------------RRHVMMIGSPGTGKSMLAKAMAELLPK   76 (637)
T ss_pred             ccCcccHHHcCChHHHHHHHHHHHHh---------------CCeEEEECCCCCcHHHHHHHHHHHcCh
Confidence            34578999999999888877664442               247999999999999999999998864

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.67  E-value=5.8e-05  Score=70.41  Aligned_cols=51  Identities=18%  Similarity=0.259  Sum_probs=42.6

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .|++|+|++++++.+...+..           | ..+..+||+||+|+||+++|.++|+.+-.
T Consensus         2 ~f~~iiGq~~~~~~L~~~i~~-----------~-rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc   52 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIKQ-----------N-RIAPAYLFAGPEGVGRKLAALCFIEGLLS   52 (314)
T ss_pred             cHHHhCCHHHHHHHHHHHHHh-----------C-CCCceEEEECCCCCCHHHHHHHHHHHHcC
Confidence            589999999999988886653           2 23568999999999999999999998743

>COG1855 ATPase (PilT family) [General function prediction only]

Probab=97.67  E-value=0.00022  Score=68.67  Aligned_cols=103  Identities=18%  Similarity=0.296  Sum_probs=63.9

Q ss_pred             cceEEEEEeccchhhHHHHhhhhHHHHHHHHHHh-------cc------ceeEEEEecCCCCCCCCCCCCCccCCCCC--
Q 045456          142 AERVIELSFPKKYMERILNIYLPYVMEKSNAIKE-------QN------KVVKLYAVGHFGGDSDRGGAWGSTNLDHP--  206 (288)
Q Consensus       142 ~~r~~eL~f~~~~r~~vl~syl~~Il~~~~~i~~-------~~------~~~kl~~~~~~~~~~~~~~~w~~~~~~~p--  206 (288)
                      +.....|.=..-.++ -|+.+...|++.|+....       .+      +..+|-...+.     -...|+-. -.+|  
T Consensus       170 ~~k~v~l~d~pl~~~-ele~ia~eIi~~a~~~~~sfIEi~r~GatVvQlrn~RIvIarPP-----fSd~~EIT-avRPvv  242 (604)
T COG1855         170 EWKLVRLSDKPLTRE-ELEEIAREIIERAKRDPDSFIEIDRPGATVVQLRNYRIVIARPP-----FSDRWEIT-AVRPVV  242 (604)
T ss_pred             cEEEEEcCCccCCHH-HHHHHHHHHHHHHhhCcCceEEEccCCceEEEeccEEEEEecCC-----CCCceEEE-EEeeeE
Confidence            455555543333333 466677778877765321       11      11122222221     12356532 2233  


Q ss_pred             -CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          207 -ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       207 -~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                       .+++|..+.+.+++++.+                  -.+|+|+-||||.||||+|+|+|..+.
T Consensus       243 k~~ledY~L~dkl~eRL~e------------------raeGILIAG~PGaGKsTFaqAlAefy~  288 (604)
T COG1855         243 KLSLEDYGLSDKLKERLEE------------------RAEGILIAGAPGAGKSTFAQALAEFYA  288 (604)
T ss_pred             EechhhcCCCHHHHHHHHh------------------hhcceEEecCCCCChhHHHHHHHHHHH
Confidence             489999998888887765                  246999999999999999999999874

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.67  E-value=8.1e-05  Score=78.19  Aligned_cols=66  Identities=20%  Similarity=0.368  Sum_probs=47.8

Q ss_pred             ccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcc---c-ceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCC
Q 045456          209 FDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVW---K-RGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVY  281 (288)
Q Consensus       209 ~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~---~-rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~  281 (288)
                      .+.|+|++...+.|.+.+.....        |...   + ..+||+||||||||++|++||+.+   +.+++.++.++..
T Consensus       567 ~~~viGQ~~ai~~l~~~i~~~~~--------gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~se~~  638 (857)
T PRK10865        567 HHRVIGQNEAVEAVSNAIRRSRA--------GLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFM  638 (857)
T ss_pred             CCeEeCCHHHHHHHHHHHHHHHh--------cccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhHHhh
Confidence            45677888877777777664321        2211   2 248899999999999999999987   4578888887654


Q ss_pred             C
Q 045456          282 C  282 (288)
Q Consensus       282 ~  282 (288)
                      .
T Consensus       639 ~  639 (857)
T PRK10865        639 E  639 (857)
T ss_pred             h
Confidence            3

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.63  E-value=0.00011  Score=77.15  Aligned_cols=66  Identities=21%  Similarity=0.386  Sum_probs=48.5

Q ss_pred             cccccChhhhHHHHHHHHHHhhcHHHHHHhCCc----ccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCC
Q 045456          210 DKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKV----WKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYC  282 (288)
Q Consensus       210 ~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~----~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  282 (288)
                      ..|+|++...+.|.+.+.....        |..    +...+||+||||||||.+|++||..+   +.+++.++.++...
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~--------gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~~~~  636 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRA--------GLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYME  636 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhc--------cCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechhhcc
Confidence            4577888877777776664321        221    12348899999999999999999988   56899999887654


Q ss_pred             c
Q 045456          283 N  283 (288)
Q Consensus       283 ~  283 (288)
                      .
T Consensus       637 ~  637 (852)
T TIGR03346       637 K  637 (852)
T ss_pred             c
Confidence            3

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]

Probab=97.62  E-value=3.5e-05  Score=71.14  Aligned_cols=60  Identities=25%  Similarity=0.382  Sum_probs=45.6

Q ss_pred             CCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          196 GAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       196 ~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      -.|  ++.++|.+++++++.++....+.+    |       .  +.+--...|+|||||||||+.+.|.|..+-.
T Consensus        29 ~pw--vekyrP~~l~dv~~~~ei~st~~~----~-------~--~~~~lPh~L~YgPPGtGktsti~a~a~~ly~   88 (360)
T KOG0990|consen   29 QPW--VEKYRPPFLGIVIKQEPIWSTENR----Y-------S--GMPGLPHLLFYGPPGTGKTSTILANARDFYS   88 (360)
T ss_pred             CCC--ccCCCCchhhhHhcCCchhhHHHH----h-------c--cCCCCCcccccCCCCCCCCCchhhhhhhhcC
Confidence            457  579999999999998876555443    2       1  1222238999999999999999999998754

>TIGR01817 nifA Nif-specific regulatory protein

Probab=97.62  E-value=0.00014  Score=72.41  Aligned_cols=65  Identities=18%  Similarity=0.185  Sum_probs=53.6

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCC
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVY  281 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~  281 (288)
                      ..++++++|.+...+++.+.++....           ....+||+|++||||+++|++|....   +.||+.+++..+.
T Consensus       192 ~~~~~~liG~s~~~~~~~~~~~~~a~-----------~~~pvli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~~~  259 (534)
T TIGR01817       192 SGKEDGIIGKSPAMRQVVDQARVVAR-----------SNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALS  259 (534)
T ss_pred             cCccCceEECCHHHHHHHHHHHHHhC-----------cCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCCCC
Confidence            35889999999888888887776442           23469999999999999999999885   5699999998774

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>PHA00729 NTP-binding motif containing protein

Probab=97.61  E-value=4.1e-05  Score=67.98  Aligned_cols=28  Identities=21%  Similarity=0.469  Sum_probs=24.4

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCcE
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFNI  272 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~i  272 (288)
                      ..++++||||||||++|.+||+.++..+
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~l~~~l   45 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARDVFWKL   45 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhhc
Confidence            3799999999999999999999986433

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.60  E-value=0.0001  Score=71.90  Aligned_cols=73  Identities=27%  Similarity=0.334  Sum_probs=44.5

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      +.+..+||+.+..+.-+ .....+..+.....  ..-| ...++++||||||+|||+|++|+|+++   +..++.++..+
T Consensus       104 l~~~~tFdnFv~g~~N~-~a~~~a~~~a~~~~--~~~~-~~~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~  179 (445)
T PRK12422        104 LDPLMTFANFLVTPEND-LPHRILQEFTKVSE--QGKG-FPFNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSEL  179 (445)
T ss_pred             CCccccccceeeCCcHH-HHHHHHHHHHhccc--cccC-CCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHH
Confidence            34456899997543322 22222332221110  0001 123579999999999999999999987   57787777643

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=97.59  E-value=0.00014  Score=72.44  Aligned_cols=65  Identities=11%  Similarity=0.117  Sum_probs=53.4

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHH-----------hCCcEEEE
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANY-----------LKFNIYDM  275 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~-----------l~~~i~~l  275 (288)
                      .+|++++|.+...+.+.+.+..+-..           ...+|++|++||||+.+|++|.+.           -+.||+.+
T Consensus       216 ~~f~~iiG~S~~m~~~~~~i~~~A~s-----------~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~i  284 (538)
T PRK15424        216 YVLGDLLGQSPQMEQVRQTILLYARS-----------SAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAV  284 (538)
T ss_pred             cchhheeeCCHHHHHHHHHHHHHhCC-----------CCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEe
Confidence            47999999998888887777654432           346999999999999999999987           46799999


Q ss_pred             ecCCCCC
Q 045456          276 ELTSVYC  282 (288)
Q Consensus       276 ~~~~~~~  282 (288)
                      +++.+..
T Consensus       285 nCaal~e  291 (538)
T PRK15424        285 NCGAIAE  291 (538)
T ss_pred             ecccCCh
Confidence            9988753

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.59  E-value=5.3e-05  Score=76.77  Aligned_cols=41  Identities=29%  Similarity=0.616  Sum_probs=37.2

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCcc
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNS  284 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~  284 (288)
                      .-.+||+|+||||||+++++.|.++|.+++.++..++.+.+
T Consensus       431 ~~~vLLhG~~g~GK~t~V~~vas~lg~h~~evdc~el~~~s  471 (953)
T KOG0736|consen  431 NPSVLLHGPPGSGKTTVVRAVASELGLHLLEVDCYELVAES  471 (953)
T ss_pred             ceEEEEeCCCCCChHHHHHHHHHHhCCceEeccHHHHhhcc
Confidence            34599999999999999999999999999999998887764

>PRK08727 hypothetical protein; Validated

Probab=97.58  E-value=0.00015  Score=64.63  Aligned_cols=65  Identities=23%  Similarity=0.273  Sum_probs=40.6

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      .....+|++.++.+.-  .+ ..+.....        |. ....++|+||+|||||.++.|+++++   |..+..++..+
T Consensus        12 ~~~~~~f~~f~~~~~n--~~-~~~~~~~~--------~~-~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~   79 (233)
T PRK08727         12 YPSDQRFDSYIAAPDG--LL-AQLQALAA--------GQ-SSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQA   79 (233)
T ss_pred             CCCcCChhhccCCcHH--HH-HHHHHHHh--------cc-CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHH
Confidence            3445689999865542  11 11111111        21 23459999999999999999997775   55556665544

>PRK06526 transposase; Provisional

Probab=97.55  E-value=5.7e-05  Score=68.38  Aligned_cols=35  Identities=26%  Similarity=0.452  Sum_probs=28.0

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      +.+++|+||||||||.++.+|+.++   |..++.++.+
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~  135 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAA  135 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHH
Confidence            4689999999999999999999875   5565554443

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=97.54  E-value=4.1e-05  Score=61.03  Aligned_cols=37  Identities=32%  Similarity=0.529  Sum_probs=29.6

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh--------CCcEEEEecCCCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL--------KFNIYDMELTSVY  281 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l--------~~~i~~l~~~~~~  281 (288)
                      +.++++||||+|||++++.++..+        ..+++.++++...
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            458899999999999999999998        7888888776554

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.52  E-value=0.00012  Score=68.68  Aligned_cols=51  Identities=22%  Similarity=0.376  Sum_probs=39.4

Q ss_pred             Ccccccc-ChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          208 TFDKIAM-DPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       208 ~~~~l~~-~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .|++|.| ++.+.+.+...+..           | ..+..+||+||+|+||+++|+++|+.+..
T Consensus         3 ~~~~i~~~q~~~~~~L~~~~~~-----------~-~l~ha~Lf~G~~G~gk~~~a~~la~~l~c   54 (329)
T PRK08058          3 TWEQLTALQPVVVKMLQNSIAK-----------N-RLSHAYLFEGAKGTGKKATALWLAKSLFC   54 (329)
T ss_pred             cHHHHHhhHHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHHHHHHHHCC
Confidence            4778887 77777777665441           2 24668999999999999999999998743

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=97.52  E-value=8.4e-05  Score=64.49  Aligned_cols=22  Identities=45%  Similarity=0.828  Sum_probs=17.6

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .++.||||||||+++..++..+
T Consensus        20 ~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen   20 TLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             EEEE-STTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHHHh
Confidence            7889999999998777777666

>PRK09087 hypothetical protein; Validated

Probab=97.52  E-value=0.00024  Score=63.17  Aligned_cols=62  Identities=18%  Similarity=0.175  Sum_probs=39.4

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEE
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDM  275 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  275 (288)
                      ..++.+|++++..+.-.. +...+..+.         + ...+.++|+||+|||||+|++++++..+..++..
T Consensus        14 ~~~~~~~~~Fi~~~~N~~-a~~~l~~~~---------~-~~~~~l~l~G~~GsGKThLl~~~~~~~~~~~i~~   75 (226)
T PRK09087         14 HDPAYGRDDLLVTESNRA-AVSLVDHWP---------N-WPSPVVVLAGPVGSGKTHLASIWREKSDALLIHP   75 (226)
T ss_pred             CCCCCChhceeecCchHH-HHHHHHhcc---------c-CCCCeEEEECCCCCCHHHHHHHHHHhcCCEEecH
Confidence            344568999986332222 223222211         1 1123489999999999999999998887765554

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=97.52  E-value=0.00011  Score=69.30  Aligned_cols=48  Identities=31%  Similarity=0.391  Sum_probs=38.5

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .|..|+|+++.|..+.-.+..             +...+++|.||||+|||++++++++.+
T Consensus         2 pf~~ivgq~~~~~al~~~~~~-------------~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         2 PFTAIVGQDEMKLALLLNVID-------------PKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             CccccccHHHHHHHHHHHhcC-------------CCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            478899999998877554332             113479999999999999999999888

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=97.51  E-value=7.3e-05  Score=58.52  Aligned_cols=23  Identities=43%  Similarity=0.807  Sum_probs=20.6

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|+||||+|||++|..+|..+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~   23 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLL   23 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHH
Confidence            57999999999999999887775

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>PHA02774 E1; Provisional

Probab=97.51  E-value=0.0002  Score=71.28  Aligned_cols=37  Identities=30%  Similarity=0.566  Sum_probs=30.4

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEE-Ee
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYD-ME  276 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~-l~  276 (288)
                      |+|.++.++|+||||||||.+|.+|++.++-.++. ++
T Consensus       430 ~~PKknciv~~GPP~TGKS~fa~sL~~~L~G~vi~fvN  467 (613)
T PHA02774        430 GIPKKNCLVIYGPPDTGKSMFCMSLIKFLKGKVISFVN  467 (613)
T ss_pred             cCCcccEEEEECCCCCCHHHHHHHHHHHhCCCEEEEEE
Confidence            56656789999999999999999999999755544 55

>PRK09183 transposase/IS protein; Provisional

Probab=97.50  E-value=8e-05  Score=67.58  Aligned_cols=37  Identities=22%  Similarity=0.382  Sum_probs=29.7

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSV  280 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  280 (288)
                      ..+++|+||||||||+++.+|+..+   |..+..++..++
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~~l  141 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADL  141 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHHHH
Confidence            4579999999999999999998664   777777765543

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=97.49  E-value=0.00027  Score=66.20  Aligned_cols=63  Identities=13%  Similarity=0.220  Sum_probs=50.5

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCC
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVY  281 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~  281 (288)
                      -+++++|.+...+.+.+.+.....           ....+|+.|++||||+++|++|....   +.|++.+++..+.
T Consensus         4 ~~~~liG~S~~~~~~~~~i~~~a~-----------~~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~   69 (326)
T PRK11608          4 YKDNLLGEANSFLEVLEQVSRLAP-----------LDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALN   69 (326)
T ss_pred             ccCccEECCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCC
Confidence            467788888888888777776442           23469999999999999999998765   3699999999874

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=97.48  E-value=1.2e-05  Score=86.64  Aligned_cols=208  Identities=15%  Similarity=0.195  Sum_probs=129.0

Q ss_pred             cChHHHHHHHHhhhccCCCcCceEEeec------CC------------------------CCceEEecCCCCeEEeccCC
Q 045456           71 INQLYEASELYLSTKITASLEKLKVSKT------TK------------------------EKNLSVTINKGEKISDIFEG  120 (288)
Q Consensus        71 ~N~ly~a~~~YL~~~~~~~~~rL~~~~~------~~------------------------~~~~~l~~~~ge~v~D~F~G  120 (288)
                      +|+-...+|.|++|-++.++..|..-.+      .+                        +++-.+-++.-++|+-... 
T Consensus       920 NNHEHTdlqeYiGTyvTdd~G~lsFkEGvLVeAlR~GyWIVLDELNLApTDVLEaLNRLLDDNRelfIPETqevV~PHp-  998 (4600)
T COG5271         920 NNHEHTDLQEYIGTYVTDDDGSLSFKEGVLVEALRRGYWIVLDELNLAPTDVLEALNRLLDDNRELFIPETQEVVVPHP-  998 (4600)
T ss_pred             cCcccchHHHHhhceeecCCCceeeehhHHHHHHhcCcEEEeeccccCcHHHHHHHHHhhccccceecCCcceeeccCC-
Confidence            7999999999999998877665443111      11                        3444555666677665543 


Q ss_pred             eeEEEEEeeeccccccccC------CCcceEEEEEeccc----------hhhHHHHhhhhHHHHHHHHHHhccceeEEEE
Q 045456          121 ICLVWEMTCKETEERSSQR------GKAERVIELSFPKK----------YMERILNIYLPYVMEKSNAIKEQNKVVKLYA  184 (288)
Q Consensus       121 v~~~W~~~~~~~~~~~~~~------~~~~r~~eL~f~~~----------~r~~vl~syl~~Il~~~~~i~~~~~~~kl~~  184 (288)
                         .+.++.++|..+.+++      +...|.+|+.|..-          .|-++-.||...|++..+++..++..-+||.
T Consensus       999 ---~F~lFATQNppg~YgGRK~LSrAFRNRFlE~hFddipedEle~ILh~rc~iapSyakKiVeVyr~Ls~rRs~~rife 1075 (4600)
T COG5271         999 ---NFRLFATQNPPGGYGGRKGLSRAFRNRFLEMHFDDIPEDELEEILHGRCEIAPSYAKKIVEVYRGLSSRRSINRIFE 1075 (4600)
T ss_pred             ---CeeEEeecCCCccccchHHHHHHHHhhhHhhhcccCcHHHHHHHHhccCccCHHHHHHHHHHHHHhhhhhhHHHHHH
Confidence               4667888877655442      33678999999662          2334667899999999999887777766777


Q ss_pred             ecCCCCCCCCCCCCCccCCCCCCCccccccC-----------hhhhHHHHHHHHHHhh----cHHHH--------HHhCC
Q 045456          185 VGHFGGDSDRGGAWGSTNLDHPATFDKIAMD-----------PSMKQASIDDLDRFVK----RRNFY--------RRVGK  241 (288)
Q Consensus       185 ~~~~~~~~~~~~~w~~~~~~~p~~~~~l~~~-----------~~~k~~i~~~l~~~~~----~~~~~--------~~~g~  241 (288)
                      ...+.....+--+|.   ...+..++.|+..           .+.|-.+.+.++.-++    ...+|        +.+|.
T Consensus      1076 qknsfaTLRDLFrWa---~R~avgy~qla~~GymllaER~R~~~dkv~V~~v~ekvmkvk~d~d~~y~smed~slkel~~ 1152 (4600)
T COG5271        1076 QKNSFATLRDLFRWA---GRIAVGYDQLAFLGYMLLAERQRELEDKVRVGQVFEKVMKVKSDEDYKYDSMEDISLKELSK 1152 (4600)
T ss_pred             hhhhHHHHHHHHHHh---ccccchHHHHHHhhHHHHHHHhcCHHhhhhHHHHHHHHHhhhhcchhhhhhHhhhhHHhhhh
Confidence            654433222223563   5556667766532           1222223333322221    11222        11111


Q ss_pred             -cc-----------------cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCccc
Q 045456          242 -VW-----------------KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSE  285 (288)
Q Consensus       242 -~~-----------------~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~  285 (288)
                       .|                 ++.+||.|..|||||+.+..+|..++..+..+++..-..+.|
T Consensus      1153 v~wt~~m~rl~~lv~~Cl~~kepvlLVgetgcgktt~cqvLa~~~~rel~~~nahq~Te~gd 1214 (4600)
T COG5271        1153 VVWTEPMCRLERLVGKCLVTKEPVLLVGETGCGKTTGCQVLADTFRRELNLMNAHQETENGD 1214 (4600)
T ss_pred             cccccchhhhhhHHHHhhcccCceEEEeecCcchhHHHHHHHHHHHHHHHHHHHhhhccccc
Confidence             12                 344999999999999999999998888777776655544443

>PRK13531 regulatory ATPase RavA; Provisional

Probab=97.48  E-value=0.00015  Score=71.06  Aligned_cols=27  Identities=26%  Similarity=0.452  Sum_probs=23.8

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ...+||.||||||||++|+++|...+.
T Consensus        39 g~hVLL~GpPGTGKT~LAraLa~~~~~   65 (498)
T PRK13531         39 GESVFLLGPPGIAKSLIARRLKFAFQN   65 (498)
T ss_pred             CCCEEEECCCChhHHHHHHHHHHHhcc
Confidence            456999999999999999999998753

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=97.47  E-value=0.00014  Score=75.18  Aligned_cols=61  Identities=25%  Similarity=0.367  Sum_probs=44.3

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----------CCcEEEEec
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----------KFNIYDMEL  277 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~  277 (288)
                      .++.++|.++..+.+.+.+..             ..+..+||+||||||||++++++|...          +..++.+++
T Consensus       184 ~~~~liGR~~ei~~~i~iL~r-------------~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~  250 (758)
T PRK11034        184 GIDPLIGREKELERAIQVLCR-------------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDI  250 (758)
T ss_pred             CCCcCcCCCHHHHHHHHHHhc-------------cCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccH
Confidence            566777777666666554332             124578999999999999999999874          667777776


Q ss_pred             CCCC
Q 045456          278 TSVY  281 (288)
Q Consensus       278 ~~~~  281 (288)
                      +.+.
T Consensus       251 ~~ll  254 (758)
T PRK11034        251 GSLL  254 (758)
T ss_pred             HHHh
Confidence            6554

>PRK06547 hypothetical protein; Provisional

Probab=97.45  E-value=0.00019  Score=61.19  Aligned_cols=33  Identities=27%  Similarity=0.459  Sum_probs=29.2

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEe
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDME  276 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  276 (288)
                      +.-+++.||+|+|||++++.+|+.++.+++.++
T Consensus        15 ~~~i~i~G~~GsGKTt~a~~l~~~~~~~~~~~d   47 (172)
T PRK06547         15 MITVLIDGRSGSGKTTLAGALAARTGFQLVHLD   47 (172)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhCCCeeccc
Confidence            456888999999999999999999999888765

>PF13245 AAA_19: Part of AAA domain

Probab=97.45  E-value=0.00023  Score=52.45  Aligned_cols=32  Identities=38%  Similarity=0.664  Sum_probs=22.8

Q ss_pred             eEEEcCCCCChH-HHHHHHHHHh------CCcEEEEecC
Q 045456          247 YLLFGPPGTGKS-SLIAAMANYL------KFNIYDMELT  278 (288)
Q Consensus       247 ~LL~GPpGtGKT-sla~aiA~~l------~~~i~~l~~~  278 (288)
                      +++.|||||||| +++.+++..+      +..+..+..+
T Consensus        13 ~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t   51 (76)
T PF13245_consen   13 FVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPT   51 (76)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCC
Confidence            455999999999 5566666666      5567766544

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=97.44  E-value=7.4e-05  Score=62.94  Aligned_cols=37  Identities=30%  Similarity=0.481  Sum_probs=25.9

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCc---EEEEecCCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFN---IYDMELTSV  280 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~---i~~l~~~~~  280 (288)
                      ++.++++||||+|||++++++...+..+   ++.++....
T Consensus        24 ~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~~~~~~~   63 (185)
T PF13191_consen   24 PRNLLLTGESGSGKTSLLRALLDRLAERGGYVISINCDDS   63 (185)
T ss_dssp             ---EEE-B-TTSSHHHHHHHHHHHHHHHT--EEEEEEETT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEEEecc
Confidence            4679999999999999999988887655   666665544

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=97.41  E-value=0.00044  Score=65.06  Aligned_cols=67  Identities=25%  Similarity=0.342  Sum_probs=48.9

Q ss_pred             cc-ccccChhhhHHHHHHHHHHhhcHHHHHHhCCc-ccceeEEEcCCCCChHHHHHHHHHHh-CCcEEEEecCCCCCc
Q 045456          209 FD-KIAMDPSMKQASIDDLDRFVKRRNFYRRVGKV-WKRGYLLFGPPGTGKSSLIAAMANYL-KFNIYDMELTSVYCN  283 (288)
Q Consensus       209 ~~-~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~-~~rg~LL~GPpGtGKTsla~aiA~~l-~~~i~~l~~~~~~~~  283 (288)
                      |+ ++.|.++..++|...+...-.        |.. -++-++|.||+|+|||++++.+-+.+ .+++|.+..+-+...
T Consensus        59 f~~~~~G~~~~i~~lV~~fk~AA~--------g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~y~~Y~l~~~Pm~e~  128 (358)
T PF08298_consen   59 FEDEFYGMEETIERLVNYFKSAAQ--------GLEERKRILLLLGPVGGGKSSLAELLKRGLEEYPIYTLKGCPMHEE  128 (358)
T ss_pred             ccccccCcHHHHHHHHHHHHHHHh--------ccCccceEEEEECCCCCCHHHHHHHHHHHhheEEEEEecCCccccC
Confidence            44 888888888877765543222        333 35567899999999999999999887 478998866655544

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=97.40  E-value=0.00031  Score=69.92  Aligned_cols=66  Identities=14%  Similarity=0.202  Sum_probs=53.8

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCC
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYC  282 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  282 (288)
                      ..+|++++|.....+.+.+.+..+...           ...+|+.|++||||+.+|++|.+..   +.||+.+++..+..
T Consensus       208 ~~~f~~iiG~S~~m~~~~~~i~~~A~~-----------~~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~inC~~l~e  276 (526)
T TIGR02329       208 RYRLDDLLGASAPMEQVRALVRLYARS-----------DATVLILGESGTGKELVAQAIHQLSGRRDFPFVAINCGAIAE  276 (526)
T ss_pred             ccchhheeeCCHHHHHHHHHHHHHhCC-----------CCcEEEECCCCcCHHHHHHHHHHhcCcCCCCEEEeccccCCh
Confidence            357999999998888888777654432           3469999999999999999999764   57999999987753

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.40  E-value=0.00016  Score=69.24  Aligned_cols=39  Identities=31%  Similarity=0.449  Sum_probs=36.2

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      +.++||.||+|+|||.||+-+|+-++.||...+++.++-
T Consensus       226 KSNvLllGPtGsGKTllaqTLAr~ldVPfaIcDcTtLTQ  264 (564)
T KOG0745|consen  226 KSNVLLLGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQ  264 (564)
T ss_pred             cccEEEECCCCCchhHHHHHHHHHhCCCeEEecccchhh
Confidence            457999999999999999999999999999999998764

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=97.40  E-value=0.00039  Score=70.82  Aligned_cols=65  Identities=23%  Similarity=0.149  Sum_probs=50.9

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC---CcEEEEecCCCCC
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK---FNIYDMELTSVYC  282 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~~~~~~  282 (288)
                      .+|++++|.+...+++.+.+......           ...+||+|++||||+.+|++|.+...   .||+.+++..+..
T Consensus       322 ~~~~~l~g~s~~~~~~~~~~~~~a~~-----------~~pvli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vnc~~~~~  389 (638)
T PRK11388        322 HTFDHMPQDSPQMRRLIHFGRQAAKS-----------SFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPD  389 (638)
T ss_pred             ccccceEECCHHHHHHHHHHHHHhCc-----------CCCEEEECCCCcCHHHHHHHHHHhCCccCCCeEEEECCCCCh
Confidence            36888888887777776666654421           34599999999999999999998754   6999999987753

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=97.38  E-value=0.00036  Score=71.70  Aligned_cols=64  Identities=17%  Similarity=0.289  Sum_probs=52.7

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCC
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVY  281 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~  281 (288)
                      .+|++++|.+...+.+.+.++.....           ...+|+.|+||||||++|++|....   +.|++.+++..+.
T Consensus       373 ~~~~~liG~S~~~~~~~~~~~~~a~~-----------~~pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~~~  439 (686)
T PRK15429        373 SEFGEIIGRSEAMYSVLKQVEMVAQS-----------DSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMP  439 (686)
T ss_pred             ccccceeecCHHHHHHHHHHHHHhCC-----------CCCEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEecccCC
Confidence            47889999998888888877764422           3469999999999999999999865   5799999998764

>PLN02200 adenylate kinase family protein

Probab=97.37  E-value=0.00022  Score=63.82  Aligned_cols=30  Identities=20%  Similarity=0.380  Sum_probs=25.9

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCcEEE
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFNIYD  274 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  274 (288)
                      .-+++.||||+|||++|+.||..+|++.+.
T Consensus        44 ~ii~I~G~PGSGKsT~a~~La~~~g~~his   73 (234)
T PLN02200         44 FITFVLGGPGSGKGTQCEKIVETFGFKHLS   73 (234)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhCCeEEE
Confidence            347889999999999999999999986543

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.37  E-value=0.00028  Score=68.97  Aligned_cols=67  Identities=21%  Similarity=0.388  Sum_probs=43.5

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-----CCcEEEEecCCC
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-----KFNIYDMELTSV  280 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~  280 (288)
                      +.+|++++..+.- +.....+..+...+      |.. ..+++||||+|||||.|++|+++++     +..++.++..++
T Consensus       111 ~~tFdnFv~g~~n-~~A~~aa~~~a~~~------~~~-~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f  182 (450)
T PRK14087        111 ENTFENFVIGSSN-EQAFIAVQTVSKNP------GIS-YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEF  182 (450)
T ss_pred             ccchhcccCCCcH-HHHHHHHHHHHhCc------Ccc-cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHH
Confidence            4689998755433 22333343333221      222 3569999999999999999999965     466777766543

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=97.36  E-value=0.00025  Score=72.16  Aligned_cols=48  Identities=27%  Similarity=0.286  Sum_probs=37.2

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .|.+|+|+++++..+.-....             +-..|+||.||||||||++|++|++.+
T Consensus         2 pf~~ivGq~~~~~al~~~av~-------------~~~g~vli~G~~GtgKs~lar~l~~~l   49 (633)
T TIGR02442         2 PFTAIVGQEDLKLALLLNAVD-------------PRIGGVLIRGEKGTAKSTAARGLAALL   49 (633)
T ss_pred             CcchhcChHHHHHHHHHHhhC-------------CCCCeEEEEcCCCCcHHHHHHHHHHhC
Confidence            478999998888665443221             112479999999999999999999998

A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=97.35  E-value=0.00041  Score=61.35  Aligned_cols=67  Identities=22%  Similarity=0.349  Sum_probs=40.3

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-----CCcEEEEecCC
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-----KFNIYDMELTS  279 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~  279 (288)
                      +.-||++.+-.+.- +.....+......+      +. ....++||||+|+|||.|..||++++     +..+..+++.+
T Consensus         3 ~~~tFdnfv~g~~N-~~a~~~~~~ia~~~------~~-~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~   74 (219)
T PF00308_consen    3 PKYTFDNFVVGESN-ELAYAAAKAIAENP------GE-RYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEE   74 (219)
T ss_dssp             TT-SCCCS--TTTT-HHHHHHHHHHHHST------TT-SSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHH
T ss_pred             CCCccccCCcCCcH-HHHHHHHHHHHhcC------CC-CCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHH
Confidence            34589998754432 23333344333321      21 22358999999999999999999875     45677776543

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=97.35  E-value=0.00034  Score=50.36  Aligned_cols=22  Identities=32%  Similarity=0.520  Sum_probs=20.3

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.+.|+||+|||++++++++.+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5678999999999999999996

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.

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=97.35  E-value=0.00056  Score=71.08  Aligned_cols=38  Identities=26%  Similarity=0.494  Sum_probs=29.7

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh----------CCcEEEEecCCCCCc
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL----------KFNIYDMELTSVYCN  283 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~~~  283 (288)
                      .++++||||||||.+++.+.++|          .+.++.|++..+.+.
T Consensus       783 vLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp  830 (1164)
T PTZ00112        783 ILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHP  830 (1164)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCH
Confidence            35699999999999999998877          255778887665443

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.33  E-value=0.00022  Score=73.19  Aligned_cols=66  Identities=23%  Similarity=0.366  Sum_probs=49.6

Q ss_pred             cccccChhhhHHHHHHHHHHhhcHHHHHHhCCccc----ceeEEEcCCCCChHHHHHHHHHHhC---CcEEEEecCCCCC
Q 045456          210 DKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWK----RGYLLFGPPGTGKSSLIAAMANYLK---FNIYDMELTSVYC  282 (288)
Q Consensus       210 ~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~----rg~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~~~~~~  282 (288)
                      ..|+|+++..+.|.+.+..        .+.|+.-+    ..+||.||+|+|||-+|+++|..|.   -.++.++.|+.+.
T Consensus       491 ~rViGQd~AV~avs~aIrr--------aRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~E  562 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRR--------ARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYME  562 (786)
T ss_pred             cceeChHHHHHHHHHHHHH--------HhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHH
Confidence            3456777777777776664        23344322    2378899999999999999999997   8999999988765


Q ss_pred             c
Q 045456          283 N  283 (288)
Q Consensus       283 ~  283 (288)
                      +
T Consensus       563 k  563 (786)
T COG0542         563 K  563 (786)
T ss_pred             H
Confidence            5

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=97.29  E-value=0.00055  Score=65.19  Aligned_cols=62  Identities=13%  Similarity=0.198  Sum_probs=46.3

Q ss_pred             cccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCc-----EEEEecCCCCC
Q 045456          212 IAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFN-----IYDMELTSVYC  282 (288)
Q Consensus       212 l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~-----i~~l~~~~~~~  282 (288)
                      +..-+++.+.+...+..++..         ..+..+++|||||||||.+++-+++++.-+     ++.||+-...+
T Consensus        19 l~~Re~ei~~l~~~l~~~~~~---------~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t   85 (366)
T COG1474          19 LPHREEEINQLASFLAPALRG---------ERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRT   85 (366)
T ss_pred             ccccHHHHHHHHHHHHHHhcC---------CCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCC
Confidence            666677777777766655543         224459999999999999999999999665     78888766554

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=97.27  E-value=0.00061  Score=67.81  Aligned_cols=66  Identities=18%  Similarity=0.200  Sum_probs=50.7

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCC
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYC  282 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  282 (288)
                      ..+|++++|.+...+.+.+.+.....           ....+||+|++||||+.+|++|....   +.||+.+++..+..
T Consensus       200 ~~~f~~~ig~s~~~~~~~~~~~~~A~-----------~~~pvlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~inca~~~~  268 (520)
T PRK10820        200 DSAFSQIVAVSPKMRQVVEQARKLAM-----------LDAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIPD  268 (520)
T ss_pred             cccccceeECCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeccccCCH
Confidence            34899999988877777666654332           13459999999999999999997664   36899999988753

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.26  E-value=0.00044  Score=69.61  Aligned_cols=71  Identities=18%  Similarity=0.264  Sum_probs=45.1

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-----CCcEEEEec
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-----KFNIYDMEL  277 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~  277 (288)
                      +....+|++++..+.-. .....+......      .+. +...++|||++|||||.|+.|||+++     ++.++.++.
T Consensus       281 L~~~~TFDnFvvG~sN~-~A~aaa~avae~------~~~-~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita  352 (617)
T PRK14086        281 LNPKYTFDTFVIGASNR-FAHAAAVAVAEA------PAK-AYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS  352 (617)
T ss_pred             CCCCCCHhhhcCCCccH-HHHHHHHHHHhC------ccc-cCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH
Confidence            34446899987554322 122222222221      122 22458999999999999999999987     567788877


Q ss_pred             CCCC
Q 045456          278 TSVY  281 (288)
Q Consensus       278 ~~~~  281 (288)
                      .++.
T Consensus       353 eef~  356 (617)
T PRK14086        353 EEFT  356 (617)
T ss_pred             HHHH
Confidence            6543

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=97.26  E-value=0.00073  Score=63.45  Aligned_cols=58  Identities=17%  Similarity=0.261  Sum_probs=42.2

Q ss_pred             ccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC---CcEEEEecCCCC
Q 045456          213 AMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK---FNIYDMELTSVY  281 (288)
Q Consensus       213 ~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~~~~~  281 (288)
                      +|.....+.+.+.+.....           ....+||.|++||||+++|++|.....   .||+.|+++.+.
T Consensus         2 iG~S~~m~~~~~~~~~~a~-----------~~~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~   62 (329)
T TIGR02974         2 IGESNAFLEVLEQVSRLAP-----------LDRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALS   62 (329)
T ss_pred             CcCCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCC
Confidence            4445555555555554332           244699999999999999999987654   699999998764

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>PLN02199 shikimate kinase

Probab=97.24  E-value=0.0003  Score=64.84  Aligned_cols=34  Identities=26%  Similarity=0.503  Sum_probs=31.2

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEec
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMEL  277 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  277 (288)
                      .+.++|.|++|||||++++.+|+.+|+++++.+.
T Consensus       102 ~~~I~LIG~~GSGKSTVgr~LA~~Lg~~fIDtD~  135 (303)
T PLN02199        102 GRSMYLVGMMGSGKTTVGKLMSKVLGYTFFDCDT  135 (303)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEehHH
Confidence            4579999999999999999999999999998763

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=97.22  E-value=0.00078  Score=66.88  Aligned_cols=64  Identities=11%  Similarity=0.099  Sum_probs=52.1

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCC
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYC  282 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  282 (288)
                      .+++++|.....+.+.+.+.....           ....+||+|++||||+.+|++|....   +.|++.+++..+.+
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~a~-----------~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~~~~  251 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVVAA-----------SDLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPE  251 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHHhC-----------CCCcEEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEcccCCh
Confidence            567899998888888887776432           24569999999999999999999875   47999999988753

>PF13173 AAA_14: AAA domain

Probab=97.22  E-value=0.00045  Score=55.58  Aligned_cols=38  Identities=29%  Similarity=0.407  Sum_probs=32.0

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC--CcEEEEecCCCCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK--FNIYDMELTSVYC  282 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~--~~i~~l~~~~~~~  282 (288)
                      +-++|+||.|||||++++.+++.+.  ..+..+++.+...
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~   42 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRD   42 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHH
Confidence            4578999999999999999999887  7888888776543

>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A

Probab=97.21  E-value=0.00029  Score=62.91  Aligned_cols=42  Identities=26%  Similarity=0.272  Sum_probs=34.5

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCccc
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSE  285 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~  285 (288)
                      ..|-.++||+|||||.+++++|+.+|.+++.++.++-.+-..
T Consensus        32 ~~~~~~~GpagtGKtetik~La~~lG~~~~vfnc~~~~~~~~   73 (231)
T PF12774_consen   32 NLGGALSGPAGTGKTETIKDLARALGRFVVVFNCSEQMDYQS   73 (231)
T ss_dssp             TTEEEEESSTTSSHHHHHHHHHHCTT--EEEEETTSSS-HHH
T ss_pred             CCCCCCcCCCCCCchhHHHHHHHHhCCeEEEecccccccHHH
Confidence            457789999999999999999999999999999988766443

>PRK06696 uridine kinase; Validated

Probab=97.20  E-value=0.001  Score=58.70  Aligned_cols=37  Identities=11%  Similarity=0.150  Sum_probs=30.7

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVY  281 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~  281 (288)
                      .-+.+.|+||+||||+|+.||..|   |.+++.++..+..
T Consensus        23 ~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~~Ddf~   62 (223)
T PRK06696         23 LRVAIDGITASGKTTFADELAEEIKKRGRPVIRASIDDFH   62 (223)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecccccc
Confidence            346789999999999999999999   7788887765553

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.11  E-value=0.00057  Score=55.91  Aligned_cols=27  Identities=30%  Similarity=0.421  Sum_probs=24.3

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      .-++|.|+.|+|||++++++++.+|.+
T Consensus        23 ~~i~l~G~lGaGKTtl~~~l~~~lg~~   49 (133)
T TIGR00150        23 TVVLLKGDLGAGKTTLVQGLLQGLGIQ   49 (133)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcCCC
Confidence            347899999999999999999999864

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>PLN02674 adenylate kinase

Probab=97.10  E-value=0.00054  Score=61.67  Aligned_cols=32  Identities=22%  Similarity=0.455  Sum_probs=27.3

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEE
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDM  275 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  275 (288)
                      ...++|.||||+||+|.++.||..+|++.+..
T Consensus        31 ~~~i~l~G~PGsGKgT~a~~La~~~~~~his~   62 (244)
T PLN02674         31 DKRLILIGPPGSGKGTQSPIIKDEYCLCHLAT   62 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHcCCcEEch
Confidence            34589999999999999999999999766543

>cd01394 radB RadB

Probab=97.07  E-value=0.001  Score=58.23  Aligned_cols=40  Identities=23%  Similarity=0.351  Sum_probs=31.5

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      |++..+-++++||||+|||+++..+|.++   |.+++.++...
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~e~   57 (218)
T cd01394          15 GVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTEG   57 (218)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEECCC
Confidence            56555558899999999999999998765   56777776643

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=97.06  E-value=0.0012  Score=55.70  Aligned_cols=27  Identities=37%  Similarity=0.596  Sum_probs=23.1

Q ss_pred             ccceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          243 WKRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       243 ~~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .+..+||+||+|+||+++|.++|+.+-
T Consensus        18 l~ha~L~~G~~g~gk~~~a~~~a~~ll   44 (162)
T PF13177_consen   18 LPHALLFHGPSGSGKKTLALAFARALL   44 (162)
T ss_dssp             --SEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHHHc
Confidence            456799999999999999999998873

...

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=97.05  E-value=0.0012  Score=61.12  Aligned_cols=25  Identities=28%  Similarity=0.583  Sum_probs=23.2

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      ++++++.||+|+||||+++++++++
T Consensus       132 ~~~ilI~G~tGSGKTTll~al~~~i  156 (299)
T TIGR02782       132 RKNILVVGGTGSGKTTLANALLAEI  156 (299)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999999987

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=97.03  E-value=0.0013  Score=60.05  Aligned_cols=62  Identities=27%  Similarity=0.405  Sum_probs=33.5

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCc---EEEEecCC
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFN---IYDMELTS  279 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~---i~~l~~~~  279 (288)
                      ..|.++..+...-.+....++.++..           .+.+||.||+|||||++++..-..+.-.   +..++.+.
T Consensus         7 ~~~~~~~VpT~dt~r~~~ll~~l~~~-----------~~pvLl~G~~GtGKT~li~~~l~~l~~~~~~~~~~~~s~   71 (272)
T PF12775_consen    7 MPFNEILVPTVDTVRYSYLLDLLLSN-----------GRPVLLVGPSGTGKTSLIQNFLSSLDSDKYLVITINFSA   71 (272)
T ss_dssp             ------T---HHHHHHHHHHHHHHHC-----------TEEEEEESSTTSSHHHHHHHHHHCSTTCCEEEEEEES-T
T ss_pred             cccceEEeCcHHHHHHHHHHHHHHHc-----------CCcEEEECCCCCchhHHHHhhhccCCccccceeEeeccC
Confidence            45566655544444444444444432           5679999999999999998877665433   33444444

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=97.02  E-value=0.00084  Score=60.82  Aligned_cols=61  Identities=23%  Similarity=0.386  Sum_probs=41.9

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCc---EEEEe
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFN---IYDME  276 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~---i~~l~  276 (288)
                      .+.++++++......+.+.+.+...+           ...+.+++.||+|+|||++++++..++...   ++.++
T Consensus        99 ~~~sle~l~~~~~~~~~~~~~l~~~v-----------~~~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iE  162 (270)
T PF00437_consen   99 KPFSLEDLGESGSIPEEIAEFLRSAV-----------RGRGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIE  162 (270)
T ss_dssp             S--CHCCCCHTHHCHHHHHHHHHHCH-----------HTTEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEE
T ss_pred             ccccHhhccCchhhHHHHHHHHhhcc-----------ccceEEEEECCCccccchHHHHHhhhccccccceEEec
Confidence            34488888777666655555444322           225579999999999999999999988544   45544

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=97.02  E-value=0.00069  Score=55.22  Aligned_cols=46  Identities=30%  Similarity=0.358  Sum_probs=32.3

Q ss_pred             cChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          214 MDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       214 ~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      |.....+++.+.++....           ....++|+|+|||||+++|++|....+.
T Consensus         2 G~S~~~~~l~~~l~~~a~-----------~~~pvli~GE~GtGK~~~A~~lh~~~~~   47 (138)
T PF14532_consen    2 GKSPAMRRLRRQLERLAK-----------SSSPVLITGEPGTGKSLLARALHRYSGR   47 (138)
T ss_dssp             -SCHHHHHHHHHHHHHHC-----------SSS-EEEECCTTSSHHHHHHCCHHTTTT
T ss_pred             CCCHHHHHHHHHHHHHhC-----------CCCcEEEEcCCCCCHHHHHHHHHhhcCc
Confidence            334455566665655442           2456999999999999999999988764

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.01  E-value=0.002  Score=58.86  Aligned_cols=36  Identities=28%  Similarity=0.304  Sum_probs=28.7

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      ++-++|.||||+||||++..+|..+   |..+..++...
T Consensus        72 ~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~  110 (272)
T TIGR00064        72 PNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDT  110 (272)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCC
Confidence            4567889999999999999999877   66677666553

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.

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=97.01  E-value=0.00092  Score=58.87  Aligned_cols=40  Identities=23%  Similarity=0.295  Sum_probs=30.0

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh----CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL----KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~~  279 (288)
                      |++...-+|+.||||||||+++..++...    |.+++.++..+
T Consensus        15 Gip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee   58 (226)
T PF06745_consen   15 GIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEE   58 (226)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS
T ss_pred             CCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecC
Confidence            66666669999999999999988766433    78888887654

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 ....

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=96.98  E-value=0.0012  Score=63.35  Aligned_cols=69  Identities=14%  Similarity=0.171  Sum_probs=53.4

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----CCcEEEEecCCCC
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----KFNIYDMELTSVY  281 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~~~~  281 (288)
                      ...+++|+|.+..-+++++.++.       |.    +....+|++|++||||+.+|++|....    +.||+.+|++.+.
T Consensus        74 ~~~~~~LIG~~~~~~~~~eqik~-------~a----p~~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~~  142 (403)
T COG1221          74 SEALDDLIGESPSLQELREQIKA-------YA----PSGLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYS  142 (403)
T ss_pred             chhhhhhhccCHHHHHHHHHHHh-------hC----CCCCcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHHHhC
Confidence            34788999988877777776665       21    223459999999999999999998553    5699999999887


Q ss_pred             Cccc
Q 045456          282 CNSE  285 (288)
Q Consensus       282 ~~~~  285 (288)
                      .+..
T Consensus       143 en~~  146 (403)
T COG1221         143 ENLQ  146 (403)
T ss_pred             cCHH
Confidence            7753

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=96.98  E-value=0.0017  Score=63.96  Aligned_cols=68  Identities=21%  Similarity=0.237  Sum_probs=53.9

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCC
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSV  280 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  280 (288)
                      ..+.+|++|++......++++.++.+-.           -.-.+|+.|.+||||..+|++|.+..   +-||+.+|+..+
T Consensus       239 ~a~y~f~~Iig~S~~m~~~~~~akr~A~-----------tdstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAi  307 (560)
T COG3829         239 KAKYTFDDIIGESPAMLRVLELAKRIAK-----------TDSTVLILGESGTGKELFARAIHNLSPRANGPFIAINCAAI  307 (560)
T ss_pred             ccccchhhhccCCHHHHHHHHHHHhhcC-----------CCCcEEEecCCCccHHHHHHHHHhcCcccCCCeEEEecccC
Confidence            3456899999998887777665554332           24569999999999999999999876   579999999876


Q ss_pred             CC
Q 045456          281 YC  282 (288)
Q Consensus       281 ~~  282 (288)
                      -.
T Consensus       308 Pe  309 (560)
T COG3829         308 PE  309 (560)
T ss_pred             CH
Confidence            43

>PLN02459 probable adenylate kinase

Probab=96.95  E-value=0.00094  Score=60.64  Aligned_cols=30  Identities=20%  Similarity=0.472  Sum_probs=26.1

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCcEEEE
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFNIYDM  275 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l  275 (288)
                      .++|.||||+|||++++.+|+.+|++.+..
T Consensus        31 ~ii~~G~PGsGK~T~a~~la~~~~~~~is~   60 (261)
T PLN02459         31 NWVFLGCPGVGKGTYASRLSKLLGVPHIAT   60 (261)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeC
Confidence            378899999999999999999999776643

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=96.95  E-value=0.0014  Score=62.37  Aligned_cols=23  Identities=39%  Similarity=0.587  Sum_probs=21.3

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -+++.||+|+||||+++++++++
T Consensus       136 lilI~GpTGSGKTTtL~aLl~~i  158 (358)
T TIGR02524       136 IVFITGATGSGKSTLLAAIIREL  158 (358)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47889999999999999999987

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.95  E-value=0.0014  Score=56.17  Aligned_cols=26  Identities=27%  Similarity=0.675  Sum_probs=23.2

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      ...+++.||+|+||||+++++++.+.
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i~   50 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFIP   50 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            45689999999999999999998875

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>PRK13764 ATPase; Provisional

Probab=96.94  E-value=0.001  Score=67.11  Aligned_cols=26  Identities=38%  Similarity=0.767  Sum_probs=24.0

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      ++++|+.||||+||||+++|++.++.
T Consensus       257 ~~~ILIsG~TGSGKTTll~AL~~~i~  282 (602)
T PRK13764        257 AEGILIAGAPGAGKSTFAQALAEFYA  282 (602)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHh
Confidence            56899999999999999999998885

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.94  E-value=0.0012  Score=59.94  Aligned_cols=40  Identities=20%  Similarity=0.089  Sum_probs=30.4

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHH---hCCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANY---LKFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~---l~~~i~~l~~~~  279 (288)
                      |++...-++++||||||||+++..+|..   -|.++..++..+
T Consensus        32 Gip~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~Ee   74 (259)
T TIGR03878        32 GIPAYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVES   74 (259)
T ss_pred             CeECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecC
Confidence            5555555899999999999999887654   366777777653

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.94  E-value=0.0014  Score=64.33  Aligned_cols=33  Identities=36%  Similarity=0.521  Sum_probs=30.1

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCcEEEEec
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFNIYDMEL  277 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  277 (288)
                      ..+||+||||+|||.||.-||...++||+.+=.
T Consensus       539 vSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiS  571 (744)
T KOG0741|consen  539 VSVLLEGPPGSGKTALAAKIALSSDFPFVKIIS  571 (744)
T ss_pred             eEEEEecCCCCChHHHHHHHHhhcCCCeEEEeC
Confidence            459999999999999999999999999998744

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=96.94  E-value=0.0025  Score=55.31  Aligned_cols=34  Identities=38%  Similarity=0.561  Sum_probs=25.1

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      +-.++.||||||||+++++++..+   |..++.+..+
T Consensus        19 ~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT   55 (196)
T PF13604_consen   19 RVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPT   55 (196)
T ss_dssp             SEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESS
T ss_pred             eEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCc
Confidence            457789999999999999887665   5666666544

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.93  E-value=0.0016  Score=57.84  Aligned_cols=40  Identities=25%  Similarity=0.260  Sum_probs=32.2

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHH---hCCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANY---LKFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~---l~~~i~~l~~~~  279 (288)
                      |++...-++++||||||||+++..++.+   .|.+++.++..+
T Consensus        21 G~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~   63 (234)
T PRK06067         21 GIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTEN   63 (234)
T ss_pred             CCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCC
Confidence            6666666899999999999999999754   377888887643

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=96.93  E-value=0.0014  Score=59.18  Aligned_cols=40  Identities=23%  Similarity=0.228  Sum_probs=32.2

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      |++..+-+|++|+||||||+++...+...   |.|++.++..+
T Consensus        19 G~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e   61 (260)
T COG0467          19 GLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEE   61 (260)
T ss_pred             CCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecC
Confidence            66766779999999999999987776543   77888887765

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.92  E-value=0.0015  Score=58.31  Aligned_cols=40  Identities=28%  Similarity=0.201  Sum_probs=31.0

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHH---hCCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANY---LKFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~---l~~~i~~l~~~~  279 (288)
                      |++....+|++||||||||+++..++.+   -|.+.+.++..+
T Consensus        17 G~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~ee   59 (237)
T TIGR03877        17 GIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALEE   59 (237)
T ss_pred             CCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEeeC
Confidence            7776667999999999999998865543   367787777654

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.

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=96.92  E-value=0.0018  Score=58.26  Aligned_cols=24  Identities=33%  Similarity=0.490  Sum_probs=22.2

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -++|+||||+|||++++.+++.+.
T Consensus        45 ~~~l~G~~G~GKTtl~~~l~~~l~   68 (269)
T TIGR03015        45 FILITGEVGAGKTTLIRNLLKRLD   68 (269)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcC
Confidence            378999999999999999999986

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.91  E-value=0.0016  Score=57.24  Aligned_cols=39  Identities=21%  Similarity=0.341  Sum_probs=31.7

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      |++...-++++||||+|||+++..+|.+.   +.+++.++..
T Consensus        19 Gi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e   60 (225)
T PRK09361         19 GFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE   60 (225)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence            56555558899999999999999998754   7788888876

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.90  E-value=0.0022  Score=62.54  Aligned_cols=37  Identities=22%  Similarity=0.396  Sum_probs=30.2

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSV  280 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  280 (288)
                      +.-++|+||||+|||+++..+|..+   |..+..++....
T Consensus        95 p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~  134 (437)
T PRK00771         95 PQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTY  134 (437)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCC
Confidence            5568899999999999999999877   566777766543

>PRK05973 replicative DNA helicase; Provisional

Probab=96.86  E-value=0.0017  Score=58.28  Aligned_cols=40  Identities=23%  Similarity=-0.032  Sum_probs=30.4

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      |++...-+++.|+||+|||+++..+|.+.   |.+++.+++.+
T Consensus        60 Gl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlEe  102 (237)
T PRK05973         60 QLKPGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLEY  102 (237)
T ss_pred             CCCCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEeC
Confidence            55555558899999999999888776644   77877777654

>PLN02165 adenylate isopentenyltransferase

Probab=96.84  E-value=0.0011  Score=62.21  Aligned_cols=31  Identities=26%  Similarity=0.441  Sum_probs=27.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCcEEEEe
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFNIYDME  276 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  276 (288)
                      -+.|.||+|+|||+++..||..++..++..+
T Consensus        45 iivIiGPTGSGKStLA~~LA~~l~~eIIsaD   75 (334)
T PLN02165         45 VVVIMGATGSGKSRLSVDLATRFPSEIINSD   75 (334)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHcCCceecCC
Confidence            4789999999999999999999998776654

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.83  E-value=0.0026  Score=59.46  Aligned_cols=34  Identities=21%  Similarity=0.193  Sum_probs=27.2

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      .-++|.||||+||||++..+|..+   |..+..++..
T Consensus       115 ~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D  151 (318)
T PRK10416        115 FVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGD  151 (318)
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecC
Confidence            447799999999999999999887   4556666543

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.82  E-value=0.0027  Score=58.28  Aligned_cols=35  Identities=23%  Similarity=0.345  Sum_probs=28.7

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh----C-CcEEEEecCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL----K-FNIYDMELTS  279 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l----~-~~i~~l~~~~  279 (288)
                      +-++|.||+|+||||++..+|..+    | ..+..++...
T Consensus       195 ~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~  234 (282)
T TIGR03499       195 GVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDT  234 (282)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCc
Confidence            347899999999999999999876    3 6777777654

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=96.80  E-value=0.0029  Score=57.61  Aligned_cols=55  Identities=25%  Similarity=0.410  Sum_probs=39.2

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccce-eEEEcCCCCChHHHHHHHHHHhC---CcEEEEe
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRG-YLLFGPPGTGKSSLIAAMANYLK---FNIYDME  276 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg-~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~  276 (288)
                      .++++++..++..+.+.+.+.               .++| +++.||+|+||||+++++..++.   ..++.++
T Consensus        57 ~~l~~lg~~~~~~~~l~~~~~---------------~~~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiE  115 (264)
T cd01129          57 LDLEKLGLKPENLEIFRKLLE---------------KPHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVE  115 (264)
T ss_pred             CCHHHcCCCHHHHHHHHHHHh---------------cCCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEEC
Confidence            478888887776666544332               1334 78999999999999999987774   3355553

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=96.80  E-value=0.0026  Score=59.58  Aligned_cols=25  Identities=24%  Similarity=0.453  Sum_probs=23.0

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      ++++|+.||+|+||||++++++.++
T Consensus       144 ~~nilI~G~tGSGKTTll~aL~~~i  168 (323)
T PRK13833        144 RLNIVISGGTGSGKTTLANAVIAEI  168 (323)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4679999999999999999999986

>TIGR00368 Mg chelatase-related protein

Probab=96.80  E-value=0.00082  Score=66.53  Aligned_cols=47  Identities=30%  Similarity=0.423  Sum_probs=35.1

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      ..|+++.|+...++.+.-.+               .-...++|.||||||||+++++|++.+
T Consensus       189 ~d~~dv~Gq~~~~~al~~aa---------------~~g~~vlliG~pGsGKTtlar~l~~ll  235 (499)
T TIGR00368       189 LDLKDIKGQQHAKRALEIAA---------------AGGHNLLLFGPPGSGKTMLASRLQGIL  235 (499)
T ss_pred             CCHHHhcCcHHHHhhhhhhc---------------cCCCEEEEEecCCCCHHHHHHHHhccc
Confidence            47899999877765443321               112469999999999999999999754

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=96.80  E-value=0.0026  Score=60.76  Aligned_cols=31  Identities=32%  Similarity=0.347  Sum_probs=25.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC-----CcEEEEe
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK-----FNIYDME  276 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~-----~~i~~l~  276 (288)
                      .+|+.||+|+||||++++++.++.     ..++.++
T Consensus       151 lilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiE  186 (372)
T TIGR02525       151 LGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYE  186 (372)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEe
Confidence            478899999999999999998873     3566664

Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).

>PF00519 PPV_E1_C: Papillomavirus helicase; InterPro: IPR001177 Papillomaviruses are a large family of DNA tumour viruses which give rise to warts in their host species

Probab=96.79  E-value=0.0031  Score=60.10  Aligned_cols=36  Identities=31%  Similarity=0.574  Sum_probs=31.2

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEE
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDM  275 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  275 (288)
                      |+|-+..+++||||.||||+++-.+-+.++-.++..
T Consensus       258 g~PKKnClvi~GPPdTGKS~F~~SLi~Fl~GkViSf  293 (432)
T PF00519_consen  258 GIPKKNCLVIYGPPDTGKSMFCMSLIKFLKGKVISF  293 (432)
T ss_dssp             TBTTSSEEEEESSCCCSHHHHHHHHHHHHTSEEE-G
T ss_pred             CCCcccEEEEECCCCCchhHHHHHHHHHhCCEEEEe
Confidence            778778899999999999999999999998777653

The helicase E1 protein is an ATP-dependent DNA helicase required for initiation of viral DNA replication []. It forms a complex with the viral E2 protein, which is a site-specific DNA-binding transcriptional activator. The E1-E2 complex binds to the replication origin which contains binding sites for both proteins []. The E1 protein is a 70 kDa polypeptide with a central DNA-binding domain and a C-terminal ATPase/helicase domain. It binds specific 18 bp DNA sequences at the origin of replication, melts the DNA duplex and functions as a 3' to 5' helicase []. In addition to E2 it also interacts with DNA polymerase alpha and replication protein A to effect DNA replication. The DNA-binding domain forms a five-stranded antiparallel beta sheet bordered by four loosely packed alpha helices on one side and two tightly packed helices on the other []. Two structural modules within this domain, an extended loop and a helix, contain conserved residues and are critical for DNA binding. In solution E1 is a monomer, but binds DNA as a dimer. Recruitment of more E1 subunits to the complex leads to melting of the origin and ultimately to the formation of an E1 hexamer with helicase activity []. The entry represents the C-terminal region of E1, containing both the DNA-binding and ATPase/helical domains.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1TUE_K 1R9W_A 2V9P_B 2GXA_I 1KSX_J 1KSY_A 1F08_B.

>KOG1968 consensus Replication factor C, subunit RFC1 (large subunit) [Replication, recombination and repair]

Probab=96.77  E-value=0.00086  Score=70.10  Aligned_cols=90  Identities=22%  Similarity=0.358  Sum_probs=64.6

Q ss_pred             CCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhc-HHHHHHhCCcc-cc-eeEEEcCCCCChHHHHHHHHHHhCCcE
Q 045456          196 GAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKR-RNFYRRVGKVW-KR-GYLLFGPPGTGKSSLIAAMANYLKFNI  272 (288)
Q Consensus       196 ~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~-~~~~~~~g~~~-~r-g~LL~GPpGtGKTsla~aiA~~l~~~i  272 (288)
                      ..|.  ..+.|....++.+....-..+.+.+..+-+. +.-|...+..- .+ .+|+.||||.|||+.+.+.|.++|+.+
T Consensus       308 ~~~~--~k~~p~~~k~~~~~~~~~~~~~~~l~~~k~~~~~sy~~~~~~ss~~~~~l~~G~pGigKT~~~h~~~k~~g~~v  385 (871)
T KOG1968|consen  308 AGWT--EKYQPTSSKALEGNASSSKKASKWLAKSKDKEKSSYKENEPDSSKKKALLLSGPPGIGKTTAAHKAAKELGFKV  385 (871)
T ss_pred             cccc--cccccccHHhhhcccchhhhhhhHHHhhhccccccccccCcchhhHHHHHhcCCCCCCchhhHhhhhhhcccce
Confidence            3564  5778888888888877766666666654211 11122111111 12 268999999999999999999999999


Q ss_pred             EEEecCCCCCccccc
Q 045456          273 YDMELTSVYCNSELR  287 (288)
Q Consensus       273 ~~l~~~~~~~~~~l~  287 (288)
                      +..|.++.+++.+|+
T Consensus       386 ~E~Nas~~RSk~~l~  400 (871)
T KOG1968|consen  386 VEKNASDVRSKKELL  400 (871)
T ss_pred             eecCccccccccHHH
Confidence            999999999988764

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.77  E-value=0.0025  Score=56.75  Aligned_cols=39  Identities=23%  Similarity=0.182  Sum_probs=27.5

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      |++...-+++.||||||||+++..++..+   |..+..++..
T Consensus        20 gi~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e   61 (230)
T PRK08533         20 GIPAGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQ   61 (230)
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCC
Confidence            45555568999999999999975554433   5666666643

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.77  E-value=0.0022  Score=56.60  Aligned_cols=40  Identities=20%  Similarity=0.180  Sum_probs=30.4

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---------CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---------KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~~  279 (288)
                      |++...-+.++||||||||+++..+|...         +..++.++..+
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~   63 (235)
T cd01123          15 GIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEG   63 (235)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCC
Confidence            55555558899999999999999998543         25677777655

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 .

>TIGR00376 DNA helicase, putative

Probab=96.76  E-value=0.0025  Score=64.98  Aligned_cols=35  Identities=26%  Similarity=0.536  Sum_probs=27.0

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      ..++++||||||||+++.++..++   |..++.+..+.
T Consensus       174 ~~~lI~GpPGTGKT~t~~~ii~~~~~~g~~VLv~a~sn  211 (637)
T TIGR00376       174 DLFLIHGPPGTGKTRTLVELIRQLVKRGLRVLVTAPSN  211 (637)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCcH
Confidence            357899999999999988877765   66777666443

The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.

>PTZ00202 tuzin; Provisional

Probab=96.74  E-value=0.004  Score=60.58  Aligned_cols=63  Identities=19%  Similarity=0.171  Sum_probs=46.5

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecC
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELT  278 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  278 (288)
                      |....+++|-++...++.+.+..          .....++-+.|.||+|||||++++.++..++.+.|.++..
T Consensus       258 Pa~~~~FVGReaEla~Lr~VL~~----------~d~~~privvLtG~~G~GKTTLlR~~~~~l~~~qL~vNpr  320 (550)
T PTZ00202        258 PAVIRQFVSREAEESWVRQVLRR----------LDTAHPRIVVFTGFRGCGKSSLCRSAVRKEGMPAVFVDVR  320 (550)
T ss_pred             CCCccCCCCcHHHHHHHHHHHhc----------cCCCCceEEEEECCCCCCHHHHHHHHHhcCCceEEEECCC
Confidence            44566777777666666554432          2223345577999999999999999999999998888876

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.71  E-value=0.0028  Score=55.81  Aligned_cols=39  Identities=21%  Similarity=0.083  Sum_probs=29.2

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      |++...-+++.||||||||+++..++...   |.+++.++..
T Consensus        16 Gi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e   57 (229)
T TIGR03881        16 GIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTE   57 (229)
T ss_pred             CCcCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEcc
Confidence            56655668999999999999998776432   5567666653

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.

>PRK04220 2-phosphoglycerate kinase; Provisional

Probab=96.71  E-value=0.0044  Score=57.42  Aligned_cols=29  Identities=24%  Similarity=0.279  Sum_probs=25.9

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcE
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNI  272 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i  272 (288)
                      |--+++.||+|||||++|..+|..+|.+.
T Consensus        92 p~iIlI~G~sgsGKStlA~~La~~l~~~~  120 (301)
T PRK04220         92 PIIILIGGASGVGTSTIAFELASRLGIRS  120 (301)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            34588999999999999999999999883

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=96.68  E-value=0.0029  Score=62.47  Aligned_cols=56  Identities=25%  Similarity=0.413  Sum_probs=40.9

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccce-eEEEcCCCCChHHHHHHHHHHhCC---cEEEEe
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRG-YLLFGPPGTGKSSLIAAMANYLKF---NIYDME  276 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg-~LL~GPpGtGKTsla~aiA~~l~~---~i~~l~  276 (288)
                      +.++++++..+++.+.+.+.+.               .++| +++.||+|+||||+..++.+++..   .++.++
T Consensus       218 ~~~l~~Lg~~~~~~~~l~~~~~---------------~~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTiE  277 (486)
T TIGR02533       218 RLDLETLGMSPELLSRFERLIR---------------RPHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTVE  277 (486)
T ss_pred             CCCHHHcCCCHHHHHHHHHHHh---------------cCCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEEc
Confidence            4588999888877766655333               2456 678999999999999988887753   355554

This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.68  E-value=0.002  Score=65.27  Aligned_cols=63  Identities=21%  Similarity=0.288  Sum_probs=42.1

Q ss_pred             cccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC----cEEEEecCCCCCc
Q 045456          210 DKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF----NIYDMELTSVYCN  283 (288)
Q Consensus       210 ~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~----~i~~l~~~~~~~~  283 (288)
                      .+++..+..|++..+....+           +..+..+||+||+|||||.|++++++++..    .+..++++.+...
T Consensus       408 ~d~i~~~s~kke~~n~~~sp-----------v~~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~  474 (952)
T KOG0735|consen  408 HDFIQVPSYKKENANQELSP-----------VFRHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGS  474 (952)
T ss_pred             Cceeecchhhhhhhhhhccc-----------ccccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccch
Confidence            55555666666544422211           233556999999999999999999999864    4556666665443

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=96.68  E-value=0.0031  Score=53.93  Aligned_cols=37  Identities=24%  Similarity=0.411  Sum_probs=32.9

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYC  282 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  282 (288)
                      -+.|.|.+|.||||+|.|+++.|   |+..|.+++..+..
T Consensus        25 viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~LDGDnvR~   64 (197)
T COG0529          25 VIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDGDNVRH   64 (197)
T ss_pred             EEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEecChhHhh
Confidence            46689999999999999999887   89999999987754

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.67  E-value=0.0037  Score=60.67  Aligned_cols=36  Identities=19%  Similarity=0.331  Sum_probs=29.5

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      +.-++|.||+|+||||++..+|..+   |..+..+++..
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~  138 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADT  138 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcc
Confidence            3458899999999999999999877   77777776643

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.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.65  E-value=0.0048  Score=59.22  Aligned_cols=36  Identities=36%  Similarity=0.642  Sum_probs=28.6

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh-------CCcEEEEecCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL-------KFNIYDMELTS  279 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l-------~~~i~~l~~~~  279 (288)
                      ++-++|+||+|+||||++.-+|..+       |..+..++...
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt  216 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDN  216 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccC
Confidence            4568899999999999999999876       35666666654

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=96.65  E-value=0.0031  Score=58.07  Aligned_cols=50  Identities=22%  Similarity=0.225  Sum_probs=39.8

Q ss_pred             ccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccce--eEEEcCCCCChHHHHHHHHHHh
Q 045456          211 KIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRG--YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       211 ~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg--~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .|.|+.-+++.|...+..++.++.        +.+.  +-|||+|||||+..++.||+.+
T Consensus        83 ~lfGQHla~~~Vv~alk~~~~n~~--------p~KPLvLSfHG~tGTGKN~Va~iiA~n~  134 (344)
T KOG2170|consen   83 ALFGQHLAKQLVVNALKSHWANPN--------PRKPLVLSFHGWTGTGKNYVAEIIAENL  134 (344)
T ss_pred             HhhchHHHHHHHHHHHHHHhcCCC--------CCCCeEEEecCCCCCchhHHHHHHHHHH
Confidence            457788888999999988887532        3334  4489999999999999999876

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.64  E-value=0.0026  Score=62.78  Aligned_cols=39  Identities=21%  Similarity=0.166  Sum_probs=31.5

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHH----hCCcEEEEecC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANY----LKFNIYDMELT  278 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~----l~~~i~~l~~~  278 (288)
                      |++..+.+|+.||||||||++|..++.+    .|-+.+.++..
T Consensus        17 Glp~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e   59 (484)
T TIGR02655        17 GLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE   59 (484)
T ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe
Confidence            6777777999999999999999987433    36788877765

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.

>PRK10867 signal recognition particle protein; Provisional

Probab=96.63  E-value=0.004  Score=60.61  Aligned_cols=38  Identities=21%  Similarity=0.327  Sum_probs=30.0

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh----CCcEEEEecCCCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL----KFNIYDMELTSVY  281 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~~~~  281 (288)
                      +.-+++.||||+||||++.-+|..+    |..+..+++...+
T Consensus       100 p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R  141 (433)
T PRK10867        100 PTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYR  141 (433)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccc
Confidence            4568899999999999888888765    6777777776443

>PRK10436 hypothetical protein; Provisional

Probab=96.63  E-value=0.0044  Score=60.85  Aligned_cols=56  Identities=25%  Similarity=0.444  Sum_probs=40.4

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccce-eEEEcCCCCChHHHHHHHHHHhCC---cEEEEe
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRG-YLLFGPPGTGKSSLIAAMANYLKF---NIYDME  276 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg-~LL~GPpGtGKTsla~aiA~~l~~---~i~~l~  276 (288)
                      +.+++++++.++..+.+.+.+..               ++| +|+.||+|+||||+..++.++++.   .++.++
T Consensus       194 ~~~L~~LG~~~~~~~~l~~~~~~---------------~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~TiE  253 (462)
T PRK10436        194 ALDLETLGMTPAQLAQFRQALQQ---------------PQGLILVTGPTGSGKTVTLYSALQTLNTAQINICSVE  253 (462)
T ss_pred             CCCHHHcCcCHHHHHHHHHHHHh---------------cCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEEec
Confidence            34889999888777666654331               445 678999999999999888777743   355544

>PRK12337 2-phosphoglycerate kinase; Provisional

Probab=96.62  E-value=0.0048  Score=60.26  Aligned_cols=28  Identities=36%  Similarity=0.385  Sum_probs=25.8

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.-+++.|+||||||+++..+|..++..
T Consensus       255 p~vil~~G~~G~GKSt~a~~LA~~lg~~  282 (475)
T PRK12337        255 PLHVLIGGVSGVGKSVLASALAYRLGIT  282 (475)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCCc
Confidence            5668899999999999999999999986

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.61  E-value=0.0026  Score=59.72  Aligned_cols=27  Identities=26%  Similarity=0.379  Sum_probs=24.4

Q ss_pred             ccceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          243 WKRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       243 ~~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .+..+||+||+|+|||++|+++|+.+.
T Consensus        20 ~~hA~Lf~G~~G~GK~~la~~~a~~ll   46 (325)
T PRK08699         20 RPNAWLFAGKKGIGKTAFARFAAQALL   46 (325)
T ss_pred             cceEEEeECCCCCCHHHHHHHHHHHHc
Confidence            456899999999999999999999975

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=96.61  E-value=0.0012  Score=62.44  Aligned_cols=29  Identities=34%  Similarity=0.641  Sum_probs=23.4

Q ss_pred             cccce--eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          242 VWKRG--YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..++|  +-|.||+||||||+.++||+...-
T Consensus        27 ~i~~Gef~~lLGPSGcGKTTlLR~IAGfe~p   57 (352)
T COG3842          27 DIKKGEFVTLLGPSGCGKTTLLRMIAGFEQP   57 (352)
T ss_pred             eecCCcEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            34556  558999999999999999987643

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.60  E-value=0.0011  Score=59.52  Aligned_cols=31  Identities=32%  Similarity=0.527  Sum_probs=25.1

Q ss_pred             Ccccce--eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          241 KVWKRG--YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       241 ~~~~rg--~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      ....+|  +-+.||+||||||+.+.||+.....
T Consensus        24 L~v~~GEfvsilGpSGcGKSTLLriiAGL~~p~   56 (248)
T COG1116          24 LSVEKGEFVAILGPSGCGKSTLLRLIAGLEKPT   56 (248)
T ss_pred             eEECCCCEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            344555  7789999999999999999877544

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=96.60  E-value=0.0039  Score=54.83  Aligned_cols=40  Identities=18%  Similarity=0.108  Sum_probs=32.3

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      |++...-+++.||||+|||+++..+|.+.   |.+++.++..+
T Consensus        12 Gi~~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~   54 (224)
T TIGR03880        12 GFPEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEE   54 (224)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence            77776678999999999999988877542   77888887765

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.

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=96.59  E-value=0.0018  Score=60.83  Aligned_cols=28  Identities=39%  Similarity=0.631  Sum_probs=25.3

Q ss_pred             ccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          243 WKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       243 ~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+.++||+||+|+||+++|+++|+.+.+
T Consensus        21 ~~ha~Lf~G~~G~GK~~~A~~~A~~llC   48 (328)
T PRK05707         21 HPHAYLLHGPAGIGKRALAERLAAALLC   48 (328)
T ss_pred             cceeeeeECCCCCCHHHHHHHHHHHHcC
Confidence            3568999999999999999999999865

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.59  E-value=0.0028  Score=54.89  Aligned_cols=36  Identities=25%  Similarity=0.353  Sum_probs=28.7

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSV  280 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  280 (288)
                      .-+.|.|+||+|||+++++|+..+   |...+.++...+
T Consensus        25 ~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~ld~d~~   63 (198)
T PRK03846         25 VVLWFTGLSGSGKSTVAGALEEALHELGVSTYLLDGDNV   63 (198)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEEcCEeH
Confidence            347789999999999999999987   455677765443

>PRK04328 hypothetical protein; Provisional

Probab=96.57  E-value=0.0037  Score=56.27  Aligned_cols=40  Identities=28%  Similarity=0.198  Sum_probs=29.7

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHH---hCCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANY---LKFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~---l~~~i~~l~~~~  279 (288)
                      |++...-+|++||||||||+++..++.+   -|.+.+.++..+
T Consensus        19 Gip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee   61 (249)
T PRK04328         19 GIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEE   61 (249)
T ss_pred             CCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeC
Confidence            6666666899999999999998876543   366777776643

>PLN03210 Resistant to P

Probab=96.57  E-value=0.0023  Score=69.47  Aligned_cols=60  Identities=18%  Similarity=0.145  Sum_probs=42.9

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +....+..+++++|.++..+++...+..           +....+-+-++||+|+||||+|+++++.+...
T Consensus       175 l~~~~~~~~~~~vG~~~~l~~l~~lL~l-----------~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~  234 (1153)
T PLN03210        175 LNLTPSNDFEDFVGIEDHIAKMSSLLHL-----------ESEEVRMVGIWGSSGIGKTTIARALFSRLSRQ  234 (1153)
T ss_pred             hccccCcccccccchHHHHHHHHHHHcc-----------ccCceEEEEEEcCCCCchHHHHHHHHHHHhhc
Confidence            3444566788899988777776654431           22224457799999999999999999887543

syringae 6; Provisional

>TIGR02012 tigrfam_recA protein RecA

Probab=96.55  E-value=0.0035  Score=58.65  Aligned_cols=40  Identities=18%  Similarity=0.160  Sum_probs=29.3

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      |++..+-++++||||||||+||..++.+.   |-++..++...
T Consensus        51 Glp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~   93 (321)
T TIGR02012        51 GLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEH   93 (321)
T ss_pred             CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccc
Confidence            55555558899999999999987765543   56676666544

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.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.54  E-value=0.0031  Score=55.28  Aligned_cols=40  Identities=23%  Similarity=0.200  Sum_probs=30.5

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---C------CcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---K------FNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~------~~i~~l~~~~  279 (288)
                      |++...-+.++||||+|||+++..+|...   +      ..++.++..+
T Consensus        15 G~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~   63 (226)
T cd01393          15 GIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG   63 (226)
T ss_pred             CCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence            56555558899999999999999998653   2      5667777654

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.

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=96.54  E-value=0.0016  Score=55.57  Aligned_cols=30  Identities=30%  Similarity=0.553  Sum_probs=24.3

Q ss_pred             CCcccce--eEEEcCCCCChHHHHHHHHHHhC
Q 045456          240 GKVWKRG--YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       240 g~~~~rg--~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .....+|  +++.||+|||||++.+++|....
T Consensus        23 sl~v~~Ge~iaitGPSG~GKStllk~va~Lis   54 (223)
T COG4619          23 SLSVRAGEFIAITGPSGCGKSTLLKIVASLIS   54 (223)
T ss_pred             eeeecCCceEEEeCCCCccHHHHHHHHHhccC
Confidence            3344555  88999999999999999998654

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=96.54  E-value=0.0021  Score=70.23  Aligned_cols=41  Identities=32%  Similarity=0.378  Sum_probs=37.1

Q ss_pred             ccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          243 WKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       243 ~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      ..+++||-|.||.|||+++.|+|+..|-.++.+++++-++-
T Consensus      1542 v~kpilLEGsPGVGKTSlItaLAr~tG~kliRINLSeQTdL 1582 (4600)
T COG5271        1542 VGKPILLEGSPGVGKTSLITALARKTGKKLIRINLSEQTDL 1582 (4600)
T ss_pred             cCCceeecCCCCccHHHHHHHHHHHhcCceEEeeccccchH
Confidence            36789999999999999999999999999999999876543

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=96.53  E-value=0.0037  Score=58.49  Aligned_cols=25  Identities=36%  Similarity=0.701  Sum_probs=22.7

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      ++.+++.||+|+|||+++++++.++
T Consensus       148 ~~~ilI~G~tGSGKTTll~aL~~~~  172 (319)
T PRK13894        148 HRNILVIGGTGSGKTTLVNAIINEM  172 (319)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhh
Confidence            5679999999999999999999874

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.52  E-value=0.0034  Score=58.18  Aligned_cols=40  Identities=18%  Similarity=0.169  Sum_probs=30.5

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---------CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---------KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~~  279 (288)
                      |++...-++++||||||||+++..+|-..         +-.++.|+..+
T Consensus        91 Gi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~  139 (310)
T TIGR02236        91 GIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTEN  139 (310)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCC
Confidence            56655557899999999999999888663         23677777655

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.

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=96.52  E-value=0.002  Score=63.64  Aligned_cols=53  Identities=30%  Similarity=0.545  Sum_probs=43.2

Q ss_pred             hhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          230 VKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       230 ~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      +.+++.++..+..+++|++++||||||||++++++|++ +.....++.+.+.++
T Consensus         4 ~~~~~~~~~~~~~~~~~v~~~g~~~~~~t~~~~~~a~~-~~~~~~~~~~~~~~~   56 (494)
T COG0464           4 LKEPELFKKLGIEPPKGVLLHGPPGTGKTLLARALANE-GAEFLSINGPEILSK   56 (494)
T ss_pred             ccCHHHHHHhCCCCCCCceeeCCCCCchhHHHHHHHhc-cCcccccCcchhhhh
Confidence            44677788889999999999999999999999999999 655566666555443

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=96.52  E-value=0.0029  Score=53.91  Aligned_cols=36  Identities=28%  Similarity=0.452  Sum_probs=28.5

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSV  280 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  280 (288)
                      .-+.+.|+||+|||+++++++..+   +.+.+.++...+
T Consensus        19 ~~i~i~G~~GsGKstla~~l~~~l~~~~~~~~~l~~d~~   57 (184)
T TIGR00455        19 VVIWLTGLSGSGKSTIANALEKKLESKGYRVYVLDGDNV   57 (184)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECChHH
Confidence            347789999999999999999997   445666665544

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3

Probab=96.51  E-value=0.0079  Score=50.07  Aligned_cols=34  Identities=26%  Similarity=0.333  Sum_probs=27.8

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEec
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMEL  277 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  277 (288)
                      .+.+||.+|+|+|||.++..++.++..+++.+-.
T Consensus        25 ~~~~ll~~~tGsGKT~~~~~~~~~l~~~~l~~~p   58 (184)
T PF04851_consen   25 ERRVLLNAPTGSGKTIIALALILELARKVLIVAP   58 (184)
T ss_dssp             CSEEEEEESTTSSHHHHHHHHHHHHHCEEEEEES
T ss_pred             CCCEEEEECCCCCcChhhhhhhhccccceeEecC
Confidence            5679999999999999999877777667777653

1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.51  E-value=0.0039  Score=60.93  Aligned_cols=40  Identities=30%  Similarity=0.297  Sum_probs=32.2

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      |++...-++++||||+|||+++..+|...   +.+++.++..+
T Consensus        76 Gi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ee  118 (446)
T PRK11823         76 GLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEE  118 (446)
T ss_pred             CccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccc
Confidence            55555558899999999999999998765   67888887654

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.51  E-value=0.0068  Score=58.31  Aligned_cols=58  Identities=21%  Similarity=0.298  Sum_probs=37.1

Q ss_pred             hhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          217 SMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       217 ~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      +.++.+.+.+...+..+..+   . ..++-++|.||+|+||||++..||..+   |..+..++..
T Consensus       218 ~~~~~l~~~l~~~l~~~~~~---~-~~~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aD  278 (436)
T PRK11889        218 EVIEYILEDMRSHFNTENVF---E-KEVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTD  278 (436)
T ss_pred             HHHHHHHHHHHHHhcccccc---c-cCCcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecC
Confidence            44555555555544432111   1 123568899999999999999999877   3455555554

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=96.49  E-value=0.0017  Score=61.04  Aligned_cols=29  Identities=34%  Similarity=0.565  Sum_probs=23.7

Q ss_pred             cccce--eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          242 VWKRG--YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ....|  +.|.||+||||||+.+.||+....
T Consensus        25 ~i~~Gef~vllGPSGcGKSTlLr~IAGLe~~   55 (338)
T COG3839          25 DIEDGEFVVLLGPSGCGKSTLLRMIAGLEEP   55 (338)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            34455  779999999999999999987653

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.43  E-value=0.0035  Score=57.82  Aligned_cols=47  Identities=32%  Similarity=0.639  Sum_probs=35.6

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccce-eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRG-YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg-~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ...+|+.++.++-.++ +.+                  .++| +|..||.|+|||++..||-+++|.
T Consensus       104 ~i~~~e~LglP~i~~~-~~~------------------~~~GLILVTGpTGSGKSTTlAamId~iN~  151 (353)
T COG2805         104 KIPTLEELGLPPIVRE-LAE------------------SPRGLILVTGPTGSGKSTTLAAMIDYINK  151 (353)
T ss_pred             cCCCHHHcCCCHHHHH-HHh------------------CCCceEEEeCCCCCcHHHHHHHHHHHHhc
Confidence            3458999988876554 211                  3677 556899999999999999999864

>PRK14974 cell division protein FtsY; Provisional

Probab=96.43  E-value=0.0088  Score=56.38  Aligned_cols=35  Identities=31%  Similarity=0.413  Sum_probs=26.9

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      ++-++|.||||+||||+++.+|..+   |..+..++..
T Consensus       140 ~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~D  177 (336)
T PRK14974        140 PVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGD  177 (336)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCC
Confidence            3458899999999999999998776   4556555543

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=96.41  E-value=0.0045  Score=55.92  Aligned_cols=40  Identities=20%  Similarity=0.218  Sum_probs=31.3

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh----CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL----KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~~  279 (288)
                      |+....-+++.||||+|||+++..+|..+    |.++..+++.+
T Consensus        26 G~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~   69 (271)
T cd01122          26 GLRKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEE   69 (271)
T ss_pred             EEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEccc
Confidence            44444558899999999999998887664    77888888754

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=96.41  E-value=0.0032  Score=58.11  Aligned_cols=44  Identities=30%  Similarity=0.502  Sum_probs=38.5

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHhC--CcEEEEecCCCCCc
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLK--FNIYDMELTSVYCN  283 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l~--~~i~~l~~~~~~~~  283 (288)
                      |+-..|.+|+-||||||||.+|-.||+.||  .||..+.++++-+.
T Consensus        62 gkiaGraiLiaG~pgtGKtAiAmg~sksLG~~tpF~~i~gSEI~Sl  107 (454)
T KOG2680|consen   62 GKIAGRAILIAGQPGTGKTAIAMGMSKSLGDDTPFTSISGSEIYSL  107 (454)
T ss_pred             CcccceEEEEecCCCCCceeeeeehhhhhCCCCceeeeecceeeee
Confidence            555678899999999999999999999998  58999999888654

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.41  E-value=0.0043  Score=60.76  Aligned_cols=53  Identities=25%  Similarity=0.347  Sum_probs=41.4

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccce-eEEEcCCCCChHHHHHHHHHHhCCcEE
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRG-YLLFGPPGTGKSSLIAAMANYLKFNIY  273 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg-~LL~GPpGtGKTsla~aiA~~l~~~i~  273 (288)
                      ..+|+++++.+...+.+.+.+.               -+.| +|+.||.|+|||++..++.++++.+-.
T Consensus       234 ~l~l~~Lg~~~~~~~~~~~~~~---------------~p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~  287 (500)
T COG2804         234 ILDLEKLGMSPFQLARLLRLLN---------------RPQGLILVTGPTGSGKTTTLYAALSELNTPER  287 (500)
T ss_pred             cCCHHHhCCCHHHHHHHHHHHh---------------CCCeEEEEeCCCCCCHHHHHHHHHHHhcCCCc
Confidence            4478999998888777766544               2567 556899999999999999999976544

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=96.40  E-value=0.0045  Score=58.39  Aligned_cols=24  Identities=42%  Similarity=0.785  Sum_probs=21.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+++.||+|+||||+++++.+++.
T Consensus       124 ~ili~G~tGSGKTT~l~al~~~i~  147 (343)
T TIGR01420       124 LILVTGPTGSGKSTTLASMIDYIN  147 (343)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhC
Confidence            478999999999999999998775

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type

Probab=96.40  E-value=0.0034  Score=58.87  Aligned_cols=31  Identities=23%  Similarity=0.275  Sum_probs=27.5

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEE
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYD  274 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  274 (288)
                      .+.+.|.|+||||||+|++++++.++.+++.
T Consensus       162 ~~~~~~~G~~~~gkstl~~~l~~~~~~~~v~  192 (325)
T TIGR01526       162 VKTVAILGGESTGKSTLVNKLAAVFNTTSAW  192 (325)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCCCEEe
Confidence            3468999999999999999999999988754

E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this model share that activity.

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=96.39  E-value=0.0042  Score=58.68  Aligned_cols=29  Identities=28%  Similarity=0.344  Sum_probs=26.0

Q ss_pred             cccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          242 VWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       242 ~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..+.++||+||+|+||+++|.++|+.+.+
T Consensus        19 rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC   47 (342)
T PRK06964         19 RLPHALLLHGQAGIGKLDFAQHLAQGLLC   47 (342)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHHHHcC
Confidence            45678999999999999999999998865

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.39  E-value=0.0049  Score=57.75  Aligned_cols=40  Identities=20%  Similarity=0.219  Sum_probs=29.6

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHH---hCCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANY---LKFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~---l~~~i~~l~~~~  279 (288)
                      |++..+-++++||||||||++|..++.+   .|..+..++...
T Consensus        51 Glp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~   93 (325)
T cd00983          51 GYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEH   93 (325)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccc
Confidence            5555555889999999999999877744   366777776643

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK13477 bifunctional pantoate ligase/cytidylate kinase; Provisional

Probab=96.39  E-value=0.0031  Score=62.57  Aligned_cols=28  Identities=36%  Similarity=0.515  Sum_probs=24.7

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCcEEE
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFNIYD  274 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~i~~  274 (288)
                      +.+.||+||||||+++.||+.+|+.+++
T Consensus       287 i~i~G~sgsGKst~a~~la~~l~~~~~d  314 (512)
T PRK13477        287 IAIDGPAGAGKSTVTRAVAKKLGLLYLD  314 (512)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEec
Confidence            6689999999999999999999866554

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.38  E-value=0.0044  Score=57.73  Aligned_cols=40  Identities=15%  Similarity=0.174  Sum_probs=30.7

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---------CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---------KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~~  279 (288)
                      |++...-++++||||||||.++..+|-..         +..++.++..+
T Consensus        98 Gi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~  146 (317)
T PRK04301         98 GIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEG  146 (317)
T ss_pred             CccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCC
Confidence            56655558899999999999999988653         34677777655

>PRK07667 uridine kinase; Provisional

Probab=96.37  E-value=0.0055  Score=52.95  Aligned_cols=36  Identities=14%  Similarity=0.174  Sum_probs=29.3

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC---CcEEEEecCCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK---FNIYDMELTSV  280 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~~~~  280 (288)
                      .-+.+.|+||+|||+++..++..++   .++..++..+.
T Consensus        18 ~iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd~   56 (193)
T PRK07667         18 FILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDDY   56 (193)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCcc
Confidence            4577999999999999999999874   56667766653

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.36  E-value=0.011  Score=57.34  Aligned_cols=35  Identities=23%  Similarity=0.356  Sum_probs=26.7

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh----CCcEEEEecCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL----KFNIYDMELTS  279 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~~  279 (288)
                      .-+++.||+|+||||++..+|..+    |..+..++...
T Consensus       224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt  262 (432)
T PRK12724        224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDN  262 (432)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccc
Confidence            347899999999999999999754    45566665544

>PRK10536 hypothetical protein; Provisional

Probab=96.35  E-value=0.0054  Score=55.61  Aligned_cols=37  Identities=22%  Similarity=0.153  Sum_probs=27.1

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH-h-C--CcEEEEecCCCCC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY-L-K--FNIYDMELTSVYC  282 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~-l-~--~~i~~l~~~~~~~  282 (288)
                      -+++.||+|||||++|.|+|.+ + +  +..+.+.-+.+..
T Consensus        76 lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~  116 (262)
T PRK10536         76 LIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQA  116 (262)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCc
Confidence            5788999999999999999985 3 2  4555555555443

>PLN02840 tRNA dimethylallyltransferase

Probab=96.33  E-value=0.0037  Score=60.41  Aligned_cols=32  Identities=31%  Similarity=0.433  Sum_probs=28.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCcEEEEec
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFNIYDMEL  277 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  277 (288)
                      -+++.||+|+|||+++..||..++.+++.++.
T Consensus        23 vi~I~GptgsGKTtla~~La~~~~~~iis~Ds   54 (421)
T PLN02840         23 VIVISGPTGAGKSRLALELAKRLNGEIISADS   54 (421)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCCCCeEeccc
Confidence            47789999999999999999999998877654

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=96.33  E-value=0.0033  Score=59.80  Aligned_cols=29  Identities=31%  Similarity=0.526  Sum_probs=25.0

Q ss_pred             CcccceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          241 KVWKRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       241 ~~~~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .+.++|++||||+|+|||+|.-+.-+.+.
T Consensus        59 ~~~~~GlYl~G~vG~GKT~Lmd~f~~~lp   87 (362)
T PF03969_consen   59 PPPPKGLYLWGPVGRGKTMLMDLFYDSLP   87 (362)
T ss_pred             CCCCceEEEECCCCCchhHHHHHHHHhCC
Confidence            45789999999999999999988877654

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=96.31  E-value=0.0039  Score=60.07  Aligned_cols=30  Identities=27%  Similarity=0.402  Sum_probs=26.4

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEE
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIY  273 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~  273 (288)
                      .+-+.+.|++|||||||+++||+.+|.+.+
T Consensus       219 ~~~IvI~G~~gsGKTTL~~~La~~~g~~~v  248 (399)
T PRK08099        219 VRTVAILGGESSGKSTLVNKLANIFNTTSA  248 (399)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHhCCCee
Confidence            456899999999999999999999988743

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=96.30  E-value=0.0065  Score=61.15  Aligned_cols=48  Identities=27%  Similarity=0.558  Sum_probs=37.2

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccce-eEEEcCCCCChHHHHHHHHHHhC
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRG-YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg-~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .+++++++.++..+.+.+.+..               ++| +|+.||+|+||||+..++.++++
T Consensus       293 ~~l~~lg~~~~~~~~l~~~~~~---------------~~Glilv~G~tGSGKTTtl~a~l~~~~  341 (564)
T TIGR02538       293 LDIDKLGFEPDQKALFLEAIHK---------------PQGMVLVTGPTGSGKTVSLYTALNILN  341 (564)
T ss_pred             CCHHHcCCCHHHHHHHHHHHHh---------------cCCeEEEECCCCCCHHHHHHHHHHhhC
Confidence            5789999888777766554431               345 67899999999999988888875

This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.29  E-value=0.003  Score=49.71  Aligned_cols=22  Identities=36%  Similarity=0.593  Sum_probs=19.8

Q ss_pred             cceeEEEcCCCCChHHHHHHHH
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMA  265 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA  265 (288)
                      ...+.|.||+|+|||++++++.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            3568899999999999999987

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=96.27  E-value=0.0053  Score=53.13  Aligned_cols=26  Identities=46%  Similarity=0.807  Sum_probs=23.5

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .+.++++||.|+|||++++.+.+.+.
T Consensus        20 ~~~~~l~G~rg~GKTsLl~~~~~~~~   45 (234)
T PF01637_consen   20 SQHILLYGPRGSGKTSLLKEFINELK   45 (234)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHCT
T ss_pred             CcEEEEEcCCcCCHHHHHHHHHHHhh
Confidence            45799999999999999999999984

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>smart00350 MCM minichromosome maintenance proteins

Probab=96.25  E-value=0.0052  Score=61.09  Aligned_cols=29  Identities=34%  Similarity=0.560  Sum_probs=24.7

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCcEEE
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFNIYD  274 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~i~~  274 (288)
                      .+||+|+||||||.+++++++......+.
T Consensus       238 ~vLL~G~pGtGKs~lar~l~~~~~r~~~~  266 (509)
T smart00350      238 NILLLGDPGTAKSQLLKYVEKTAPRAVYT  266 (509)
T ss_pred             eEEEeCCCChhHHHHHHHHHHHcCcceEc
Confidence            49999999999999999999987654443

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.25  E-value=0.004  Score=59.41  Aligned_cols=35  Identities=26%  Similarity=0.363  Sum_probs=26.4

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh----C-CcEEEEecCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL----K-FNIYDMELTS  279 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l----~-~~i~~l~~~~  279 (288)
                      +-++|.||+|+|||+++..||..+    | ..+..+....
T Consensus       138 ~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~  177 (374)
T PRK14722        138 GVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDS  177 (374)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEeccc
Confidence            348899999999999999999864    3 3555555443

>PF06431 Polyoma_lg_T_C: Polyomavirus large T antigen C-terminus; InterPro: IPR010932 The group of polyomaviruses is formed by the homonymous murine virus (Py) as well as other representative members such as the simian virus 40 (SV40) and the human BK and JC viruses []

Probab=96.23  E-value=0.0086  Score=56.63  Aligned_cols=39  Identities=26%  Similarity=0.319  Sum_probs=29.6

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELT  278 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  278 (288)
                      .+|-+|.+||-||=.|||||+|+|+-..+|---+.|+.+
T Consensus       151 N~PKkRy~lFkGPvNsGKTTlAAAlLdL~gG~~LNvN~p  189 (417)
T PF06431_consen  151 NIPKKRYWLFKGPVNSGKTTLAAALLDLCGGKSLNVNCP  189 (417)
T ss_dssp             TBTTB-EEEEE-STTSSHHHHHHHHHHHH-EEEE-TSS-
T ss_pred             CCCcceeEEEecCcCCchHHHHHHHHHhcCCceeecCCC
Confidence            567789999999999999999999999998766666554

Their large T antigen (T-ag) protein binds to and activates DNA replication from the origin of DNA replication (ori). Insofar as is known, the T-ag binds to the origin first as a monomer to its pentanucleotide recognition element. The monomers are then thought to assemble into hexamers and double hexamers, which constitute the form that is active in initiation of DNA replication. When bound to the ori, T-ag double hexamers encircle DNA []. T-ag is a multidomain protein that contains an N-terminal J domain, which mediates protein interactions (see PDOC00553 from PROSITEDOC, IPR001623 from INTERPRO), a central origin-binding domain (OBD), and a C-terminal superfamily 3 helicase domain (see PDOC51206 from PROSITEDOC, IPR010932 from INTERPRO) []. This entry represents the helicase domain of LTag, which assembles into a hexameric structure containing a positively charged central channel that can bind both single- and double-stranded DNA []. ATP binding and hydrolysis trigger large conformational changes which are thought to be coupled to the melting of origin DNA and the unwinding of duplex DNA []. These conformational changes cause the angles and orientations between regions of a monomer to alter, creating what was described as an "iris"-like motion in the hexamer. In addition to this, six beta hairpins on the channel surface move longitudinally along the central channel, possibly serving as a motor for pulling DNA into the LTag double hexamer for unwinding.; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 2H1L_H 1SVO_A 1SVM_E 1SVL_B 1N25_A 4E2I_K.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.22  E-value=0.011  Score=57.35  Aligned_cols=35  Identities=29%  Similarity=0.413  Sum_probs=27.7

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh-----CCcEEEEecCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL-----KFNIYDMELTS  279 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~  279 (288)
                      +-++|.||+|+||||++..+|..+     +..+..++...
T Consensus       222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~  261 (424)
T PRK05703        222 GVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDT  261 (424)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCc
Confidence            457899999999999999888754     35677777654

>PRK04132 replication factor C small subunit; Provisional

Probab=96.21  E-value=0.0025  Score=66.57  Aligned_cols=49  Identities=24%  Similarity=0.464  Sum_probs=37.6

Q ss_pred             CCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHH
Q 045456          197 AWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSL  260 (288)
Q Consensus       197 ~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsl  260 (288)
                      .|  ....+|.+|+|++|++..++.|...+..           |..  ..++|+||||+||+..
T Consensus         8 ~~--~~k~RP~~f~dIiGqe~i~~~Lk~~i~~-----------~~i--~h~l~~g~~g~~~cl~   56 (846)
T PRK04132          8 PW--VEKYRPQRLDDIVGQEHIVKRLKHYVKT-----------GSM--PHLLFAGPPGVGKCLT   56 (846)
T ss_pred             cH--HHhhCCCCHHHhcCcHHHHHHHHHHHHc-----------CCC--CeEEEECCCCCCcccc
Confidence            46  3588999999999999999877775552           221  2378999999999753

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.21  E-value=0.0046  Score=56.47  Aligned_cols=55  Identities=20%  Similarity=0.326  Sum_probs=41.4

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      ++.++|.+++.+....+....++....    .       +  --..+|+|||+|+||-|.+.|+-+++
T Consensus         4 vdkyrpksl~~l~~~~e~~~~Lksl~~----~-------~--d~PHll~yGPSGaGKKTrimclL~el   58 (351)
T KOG2035|consen    4 VDKYRPKSLDELIYHEELANLLKSLSS----T-------G--DFPHLLVYGPSGAGKKTRIMCLLREL   58 (351)
T ss_pred             hhhcCcchhhhcccHHHHHHHHHHhcc----c-------C--CCCeEEEECCCCCCchhhHHHHHHHH
Confidence            568899999998887776665544211    0       1  01369999999999999999999887

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=96.21  E-value=0.011  Score=55.51  Aligned_cols=32  Identities=19%  Similarity=0.338  Sum_probs=26.5

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCC--cEEEE
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKF--NIYDM  275 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~--~i~~l  275 (288)
                      ++++++.||+|+||||+++|++.++..  .++.+
T Consensus       160 ~~nili~G~tgSGKTTll~aL~~~ip~~~ri~ti  193 (332)
T PRK13900        160 KKNIIISGGTSTGKTTFTNAALREIPAIERLITV  193 (332)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHhhCCCCCeEEEe
Confidence            567999999999999999999998863  34444

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=96.20  E-value=0.012  Score=57.44  Aligned_cols=62  Identities=18%  Similarity=0.184  Sum_probs=45.4

Q ss_pred             ccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCC
Q 045456          209 FDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVY  281 (288)
Q Consensus       209 ~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~  281 (288)
                      +.++++.....+.+.+.+....           .....+++.|++||||+++|++|....   +.|++.++++.+.
T Consensus       137 ~~~lig~s~~~~~l~~~~~~~~-----------~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~c~~~~  201 (469)
T PRK10923        137 TTDIIGEAPAMQDVFRIIGRLS-----------RSSISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIP  201 (469)
T ss_pred             cccceecCHHHHHHHHHHHHHh-----------ccCCeEEEEeCCCCcHHHHHHHHHhcCCCCCCCeEeeeCCCCC
Confidence            4567776665555555444322           123469999999999999999999886   4699999998773

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=96.17  E-value=0.0026  Score=51.12  Aligned_cols=26  Identities=38%  Similarity=0.583  Sum_probs=22.5

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .-+.+.||+|+|||+++++|++....
T Consensus        12 ~~~~i~G~nGsGKStLl~~l~g~~~~   37 (137)
T PF00005_consen   12 EIVAIVGPNGSGKSTLLKALAGLLPP   37 (137)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTSSHE
T ss_pred             CEEEEEccCCCccccceeeecccccc
Confidence            34789999999999999999987753

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=96.16  E-value=0.0063  Score=43.08  Aligned_cols=22  Identities=45%  Similarity=0.791  Sum_probs=19.7

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .+|+||.|+|||++.-||.--|
T Consensus        26 tli~G~nGsGKSTllDAi~~~L   47 (62)
T PF13555_consen   26 TLITGPNGSGKSTLLDAIQTVL   47 (62)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            8899999999999999987654

>TIGR00959 ffh signal recognition particle protein

Probab=96.15  E-value=0.011  Score=57.42  Aligned_cols=37  Identities=22%  Similarity=0.297  Sum_probs=29.2

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh----CCcEEEEecCCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL----KFNIYDMELTSV  280 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~~~  280 (288)
                      +.-+++.||||+|||+++.-+|..+    |..+..+++...
T Consensus        99 p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~  139 (428)
T TIGR00959        99 PTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLY  139 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEecccc
Confidence            4568899999999999988888764    567777776543

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.12  E-value=0.0077  Score=57.63  Aligned_cols=39  Identities=18%  Similarity=0.222  Sum_probs=30.5

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYC  282 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  282 (288)
                      ++-++|.||+|+|||+++..+|..+   |..+..+++.....
T Consensus       206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~  247 (407)
T PRK12726        206 HRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRS  247 (407)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCc
Confidence            4457899999999999999999876   56677777665443

>PRK06851 hypothetical protein; Provisional

Probab=96.12  E-value=0.012  Score=56.11  Aligned_cols=36  Identities=33%  Similarity=0.525  Sum_probs=30.2

Q ss_pred             ccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          243 WKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       243 ~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      ..+-++|.||||||||++++.++.++   |+++.....+
T Consensus       213 ~~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~  251 (367)
T PRK06851        213 VKNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCG  251 (367)
T ss_pred             cceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCC
Confidence            35669999999999999999999988   7777766655

>PRK11860 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional

Probab=96.11  E-value=0.0072  Score=61.95  Aligned_cols=40  Identities=23%  Similarity=0.280  Sum_probs=30.9

Q ss_pred             HHHHhCCcccc---eeEEEcCCCCChHHHHHHHHHHhCCcEEE
Q 045456          235 FYRRVGKVWKR---GYLLFGPPGTGKSSLIAAMANYLKFNIYD  274 (288)
Q Consensus       235 ~~~~~g~~~~r---g~LL~GPpGtGKTsla~aiA~~l~~~i~~  274 (288)
                      .+..+|.+...   -+.+.||+|+|||++++.+|+++|+++++
T Consensus       430 ~l~~Lg~~~~~~~~~i~i~g~~~~gks~~~~~l~~~~~~~~~~  472 (661)
T PRK11860        430 ALFSVAQADADRVPVICIDGPTASGKGTVAARVAEALGYHYLD  472 (661)
T ss_pred             HHHHhcCCcccCcceEEeeCCCCCCHHHHHHHHHHHhCCeEec
Confidence            34455654322   36789999999999999999999999854

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=96.09  E-value=0.0055  Score=49.45  Aligned_cols=27  Identities=30%  Similarity=0.481  Sum_probs=23.2

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      .-++|.|+=|.|||++++++|+.+|.+
T Consensus        16 ~vi~L~GdLGaGKTtf~r~l~~~lg~~   42 (123)
T PF02367_consen   16 DVILLSGDLGAGKTTFVRGLARALGID   42 (123)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTT--
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            348899999999999999999999874

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=96.09  E-value=0.0053  Score=47.84  Aligned_cols=23  Identities=30%  Similarity=0.460  Sum_probs=19.8

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +++.|++|+|||+|++.+++...
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~   24 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEF   24 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS-
T ss_pred             EEEECcCCCCHHHHHHHHhcCCC
Confidence            67899999999999999997553

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=96.07  E-value=0.0097  Score=56.87  Aligned_cols=40  Identities=30%  Similarity=0.300  Sum_probs=31.0

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      |++...-++++||||+|||+++..+|..+   +.+++.++..+
T Consensus        78 Gi~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EE  120 (372)
T cd01121          78 GLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEE  120 (372)
T ss_pred             CccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCc
Confidence            55555558899999999999999988765   35777777654

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.

>PRK06851 hypothetical protein; Provisional

Probab=96.04  E-value=0.012  Score=56.03  Aligned_cols=32  Identities=31%  Similarity=0.544  Sum_probs=26.0

Q ss_pred             ccceeEEEcCCCCChHHHHHHHHHHh---CCcEEE
Q 045456          243 WKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYD  274 (288)
Q Consensus       243 ~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~  274 (288)
                      ..+-++|.||||||||++++.++..+   |+++-.
T Consensus        29 ~~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~   63 (367)
T PRK06851         29 ANRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEF   63 (367)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEE
Confidence            35679999999999999999999887   455433

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=96.04  E-value=0.01  Score=43.74  Aligned_cols=30  Identities=27%  Similarity=0.409  Sum_probs=24.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh---CCcEEEEe
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL---KFNIYDME  276 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~  276 (288)
                      +++.|.+|+|||+++..+|..+   |.++..++
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~~v~~~~   34 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAKRGKRVLLID   34 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence            4678999999999999999998   56555443

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

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=96.03  E-value=0.008  Score=54.35  Aligned_cols=37  Identities=24%  Similarity=0.300  Sum_probs=26.6

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHH--hCC--c-EEEEecCCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANY--LKF--N-IYDMELTSV  280 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~--l~~--~-i~~l~~~~~  280 (288)
                      .+-+.++|++|+|||++|..+++.  ..-  + ++.++++..
T Consensus        19 ~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~   60 (287)
T PF00931_consen   19 VRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKN   60 (287)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-
T ss_pred             eEEEEEEcCCcCCcceeeeecccccccccccccccccccccc
Confidence            445789999999999999999987  332  2 344555543

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=96.02  E-value=0.017  Score=56.47  Aligned_cols=65  Identities=14%  Similarity=0.083  Sum_probs=51.2

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC---CcEEEEecCCCCCc
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK---FNIYDMELTSVYCN  283 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~~~~~~~  283 (288)
                      ....++|.....+++.+.+...-.           ..-.+|+.|++||||..+|++|.+.-.   .||+.||++.+-.+
T Consensus       139 ~~~~liG~S~am~~l~~~i~kvA~-----------s~a~VLI~GESGtGKElvAr~IH~~S~R~~~PFVavNcaAip~~  206 (464)
T COG2204         139 LGGELVGESPAMQQLRRLIAKVAP-----------SDASVLITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPEN  206 (464)
T ss_pred             ccCCceecCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCCcHHHHHHHHHhhCcccCCCceeeecccCCHH
Confidence            566788888888887776664332           134699999999999999999998875   49999999887543

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=96.02  E-value=0.0053  Score=58.88  Aligned_cols=24  Identities=33%  Similarity=0.587  Sum_probs=21.8

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+++||||||||+|++.|++....
T Consensus       172 ~lIvgppGvGKTTLaK~Ian~I~~  195 (416)
T PRK09376        172 GLIVAPPKAGKTVLLQNIANSITT  195 (416)
T ss_pred             EEEeCCCCCChhHHHHHHHHHHHh
Confidence            888999999999999999998754

>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria

Probab=96.00  E-value=0.0057  Score=50.97  Aligned_cols=24  Identities=38%  Similarity=0.589  Sum_probs=21.5

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHH
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .+|+||.||+|.|||+++.++...
T Consensus        14 g~gvLi~G~sG~GKStlal~L~~~   37 (149)
T cd01918          14 GIGVLITGPSGIGKSELALELIKR   37 (149)
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            468999999999999999888765

It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=96.00  E-value=0.011  Score=55.30  Aligned_cols=28  Identities=32%  Similarity=0.532  Sum_probs=24.6

Q ss_pred             ccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          243 WKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       243 ~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+..+||+||+|+||+++|.++|+.+.+
T Consensus        25 l~HA~Lf~Gp~G~GK~~lA~~lA~~LlC   52 (319)
T PRK08769         25 LGHGLLICGPEGLGKRAVALALAEHVLA   52 (319)
T ss_pred             cceeEeeECCCCCCHHHHHHHHHHHHhC
Confidence            3568999999999999999999988754

>PRK12608 transcription termination factor Rho; Provisional

Probab=95.98  E-value=0.0082  Score=57.23  Aligned_cols=24  Identities=29%  Similarity=0.506  Sum_probs=21.7

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .++.||||||||++++.+|+.+..
T Consensus       136 ~LIvG~pGtGKTTLl~~la~~i~~  159 (380)
T PRK12608        136 GLIVAPPRAGKTVLLQQIAAAVAA  159 (380)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHh
Confidence            799999999999999999998743

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.97  E-value=0.0024  Score=56.36  Aligned_cols=29  Identities=28%  Similarity=0.412  Sum_probs=22.3

Q ss_pred             CcccceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          241 KVWKRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       241 ~~~~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      ++..+---|.||+||||||+.+++-....
T Consensus        30 i~~~~VTAlIGPSGcGKST~LR~lNRmnd   58 (253)
T COG1117          30 IPKNKVTALIGPSGCGKSTLLRCLNRMND   58 (253)
T ss_pred             ccCCceEEEECCCCcCHHHHHHHHHhhcc
Confidence            33334466999999999999999876654

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=95.94  E-value=0.011  Score=58.33  Aligned_cols=40  Identities=23%  Similarity=0.195  Sum_probs=30.7

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      |++...-+|+.||||+|||+++...+...   |-+.+.++..+
T Consensus       259 G~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~eE  301 (484)
T TIGR02655       259 GFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFAYEE  301 (484)
T ss_pred             CccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeC
Confidence            55555559999999999999988887754   56777776554

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.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=95.93  E-value=0.022  Score=52.67  Aligned_cols=35  Identities=26%  Similarity=0.429  Sum_probs=26.8

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      ..-+.+.||||+|||+++..++..+   |..+..++..
T Consensus        34 ~~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i~~D   71 (300)
T TIGR00750        34 AHRVGITGTPGAGKSTLLEALGMELRRRGLKVAVIAVD   71 (300)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecC
Confidence            3457789999999999999999876   5555555443

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.

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=95.93  E-value=0.0073  Score=57.10  Aligned_cols=27  Identities=26%  Similarity=0.518  Sum_probs=24.2

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ++.+|+.||+|+||||+++++++++..
T Consensus       162 ~~nilI~G~tGSGKTTll~aLl~~i~~  188 (344)
T PRK13851        162 RLTMLLCGPTGSGKTTMSKTLISAIPP  188 (344)
T ss_pred             CCeEEEECCCCccHHHHHHHHHcccCC
Confidence            567999999999999999999998754

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=95.91  E-value=0.016  Score=56.19  Aligned_cols=24  Identities=33%  Similarity=0.646  Sum_probs=21.4

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHH
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      ..++++.||||||||.++.+++.+
T Consensus       209 ~~Nli~lGp~GTGKThla~~l~~~  232 (449)
T TIGR02688       209 NYNLIELGPKGTGKSYIYNNLSPY  232 (449)
T ss_pred             CCcEEEECCCCCCHHHHHHHHhHH
Confidence            457999999999999999998876

Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=95.91  E-value=0.0056  Score=53.45  Aligned_cols=24  Identities=29%  Similarity=0.552  Sum_probs=21.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        32 ~~~l~G~nGsGKSTLl~~i~Gl~~   55 (218)
T cd03255          32 FVAIVGPSGSGKSTLLNILGGLDR   55 (218)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCcC
Confidence            377999999999999999998874

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>PF12780 AAA_8: P-loop containing dynein motor region D4; InterPro: IPR024317 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases

Probab=95.90  E-value=0.0099  Score=54.30  Aligned_cols=37  Identities=27%  Similarity=0.444  Sum_probs=31.6

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      ....||.|++|+||.++++..|-.+++.++.+..+.-
T Consensus        31 ~Gh~LLvG~~GsGr~sl~rLaa~i~~~~~~~i~~~~~   67 (268)
T PF12780_consen   31 RGHALLVGVGGSGRQSLARLAAFICGYEVFQIEITKG   67 (268)
T ss_dssp             TEEEEEECTTTSCHHHHHHHHHHHTTEEEE-TTTSTT
T ss_pred             CCCeEEecCCCccHHHHHHHHHHHhccceEEEEeeCC
Confidence            3458999999999999999999999999999987653

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four (D1 - D4) correspond to the ATP binding sites with P-loop signatures described previously, and two (D5, D6) are modules in which the P loop has been lost in evolution. This particular entry represents the D4 ATP-binding domain of the motor [].; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=95.89  E-value=0.015  Score=53.94  Aligned_cols=27  Identities=15%  Similarity=0.503  Sum_probs=24.1

Q ss_pred             ccceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          243 WKRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       243 ~~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      ....+++.||+|+||||+++++++++.
T Consensus       143 ~~~~ili~G~tGsGKTTll~al~~~~~  169 (308)
T TIGR02788       143 SRKNIIISGGTGSGKTTFLKSLVDEIP  169 (308)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHccCC
Confidence            356799999999999999999998874

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=95.86  E-value=0.0078  Score=54.38  Aligned_cols=26  Identities=31%  Similarity=0.580  Sum_probs=23.4

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .-+++.||+|||||++++.|++.+..
T Consensus        17 qr~~I~G~~G~GKTTLlr~I~n~l~~   42 (249)
T cd01128          17 QRGLIVAPPKAGKTTLLQSIANAITK   42 (249)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcccc
Confidence            45899999999999999999998865

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=95.86  E-value=0.013  Score=58.16  Aligned_cols=40  Identities=20%  Similarity=0.137  Sum_probs=30.6

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHH-h---CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANY-L---KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~-l---~~~i~~l~~~~  279 (288)
                      |++...-+|++|+||+|||+++..++.+ +   |.+++.+++.+
T Consensus        27 G~p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee   70 (509)
T PRK09302         27 GLPKGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEE   70 (509)
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccC
Confidence            5666666999999999999999876643 2   66777777654

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=95.85  E-value=0.0056  Score=61.54  Aligned_cols=25  Identities=36%  Similarity=0.582  Sum_probs=21.8

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      ...+|+.||+||||||+.||||+..
T Consensus       419 G~~llI~G~SG~GKTsLlRaiaGLW  443 (604)
T COG4178         419 GERLLITGESGAGKTSLLRALAGLW  443 (604)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccC
Confidence            3349999999999999999999865

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=95.85  E-value=0.0071  Score=60.91  Aligned_cols=34  Identities=24%  Similarity=0.260  Sum_probs=27.9

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC----cEEEEecCCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF----NIYDMELTSV  280 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~----~i~~l~~~~~  280 (288)
                      +.|.|+||+||||+++++|..++.    +++.++...+
T Consensus       395 Ivl~Gl~GSGKSTia~~La~~L~~~~g~~~~~lD~D~v  432 (568)
T PRK05537        395 VFFTGLSGAGKSTIAKALMVKLMEMRGRPVTLLDGDVV  432 (568)
T ss_pred             EEEECCCCChHHHHHHHHHHHhhhccCceEEEeCCcHH
Confidence            678999999999999999999985    4566665444

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=95.85  E-value=0.024  Score=54.94  Aligned_cols=62  Identities=16%  Similarity=0.209  Sum_probs=43.6

Q ss_pred             ccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCC
Q 045456          209 FDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVY  281 (288)
Q Consensus       209 ~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~  281 (288)
                      +..+++.....+.+.+.+....           .....+++.|++||||+.+|+++....   +.|++.+++..+.
T Consensus       138 ~~~lig~s~~~~~l~~~i~~~a-----------~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~v~v~c~~~~  202 (445)
T TIGR02915       138 LRGLITSSPGMQKICRTIEKIA-----------PSDITVLLLGESGTGKEVLARALHQLSDRKDKRFVAINCAAIP  202 (445)
T ss_pred             ccceeecCHHHHHHHHHHHHHh-----------CCCCCEEEECCCCcCHHHHHHHHHHhCCcCCCCeEEEECCCCC
Confidence            4456665555555555443221           123468999999999999999998775   4689999988763

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>PRK10646 ADP-binding protein; Provisional

Probab=95.85  E-value=0.011  Score=49.56  Aligned_cols=25  Identities=24%  Similarity=0.408  Sum_probs=23.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      -++|.|+=|+|||++++++|+.||.
T Consensus        30 vi~L~GdLGaGKTtf~rgl~~~Lg~   54 (153)
T PRK10646         30 VIYLYGDLGAGKTTFSRGFLQALGH   54 (153)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCC
Confidence            4889999999999999999999986

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=95.84  E-value=0.0051  Score=55.79  Aligned_cols=40  Identities=28%  Similarity=0.421  Sum_probs=29.1

Q ss_pred             cccce--eEEEcCCCCChHHHHHHHHHHhCC--cEEEEecCCCC
Q 045456          242 VWKRG--YLLFGPPGTGKSSLIAAMANYLKF--NIYDMELTSVY  281 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsla~aiA~~l~~--~i~~l~~~~~~  281 (288)
                      ..+.|  .-+.||.|||||||.++|++.+..  --+.++..++.
T Consensus        24 ~i~~G~i~~iiGpNG~GKSTLLk~l~g~l~p~~G~V~l~g~~i~   67 (258)
T COG1120          24 SIPKGEITGILGPNGSGKSTLLKCLAGLLKPKSGEVLLDGKDIA   67 (258)
T ss_pred             EecCCcEEEEECCCCCCHHHHHHHHhccCCCCCCEEEECCCchh
Confidence            34445  558899999999999999998863  24555555444

>PLN02748 tRNA dimethylallyltransferase

Probab=95.84  E-value=0.0083  Score=58.87  Aligned_cols=32  Identities=28%  Similarity=0.522  Sum_probs=28.3

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCcEEEEec
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFNIYDMEL  277 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  277 (288)
                      -+++.||+|+|||+|+..||..++.+++..+.
T Consensus        24 ~i~i~GptgsGKs~la~~la~~~~~eii~~Ds   55 (468)
T PLN02748         24 VVVVMGPTGSGKSKLAVDLASHFPVEIINADS   55 (468)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCeeEEcCch
Confidence            47889999999999999999999988776664

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=95.83  E-value=0.0053  Score=54.22  Aligned_cols=29  Identities=28%  Similarity=0.606  Sum_probs=22.8

Q ss_pred             CCcccce--eEEEcCCCCChHHHHHHHHHHh
Q 045456          240 GKVWKRG--YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       240 g~~~~rg--~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .....+|  +.+.||+|+||||+.|+|...-
T Consensus        22 ~l~v~~Gevv~iiGpSGSGKSTlLRclN~LE   52 (240)
T COG1126          22 SLSVEKGEVVVIIGPSGSGKSTLLRCLNGLE   52 (240)
T ss_pred             ceeEcCCCEEEEECCCCCCHHHHHHHHHCCc
Confidence            3344455  7899999999999999998644

>PRK09354 recA recombinase A; Provisional

Probab=95.83  E-value=0.014  Score=55.27  Aligned_cols=40  Identities=18%  Similarity=0.156  Sum_probs=28.8

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHH---hCCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANY---LKFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~---l~~~i~~l~~~~  279 (288)
                      |++..+-++++||||||||+||..++..   .|-..+.++...
T Consensus        56 Gip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~   98 (349)
T PRK09354         56 GLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEH   98 (349)
T ss_pred             CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCcc
Confidence            5555555889999999999998866543   366666666544

>PRK05439 pantothenate kinase; Provisional

Probab=95.82  E-value=0.018  Score=53.76  Aligned_cols=34  Identities=15%  Similarity=0.118  Sum_probs=26.5

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC-----cEEEEecCCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF-----NIYDMELTSV  280 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~-----~i~~l~~~~~  280 (288)
                      +.+.||||+||||+|+.|+..++.     .+..+...+.
T Consensus        89 IgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~~DdF  127 (311)
T PRK05439         89 IGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVTTDGF  127 (311)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEecccc
Confidence            668999999999999999997752     4555655544

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=95.82  E-value=0.02  Score=55.18  Aligned_cols=59  Identities=25%  Similarity=0.380  Sum_probs=38.4

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      ...+.-+|++++..+.-...... ...+-..      -|. ....++||||.|.|||.|+.|++++.
T Consensus        79 ~l~~~ytFdnFv~g~~N~~A~aa-~~~va~~------~g~-~~nplfi~G~~GlGKTHLl~Aign~~  137 (408)
T COG0593          79 GLNPKYTFDNFVVGPSNRLAYAA-AKAVAEN------PGG-AYNPLFIYGGVGLGKTHLLQAIGNEA  137 (408)
T ss_pred             cCCCCCchhheeeCCchHHHHHH-HHHHHhc------cCC-cCCcEEEECCCCCCHHHHHHHHHHHH
Confidence            34555699999876654333222 2222211      122 23458999999999999999999987

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=95.81  E-value=0.0047  Score=53.77  Aligned_cols=23  Identities=35%  Similarity=0.674  Sum_probs=21.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+|||||+++|++.+.
T Consensus        31 ~~l~G~nGsGKSTLl~~i~Gl~~   53 (214)
T TIGR02673        31 LFLTGPSGAGKTTLLKLLYGALT   53 (214)
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            77999999999999999998763

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=95.81  E-value=0.023  Score=50.30  Aligned_cols=26  Identities=35%  Similarity=0.502  Sum_probs=22.5

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .-+.|.||+|+|||++++.|++.+..
T Consensus        34 ~iigi~G~~GsGKTTl~~~L~~~l~~   59 (229)
T PRK09270         34 TIVGIAGPPGAGKSTLAEFLEALLQQ   59 (229)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            34668999999999999999998854

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=95.80  E-value=0.0099  Score=51.73  Aligned_cols=22  Identities=27%  Similarity=0.516  Sum_probs=20.0

Q ss_pred             ceeEEEcCCCCChHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~  266 (288)
                      +-++|.||+|+|||++++.|+.
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~   47 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGV   47 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHH
Confidence            5688999999999999999984

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>PRK12269 bifunctional cytidylate kinase/ribosomal protein S1; Provisional

Probab=95.79  E-value=0.0091  Score=62.74  Aligned_cols=30  Identities=33%  Similarity=0.389  Sum_probs=26.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCcEEEE
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFNIYDM  275 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l  275 (288)
                      -+.+-|||||||||+++.+|..|++.+++.
T Consensus        36 ~i~idG~~gsGKst~~~~la~~l~~~~~~~   65 (863)
T PRK12269         36 IIALDGPAGSGKSSVCRLLASRLGAQCLNT   65 (863)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence            367899999999999999999999887653

>KOG0060 consensus Long-chain acyl-CoA transporter, ABC superfamily (involved in peroxisome organization and biogenesis) [Lipid transport and metabolism; General function prediction only]

Probab=95.78  E-value=0.0063  Score=60.44  Aligned_cols=28  Identities=29%  Similarity=0.502  Sum_probs=24.0

Q ss_pred             CcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          241 KVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       241 ~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      ++-...+|++||+|||||||.|++|+..
T Consensus       458 V~~g~~LLItG~sG~GKtSLlRvlggLW  485 (659)
T KOG0060|consen  458 VPSGQNLLITGPSGCGKTSLLRVLGGLW  485 (659)
T ss_pred             ecCCCeEEEECCCCCchhHHHHHHhccc
Confidence            3445679999999999999999999765

>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=95.76  E-value=0.0072  Score=47.24  Aligned_cols=21  Identities=38%  Similarity=0.643  Sum_probs=19.3

Q ss_pred             eEEEcCCCCChHHHHHHHHHH
Q 045456          247 YLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~  267 (288)
                      +++.|+||+||||++.++.+.
T Consensus         2 V~iiG~~~~GKSTlin~l~~~   22 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTGK   22 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            678999999999999999974

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 ....

>COG2074 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]

Probab=95.74  E-value=0.028  Score=50.70  Aligned_cols=40  Identities=28%  Similarity=0.387  Sum_probs=30.0

Q ss_pred             HHHHHhCCc-ccceeEEEcCCCCChHHHHHHHHHHhCCcEE
Q 045456          234 NFYRRVGKV-WKRGYLLFGPPGTGKSSLIAAMANYLKFNIY  273 (288)
Q Consensus       234 ~~~~~~g~~-~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~  273 (288)
                      .++++.... .+.-+|+-|+||+||||+|.-+|..||.+..
T Consensus        78 ~lwR~ir~~~~p~IILIGGasGVGkStIA~ElA~rLgI~~v  118 (299)
T COG2074          78 LLWRRIRKMKRPLIILIGGASGVGKSTIAGELARRLGIRSV  118 (299)
T ss_pred             HHHHHHhccCCCeEEEecCCCCCChhHHHHHHHHHcCCcee
Confidence            344444332 2455888999999999999999999998654

>PTZ00035 Rad51 protein; Provisional

Probab=95.72  E-value=0.014  Score=55.04  Aligned_cols=29  Identities=28%  Similarity=0.178  Sum_probs=23.0

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      |++...-+.++||||||||+++..+|...
T Consensus       114 Gi~~G~iteI~G~~GsGKT~l~~~l~~~~  142 (337)
T PTZ00035        114 GIETGSITELFGEFRTGKTQLCHTLCVTC  142 (337)
T ss_pred             CCCCCeEEEEECCCCCchhHHHHHHHHHh
Confidence            55554457799999999999999887543

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=95.71  E-value=0.025  Score=55.49  Aligned_cols=66  Identities=14%  Similarity=0.155  Sum_probs=53.3

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCC
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYC  282 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  282 (288)
                      ...+..|+|.......+.+.++.-..+           .-.+||.|.+||||..+|++|.+.-   +.||+.+|+..+-.
T Consensus       219 ~~~~~~iIG~S~am~~ll~~i~~VA~S-----------d~tVLi~GETGtGKElvAraIH~~S~R~~kPfV~~NCAAlPe  287 (550)
T COG3604         219 VLEVGGIIGRSPAMRQLLKEIEVVAKS-----------DSTVLIRGETGTGKELVARAIHQLSPRRDKPFVKLNCAALPE  287 (550)
T ss_pred             hcccccceecCHHHHHHHHHHHHHhcC-----------CCeEEEecCCCccHHHHHHHHHhhCcccCCCceeeeccccch
Confidence            347888999998888888877753322           3469999999999999999999876   57999999987643

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.71  E-value=0.0081  Score=52.47  Aligned_cols=26  Identities=27%  Similarity=0.648  Sum_probs=21.9

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      ..-+.+.||+||||||+...+|+...
T Consensus        31 ge~vv~lGpSGcGKTTLLnl~AGf~~   56 (259)
T COG4525          31 GELVVVLGPSGCGKTTLLNLIAGFVT   56 (259)
T ss_pred             CCEEEEEcCCCccHHHHHHHHhcCcC
Confidence            33477899999999999999998764

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=95.70  E-value=0.0066  Score=52.73  Aligned_cols=25  Identities=28%  Similarity=0.562  Sum_probs=21.9

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .-+.|.||+|+|||++.++||+.+.
T Consensus        27 ~~~~l~G~nGsGKSTLl~~l~G~~~   51 (213)
T cd03262          27 EVVVIIGPSGSGKSTLLRCINLLEE   51 (213)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3478999999999999999998764

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=95.69  E-value=0.011  Score=56.76  Aligned_cols=50  Identities=30%  Similarity=0.272  Sum_probs=39.2

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -.|.-++|++..|..|.-...             .+--.|+|+-|+.|||||++++|||..|.
T Consensus        14 ~pf~aivGqd~lk~aL~l~av-------------~P~iggvLI~G~kGtaKSt~~Rala~LLp   63 (423)
T COG1239          14 LPFTAIVGQDPLKLALGLNAV-------------DPQIGGALIAGEKGTAKSTLARALADLLP   63 (423)
T ss_pred             cchhhhcCchHHHHHHhhhhc-------------ccccceeEEecCCCccHHHHHHHHHHhCC
Confidence            367788899888887654322             12245899999999999999999999885

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=95.69  E-value=0.0079  Score=53.41  Aligned_cols=24  Identities=29%  Similarity=0.609  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        30 ~~~l~G~nGsGKSTLl~~l~Gl~~   53 (243)
T TIGR02315        30 FVAIIGPSGAGKSTLLRCINRLVE   53 (243)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcC
Confidence            377999999999999999998763

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=95.69  E-value=0.007  Score=52.61  Aligned_cols=23  Identities=39%  Similarity=0.748  Sum_probs=20.5

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+|||||+++|++.+.
T Consensus        28 ~~i~G~nGsGKSTLl~~l~Gl~~   50 (211)
T cd03264          28 YGLLGPNGAGKTTLMRILATLTP   50 (211)
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            56899999999999999998763

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=95.69  E-value=0.0078  Score=52.26  Aligned_cols=23  Identities=30%  Similarity=0.625  Sum_probs=21.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+|||||+++||+.+.
T Consensus        29 ~~i~G~nGsGKSTLl~~l~G~~~   51 (210)
T cd03269          29 FGLLGPNGAGKTTTIRMILGIIL   51 (210)
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            77999999999999999998763

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=95.68  E-value=0.0076  Score=53.12  Aligned_cols=24  Identities=25%  Similarity=0.476  Sum_probs=21.7

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||+|+++|++.+.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~~   51 (230)
T TIGR03410        28 VTCVLGRNGVGKTTLLKTLMGLLP   51 (230)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            488999999999999999998764

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase

Probab=95.66  E-value=0.0093  Score=59.41  Aligned_cols=29  Identities=21%  Similarity=0.300  Sum_probs=25.0

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCcEEE
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFNIYD  274 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~i~~  274 (288)
                      -++|+|+||+|||++|+.++...|+.++.
T Consensus       371 LVil~G~pGSGKST~A~~l~~~~g~~~vn  399 (526)
T TIGR01663       371 MVIAVGFPGAGKSHFCKKFFQPAGYKHVN  399 (526)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCeEEC
Confidence            47899999999999999999988766553

Note that the EC number for the kinase function is: 2.7.1.78

>PRK09862 putative ATP-dependent protease; Provisional

Probab=95.66  E-value=0.0096  Score=59.04  Aligned_cols=25  Identities=44%  Similarity=0.806  Sum_probs=22.4

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      ..++|.||||||||++++.|++.+.
T Consensus       211 ~~llliG~~GsGKTtLak~L~gllp  235 (506)
T PRK09862        211 HNLLLIGPPGTGKTMLASRINGLLP  235 (506)
T ss_pred             cEEEEECCCCCcHHHHHHHHhccCC
Confidence            4599999999999999999998764

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=95.65  E-value=0.0057  Score=53.66  Aligned_cols=23  Identities=43%  Similarity=0.605  Sum_probs=21.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+|||||+++|++.+.
T Consensus        34 ~~i~G~nGsGKSTLl~~l~G~~~   56 (228)
T cd03257          34 LGLVGESGSGKSTLARAILGLLK   56 (228)
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            78999999999999999998763

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>TIGR00416 sms DNA repair protein RadA

Probab=95.65  E-value=0.018  Score=56.49  Aligned_cols=40  Identities=30%  Similarity=0.357  Sum_probs=30.8

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      |++...-+++.|+||+|||+++..+|..+   +.+++.++..+
T Consensus        90 Gi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EE  132 (454)
T TIGR00416        90 GIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEE  132 (454)
T ss_pred             CccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcC
Confidence            55555558899999999999999887765   35677777654

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)).

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=95.65  E-value=0.0083  Score=52.14  Aligned_cols=24  Identities=33%  Similarity=0.470  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++||+.+.
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~~   52 (214)
T cd03292          29 FVFLVGPSGAGKSTLLKLIYKEEL   52 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            377999999999999999999864

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=95.64  E-value=0.0042  Score=54.85  Aligned_cols=35  Identities=31%  Similarity=0.396  Sum_probs=26.1

Q ss_pred             HHHHhCCcccce--eEEEcCCCCChHHHHHHHHHHhC
Q 045456          235 FYRRVGKVWKRG--YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       235 ~~~~~g~~~~rg--~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .++........|  +.|.||+|+|||||+++|++.+.
T Consensus        37 il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   73 (224)
T cd03220          37 ALKDVSFEVPRGERIGLIGRNGAGKSTLLRLLAGIYP   73 (224)
T ss_pred             EEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            344444444444  77999999999999999998753

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=95.63  E-value=0.0091  Score=50.61  Aligned_cols=25  Identities=36%  Similarity=0.597  Sum_probs=22.0

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .-+.+.||+|+|||+|+++||+.+.
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~~~   53 (178)
T cd03247          29 EKIALLGRSGSGKSTLLQLLTGDLK   53 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccCC
Confidence            3488999999999999999998764

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=95.63  E-value=0.0085  Score=52.91  Aligned_cols=25  Identities=28%  Similarity=0.502  Sum_probs=22.1

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .-+.|.||+|+|||||+++||+.+.
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~G~~~   56 (233)
T cd03258          32 EIFGIIGRSGAGKSTLIRCINGLER   56 (233)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3478999999999999999998874

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=95.63  E-value=0.007  Score=54.19  Aligned_cols=25  Identities=32%  Similarity=0.416  Sum_probs=21.6

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +=+.||+||||||+++++|+...-.
T Consensus        36 lgivGeSGsGKSTL~r~l~Gl~~p~   60 (252)
T COG1124          36 LGIVGESGSGKSTLARLLAGLEKPS   60 (252)
T ss_pred             EEEEcCCCCCHHHHHHHHhcccCCC
Confidence            5589999999999999999877543

>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=95.63  E-value=0.022  Score=45.34  Aligned_cols=32  Identities=25%  Similarity=0.464  Sum_probs=27.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      +++.|.+|+|||+++..+|..+   +.++..++..
T Consensus         2 i~~~GkgG~GKTt~a~~la~~l~~~g~~V~~id~D   36 (116)
T cd02034           2 IAITGKGGVGKTTIAALLARYLAEKGKPVLAIDAD   36 (116)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEECC
Confidence            6899999999999999999877   6777777653

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.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=95.61  E-value=0.0087  Score=51.70  Aligned_cols=24  Identities=33%  Similarity=0.571  Sum_probs=21.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++||+.+.
T Consensus        26 ~~~i~G~nGsGKSTLl~~l~G~~~   49 (206)
T TIGR03608        26 MYAIIGESGSGKSTLLNIIGLLEK   49 (206)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            377999999999999999998764

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=95.61  E-value=0.011  Score=52.03  Aligned_cols=23  Identities=35%  Similarity=0.528  Sum_probs=21.3

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -+.|.||+|+|||||+++|++.+
T Consensus        28 ~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          28 ITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            37799999999999999999987

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.60  E-value=0.016  Score=57.12  Aligned_cols=23  Identities=35%  Similarity=0.603  Sum_probs=20.9

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -++|.||+|+||||++.-||..+
T Consensus       258 Vi~LvGpnGvGKTTTiaKLA~~~  280 (484)
T PRK06995        258 VFALMGPTGVGKTTTTAKLAARC  280 (484)
T ss_pred             EEEEECCCCccHHHHHHHHHHHH
Confidence            37799999999999999999876

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=95.60  E-value=0.0049  Score=54.78  Aligned_cols=34  Identities=21%  Similarity=0.506  Sum_probs=25.4

Q ss_pred             HHHhCCcccce--eEEEcCCCCChHHHHHHHHHHhC
Q 045456          236 YRRVGKVWKRG--YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       236 ~~~~g~~~~rg--~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      ++.+......|  +.|.||+|+|||||+++||+.+.
T Consensus        37 l~~vs~~i~~Ge~~~i~G~NGsGKSTLl~~i~Gl~~   72 (236)
T cd03267          37 LKGISFTIEKGEIVGFIGPNGAGKTTTLKILSGLLQ   72 (236)
T ss_pred             eeceeEEEcCCCEEEEECCCCCCHHHHHHHHhCCcC
Confidence            33333344444  77999999999999999998763

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=95.58  E-value=0.01  Score=50.07  Aligned_cols=24  Identities=29%  Similarity=0.602  Sum_probs=21.7

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||++.++|++.+.
T Consensus        30 ~~~l~G~nGsGKstLl~~i~G~~~   53 (171)
T cd03228          30 KVAIVGPSGSGKSTLLKLLLRLYD   53 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCC
Confidence            378999999999999999999864

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=95.58  E-value=0.0089  Score=54.64  Aligned_cols=26  Identities=31%  Similarity=0.560  Sum_probs=23.7

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      +++++.||||+|||++.+++++.+..
T Consensus       112 ~~~~i~g~~g~GKttl~~~l~~~~~~  137 (270)
T TIGR02858       112 LNTLIISPPQCGKTTLLRDLARILST  137 (270)
T ss_pred             eEEEEEcCCCCCHHHHHHHHhCccCC
Confidence            57999999999999999999998854

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=95.56  E-value=0.0055  Score=55.63  Aligned_cols=34  Identities=24%  Similarity=0.546  Sum_probs=25.9

Q ss_pred             HHHhCCcccce--eEEEcCCCCChHHHHHHHHHHhC
Q 045456          236 YRRVGKVWKRG--YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       236 ~~~~g~~~~rg--~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      ++.+......|  +.|.||+|+|||||+++|++.+.
T Consensus        40 l~~is~~i~~Ge~~~l~G~nGsGKSTLl~~L~Gl~~   75 (269)
T cd03294          40 VNDVSLDVREGEIFVIMGLSGSGKSTLLRCINRLIE   75 (269)
T ss_pred             eeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            33333444445  77999999999999999999874

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=95.56  E-value=0.034  Score=53.95  Aligned_cols=62  Identities=16%  Similarity=0.178  Sum_probs=43.1

Q ss_pred             ccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCC
Q 045456          209 FDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVY  281 (288)
Q Consensus       209 ~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~  281 (288)
                      +..+++.......+.+.+.....           ....+|++|++||||+++|+++....   +.|++.+++..+.
T Consensus       142 ~~~ii~~S~~~~~~~~~~~~~a~-----------~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~~~i~c~~~~  206 (457)
T PRK11361        142 WGHILTNSPAMMDICKDTAKIAL-----------SQASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALP  206 (457)
T ss_pred             ccceecccHHHhHHHHHHHHHcC-----------CCcEEEEEcCCCccHHHHHHHHHHhCCCCCCCeEEEECCCCC
Confidence            34455555544445444443221           23469999999999999999998764   5799999988764

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=95.54  E-value=0.0095  Score=52.76  Aligned_cols=24  Identities=33%  Similarity=0.631  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++||+.+.
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~Gl~~   52 (241)
T cd03256          29 FVALIGPSGAGKSTLLRCLNGLVE   52 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcC
Confidence            377999999999999999998763

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=95.53  E-value=0.016  Score=54.12  Aligned_cols=40  Identities=15%  Similarity=0.045  Sum_probs=29.0

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHH---------hCCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANY---------LKFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~---------l~~~i~~l~~~~  279 (288)
                      |++...-.+++||||||||.++..+|-.         .+-.++.++..+
T Consensus        92 Gi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~  140 (313)
T TIGR02238        92 GIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEG  140 (313)
T ss_pred             CCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCC
Confidence            5665555889999999999999877632         244667776554

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.

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=95.53  E-value=0.012  Score=55.15  Aligned_cols=28  Identities=29%  Similarity=0.413  Sum_probs=25.0

Q ss_pred             ccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          243 WKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       243 ~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+.++||+||+|+||+++|+++|+.+.+
T Consensus        23 l~HA~Lf~G~~G~GK~~lA~~~A~~llC   50 (325)
T PRK06871         23 GHHALLFKADSGLGTEQLIRALAQWLMC   50 (325)
T ss_pred             cceeEEeECCCCCCHHHHHHHHHHHHcC
Confidence            3568999999999999999999998854

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=95.53  E-value=0.0088  Score=51.80  Aligned_cols=23  Identities=35%  Similarity=0.560  Sum_probs=21.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+|||||.++||+.+.
T Consensus        29 ~~i~G~nGsGKSTLl~~l~Gl~~   51 (205)
T cd03226          29 IALTGKNGAGKTTLAKILAGLIK   51 (205)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCC
Confidence            78999999999999999998763

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=95.51  E-value=0.0079  Score=52.18  Aligned_cols=22  Identities=41%  Similarity=0.658  Sum_probs=20.6

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.+.||+|+|||+|+++|++.+
T Consensus        37 ~~i~G~nGsGKSTLl~~l~Gl~   58 (207)
T cd03369          37 IGIVGRTGAGKSTLILALFRFL   58 (207)
T ss_pred             EEEECCCCCCHHHHHHHHhccc
Confidence            7799999999999999999875

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=95.51  E-value=0.012  Score=59.63  Aligned_cols=34  Identities=29%  Similarity=0.395  Sum_probs=29.3

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCC--cEEEEec
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKF--NIYDMEL  277 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~--~i~~l~~  277 (288)
                      -.|+||.|+||||||++++++++.+..  ||..+..
T Consensus        16 ~g~vLl~G~~GtgKs~lar~l~~~~~~~~pfv~i~~   51 (589)
T TIGR02031        16 LGGVAIRARAGTGKTALARALAEILPPIMPFVELPL   51 (589)
T ss_pred             cceEEEEcCCCcHHHHHHHHHHHhCCcCCCeEecCc
Confidence            458999999999999999999998864  5777764

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=95.49  E-value=0.01  Score=52.13  Aligned_cols=23  Identities=30%  Similarity=0.716  Sum_probs=21.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+|||||.++||+.+.
T Consensus        32 ~~i~G~nGsGKSTLl~~l~G~~~   54 (229)
T cd03254          32 VAIVGPTGAGKTTLINLLMRFYD   54 (229)
T ss_pred             EEEECCCCCCHHHHHHHHhcCcC
Confidence            78999999999999999998863

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=95.49  E-value=0.011  Score=52.11  Aligned_cols=23  Identities=39%  Similarity=0.650  Sum_probs=21.0

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -+.|.||+|+|||+|+++|++.+
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~G~~   57 (225)
T PRK10247         35 FKLITGPSGCGKSTLLKIVASLI   57 (225)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            37899999999999999999875

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=95.49  E-value=0.026  Score=52.17  Aligned_cols=23  Identities=22%  Similarity=0.288  Sum_probs=20.4

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +-+.||+|+||||+++.|+..+.
T Consensus        65 IGIaG~~GSGKSTlar~L~~ll~   87 (290)
T TIGR00554        65 ISIAGSVAVGKSTTARILQALLS   87 (290)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            55899999999999999988875

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.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=95.48  E-value=0.01  Score=51.49  Aligned_cols=23  Identities=39%  Similarity=0.746  Sum_probs=21.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+|||||+++|++.+.
T Consensus        30 ~~l~G~nGsGKSTLl~~l~G~~~   52 (211)
T cd03225          30 VLIVGPNGSGKSTLLRLLNGLLG   52 (211)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCC
Confidence            77999999999999999998764

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PLN02796 D-glycerate 3-kinase

Probab=95.48  E-value=0.058  Score=50.97  Aligned_cols=33  Identities=18%  Similarity=0.355  Sum_probs=25.5

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC---cEEEEecCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF---NIYDMELTS  279 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~---~i~~l~~~~  279 (288)
                      +-+.||+||||||++++|+..+..   ....++..+
T Consensus       103 IGI~G~sGSGKSTLa~~L~~lL~~~g~~~g~IsiDd  138 (347)
T PLN02796        103 IGISAPQGCGKTTLVFALVYLFNATGRRAASLSIDD  138 (347)
T ss_pred             EEEECCCCCcHHHHHHHHHHHhcccCCceeEEEECC
Confidence            457899999999999999999853   355555443

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=95.48  E-value=0.01  Score=52.58  Aligned_cols=24  Identities=33%  Similarity=0.681  Sum_probs=21.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~~   51 (235)
T cd03261          28 ILAIIGPSGSGKSTLLRLIVGLLR   51 (235)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            377999999999999999998764

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=95.47  E-value=0.01  Score=51.74  Aligned_cols=24  Identities=29%  Similarity=0.455  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~Gl~~   54 (216)
T TIGR00960        31 MVFLVGHSGAGKSTFLKLILGIEK   54 (216)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            377999999999999999999764

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.46  E-value=0.011  Score=50.87  Aligned_cols=23  Identities=35%  Similarity=0.469  Sum_probs=21.1

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -+.|.||+|+|||+|+++||+.+
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         28 ITYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999999976

>cd04155 Arl3 Arl3 subfamily

Probab=95.46  E-value=0.011  Score=49.14  Aligned_cols=24  Identities=21%  Similarity=0.462  Sum_probs=21.6

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHH
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      ..-+++.||+|+|||+++.++.+.
T Consensus        14 ~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          14 EPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             ccEEEEEccCCCCHHHHHHHHhcC
Confidence            446999999999999999999986

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.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=95.46  E-value=0.011  Score=51.48  Aligned_cols=24  Identities=29%  Similarity=0.541  Sum_probs=21.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~~   51 (213)
T cd03301          28 FVVLLGPSGCGKTTTLRMIAGLEE   51 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            378999999999999999998763

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=95.45  E-value=0.013  Score=49.51  Aligned_cols=23  Identities=35%  Similarity=0.704  Sum_probs=21.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.+.||+|+|||+|.++||+.+.
T Consensus        31 ~~i~G~nGsGKStLl~~l~G~~~   53 (173)
T cd03246          31 LAIIGPSGSGKSTLARLILGLLR   53 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHhccC
Confidence            78999999999999999998764

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=95.44  E-value=0.011  Score=51.79  Aligned_cols=24  Identities=25%  Similarity=0.423  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++||+.+.
T Consensus        33 ~~~i~G~nGsGKSTLl~~i~G~~~   56 (221)
T TIGR02211        33 IVAIVGSSGSGKSTLLHLLGGLDN   56 (221)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            377999999999999999998764

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A

Probab=95.44  E-value=0.0093  Score=50.49  Aligned_cols=27  Identities=33%  Similarity=0.655  Sum_probs=22.1

Q ss_pred             cce-eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          244 KRG-YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       244 ~rg-~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..| .+++||.|+||||++.||.-.|+-
T Consensus        18 ~~g~~vi~G~Ng~GKStil~ai~~~L~~   45 (202)
T PF13476_consen   18 SPGLNVIYGPNGSGKSTILEAIRYALGG   45 (202)
T ss_dssp             -SEEEEEEESTTSSHHHHHHHHHHHHHS
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHHcC
Confidence            335 578999999999999999987754

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=95.42  E-value=0.011  Score=50.54  Aligned_cols=24  Identities=33%  Similarity=0.592  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        20 ~~~i~G~nGsGKSTLl~~i~G~~~   43 (190)
T TIGR01166        20 VLALLGANGAGKSTLLLHLNGLLR   43 (190)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            377999999999999999998764

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>cd00879 Sar1 Sar1 subfamily

Probab=95.42  E-value=0.027  Score=47.63  Aligned_cols=31  Identities=23%  Similarity=0.430  Sum_probs=24.0

Q ss_pred             HHHhCCcccce-eEEEcCCCCChHHHHHHHHH
Q 045456          236 YRRVGKVWKRG-YLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       236 ~~~~g~~~~rg-~LL~GPpGtGKTsla~aiA~  266 (288)
                      +..+|...+++ +++.||+|+|||+++.++.+
T Consensus        10 ~~~~~~~~~~~ki~ilG~~~~GKStLi~~l~~   41 (190)
T cd00879          10 LSSLGLYNKEAKILFLGLDNAGKTTLLHMLKD   41 (190)
T ss_pred             HHHhhcccCCCEEEEECCCCCCHHHHHHHHhc
Confidence            44455544444 88999999999999999986

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.

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=95.40  E-value=0.0096  Score=52.92  Aligned_cols=24  Identities=38%  Similarity=0.616  Sum_probs=21.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++||+.+.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~G~~~   53 (242)
T PRK11124         30 TLVLLGPSGAGKSSLLRVLNLLEM   53 (242)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            388999999999999999998763

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=95.39  E-value=0.015  Score=55.04  Aligned_cols=40  Identities=15%  Similarity=0.086  Sum_probs=28.1

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---------CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---------KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~~  279 (288)
                      |++...-..++||||||||.+|..+|-..         +-.++.++...
T Consensus       122 Gi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~  170 (344)
T PLN03187        122 GIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEG  170 (344)
T ss_pred             CCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCC
Confidence            55555557799999999999998876322         24566666543

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=95.39  E-value=0.011  Score=48.55  Aligned_cols=25  Identities=36%  Similarity=0.484  Sum_probs=21.9

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .-+.+.||+|+|||+++++|++.+.
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~~   51 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAGELE   51 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCCC
Confidence            3478999999999999999998764

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.39  E-value=0.012  Score=52.55  Aligned_cols=24  Identities=33%  Similarity=0.641  Sum_probs=21.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++||+.+.
T Consensus        31 ~~~i~G~nGsGKSTLl~~i~G~~~   54 (250)
T PRK14247         31 ITALMGPSGSGKSTLLRVFNRLIE   54 (250)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCC
Confidence            377999999999999999999864

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=95.39  E-value=0.0096  Score=52.05  Aligned_cols=24  Identities=29%  Similarity=0.509  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl~~   51 (222)
T cd03224          28 IVALLGRNGAGKTTLLKTIMGLLP   51 (222)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            378999999999999999998764

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=95.38  E-value=0.012  Score=51.73  Aligned_cols=23  Identities=43%  Similarity=0.472  Sum_probs=18.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -+.+.||+|||||.+|.+.|-++
T Consensus        21 ~v~~~G~AGTGKT~LA~a~Al~~   43 (205)
T PF02562_consen   21 LVIVNGPAGTGKTFLALAAALEL   43 (205)
T ss_dssp             EEEEE--TTSSTTHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Confidence            47789999999999999999765

; GO: 0005524 ATP binding; PDB: 3B85_A.

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=95.38  E-value=0.0089  Score=52.26  Aligned_cols=23  Identities=35%  Similarity=0.508  Sum_probs=20.9

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -+.+.||+|+|||+|+++||+.+
T Consensus        32 ~~~i~G~nGsGKSTLl~~l~G~~   54 (221)
T cd03244          32 KVGIVGRTGSGKSSLLLALFRLV   54 (221)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37799999999999999999875

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors

Probab=95.37  E-value=0.012  Score=51.88  Aligned_cols=25  Identities=24%  Similarity=0.587  Sum_probs=22.2

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .-+.|.||+|+|||||++.|++.+.
T Consensus        34 e~~~l~G~nGsGKSTLlk~l~G~~~   58 (226)
T cd03234          34 QVMAILGSSGSGKTTLLDAISGRVE   58 (226)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCccC
Confidence            3478999999999999999998875

The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=95.37  E-value=0.013  Score=49.34  Aligned_cols=24  Identities=50%  Similarity=0.731  Sum_probs=21.7

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.+.||+|+|||+++++|++.+.
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~~   52 (166)
T cd03223          29 RLLITGPSGTGKSSLFRALAGLWP   52 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            378999999999999999998764

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=95.37  E-value=0.029  Score=52.82  Aligned_cols=28  Identities=29%  Similarity=0.485  Sum_probs=24.8

Q ss_pred             ccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          243 WKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       243 ~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+.++||+||+|+||+++|.++|..+-+
T Consensus        23 l~HA~Lf~G~~G~Gk~~lA~~~A~~LlC   50 (334)
T PRK07993         23 GHHALLIQALPGMGDDALIYALSRWLMC   50 (334)
T ss_pred             cceEEeeECCCCCCHHHHHHHHHHHHcC
Confidence            3568999999999999999999998844

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=95.36  E-value=0.018  Score=54.23  Aligned_cols=32  Identities=28%  Similarity=0.423  Sum_probs=24.2

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh---CCcEEEEec
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL---KFNIYDMEL  277 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  277 (288)
                      -+-+.||||+||||++.+++..+   |.++..+..
T Consensus        58 ~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~   92 (332)
T PRK09435         58 RIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLAV   92 (332)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEe
Confidence            36689999999999999987776   445544443

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=95.36  E-value=0.011  Score=52.25  Aligned_cols=24  Identities=33%  Similarity=0.646  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~Gl~~   51 (236)
T cd03219          28 IHGLIGPNGAGKTTLFNLISGFLR   51 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCC
Confidence            377999999999999999998763

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=95.34  E-value=0.0093  Score=51.90  Aligned_cols=24  Identities=42%  Similarity=0.670  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~G~~~   50 (213)
T cd03235          27 FLAIVGPNGAGKSTLLKAILGLLK   50 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCC
Confidence            377999999999999999998763

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.33  E-value=0.012  Score=49.23  Aligned_cols=24  Identities=33%  Similarity=0.528  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||+|.++|++.+.
T Consensus        28 ~~~l~G~nGsGKSTLl~~i~G~~~   51 (163)
T cd03216          28 VHALLGENGAGKSTLMKILSGLYK   51 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            478999999999999999998763

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=95.32  E-value=0.012  Score=51.60  Aligned_cols=23  Identities=39%  Similarity=0.676  Sum_probs=21.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+|||||+++|++.+.
T Consensus        33 ~~i~G~nGsGKSTLl~~l~Gl~~   55 (220)
T cd03293          33 VALVGPSGCGKSTLLRIIAGLER   55 (220)
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            77999999999999999998763

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=95.31  E-value=0.039  Score=57.15  Aligned_cols=33  Identities=24%  Similarity=0.354  Sum_probs=24.8

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh---C--CcEEEEec
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL---K--FNIYDMEL  277 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l---~--~~i~~l~~  277 (288)
                      +-.++.|+||||||++++++...+   +  .+++.+..
T Consensus       339 ~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~Ap  376 (720)
T TIGR01448       339 KVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAP  376 (720)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeC
Confidence            357899999999999999987655   4  45555443

This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=95.31  E-value=0.012  Score=49.98  Aligned_cols=23  Identities=39%  Similarity=0.729  Sum_probs=20.9

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+|||+|+++|++.+.
T Consensus        29 ~~i~G~nGsGKSTLl~~l~G~~~   51 (178)
T cd03229          29 VALLGPSGSGKSTLLRCIAGLEE   51 (178)
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            67999999999999999998764

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=95.29  E-value=0.012  Score=51.39  Aligned_cols=25  Identities=36%  Similarity=0.547  Sum_probs=22.4

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .-+.|.||+|+|||||+++|++.+.
T Consensus        24 e~~~i~G~nGsGKSTLl~~l~G~~~   48 (214)
T cd03297          24 EVTGIFGASGAGKSTLLRCIAGLEK   48 (214)
T ss_pred             eeEEEECCCCCCHHHHHHHHhCCCC
Confidence            5678999999999999999998864

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.29  E-value=0.013  Score=49.89  Aligned_cols=24  Identities=21%  Similarity=0.191  Sum_probs=21.7

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||+|.++||+.+.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~~   51 (182)
T cd03215          28 IVGIAGLVGNGQTELAEALFGLRP   51 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            378999999999999999999864

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=95.28  E-value=0.013  Score=52.03  Aligned_cols=24  Identities=33%  Similarity=0.625  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~~   53 (239)
T cd03296          30 LVALLGPSGSGKTTLLRLIAGLER   53 (239)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            377999999999999999998764

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=95.28  E-value=0.013  Score=51.19  Aligned_cols=23  Identities=26%  Similarity=0.573  Sum_probs=21.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+|||+|+++|++.+.
T Consensus        31 ~~i~G~nGsGKSTLl~~l~Gl~~   53 (220)
T cd03263          31 FGLLGHNGAGKTTTLKMLTGELR   53 (220)
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            77999999999999999998764

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.28  E-value=0.013  Score=52.18  Aligned_cols=37  Identities=30%  Similarity=0.528  Sum_probs=26.4

Q ss_pred             HHHhCCcccce--eEEEcCCCCChHHHHHHHHHHhCCcE
Q 045456          236 YRRVGKVWKRG--YLLFGPPGTGKSSLIAAMANYLKFNI  272 (288)
Q Consensus       236 ~~~~g~~~~rg--~LL~GPpGtGKTsla~aiA~~l~~~i  272 (288)
                      ++.+....+.|  ..+.||.|+|||||+.+|++.-++.+
T Consensus        20 LkgvnL~v~~GEvhaiMGPNGsGKSTLa~~i~G~p~Y~V   58 (251)
T COG0396          20 LKGVNLTVKEGEVHAIMGPNGSGKSTLAYTIMGHPKYEV   58 (251)
T ss_pred             hcCcceeEcCCcEEEEECCCCCCHHHHHHHHhCCCCceE
Confidence            33334444555  56899999999999999996555443

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=95.27  E-value=0.013  Score=51.82  Aligned_cols=24  Identities=25%  Similarity=0.440  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        37 ~~~l~G~nGsGKSTLl~~l~Gl~~   60 (233)
T PRK11629         37 MMAIVGSSGSGKSTLLHLLGGLDT   60 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            377999999999999999998764

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=95.27  E-value=0.013  Score=51.09  Aligned_cols=24  Identities=33%  Similarity=0.566  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~~   56 (218)
T cd03266          33 VTGLLGPNGAGKTTTLRMLAGLLE   56 (218)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcC
Confidence            378999999999999999998763

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function

Probab=95.27  E-value=0.017  Score=50.20  Aligned_cols=23  Identities=39%  Similarity=0.625  Sum_probs=20.5

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||.|+|||+++++|+..++
T Consensus        25 ~~i~G~nGsGKStll~al~~l~~   47 (197)
T cd03278          25 TAIVGPNGSGKSNIIDAIRWVLG   47 (197)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            56899999999999999997764

Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w

>COG0802 Predicted ATPase or kinase [General function prediction only]

Probab=95.27  E-value=0.017  Score=47.99  Aligned_cols=26  Identities=35%  Similarity=0.460  Sum_probs=23.5

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .-++|.|+=|.|||+++++||+.+|.
T Consensus        26 ~Vv~L~GdLGAGKTtf~rgi~~~Lg~   51 (149)
T COG0802          26 DVVLLSGDLGAGKTTLVRGIAKGLGV   51 (149)
T ss_pred             CEEEEEcCCcCChHHHHHHHHHHcCC
Confidence            34889999999999999999999984

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=95.26  E-value=0.013  Score=50.52  Aligned_cols=24  Identities=38%  Similarity=0.599  Sum_probs=21.7

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .-+.|.||+|+|||+|.++||+.+
T Consensus        36 e~~~l~G~nGsGKStLl~~i~Gl~   59 (194)
T cd03213          36 ELTAIMGPSGAGKSTLLNALAGRR   59 (194)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            348899999999999999999977

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.26  E-value=0.015  Score=52.04  Aligned_cols=25  Identities=24%  Similarity=0.500  Sum_probs=22.1

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .-+.|.||+|+|||+|+++||+.+.
T Consensus        31 e~~~i~G~nGsGKSTLl~~l~Gl~~   55 (252)
T PRK14256         31 SVTAIIGPSGCGKSTVLRSINRMHD   55 (252)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhccc
Confidence            3488999999999999999999863

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=95.26  E-value=0.013  Score=52.50  Aligned_cols=25  Identities=32%  Similarity=0.519  Sum_probs=22.1

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .-+.|.||+|+|||||+++|++.+.
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~G~~~   54 (253)
T TIGR02323        30 EVLGIVGESGSGKSTLLGCLAGRLA   54 (253)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3488999999999999999999864

Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.25  E-value=0.011  Score=53.06  Aligned_cols=24  Identities=29%  Similarity=0.508  Sum_probs=21.7

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~Gl~~   58 (254)
T PRK14273         35 ITALIGPSGCGKSTFLRTLNRMND   58 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHhcccc
Confidence            377999999999999999998775

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=95.24  E-value=0.014  Score=51.13  Aligned_cols=24  Identities=38%  Similarity=0.670  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||.++||+.+.
T Consensus        28 ~~~i~G~nGsGKSTLl~~i~G~~~   51 (220)
T cd03265          28 IFGLLGPNGAGKTTTIKMLTTLLK   51 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            377999999999999999998764

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=95.24  E-value=0.022  Score=53.25  Aligned_cols=40  Identities=20%  Similarity=0.116  Sum_probs=28.8

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHhC---------CcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLK---------FNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l~---------~~i~~l~~~~  279 (288)
                      |++...-+.++||||+|||+++..+|....         -.++.++..+
T Consensus        92 Gi~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~  140 (316)
T TIGR02239        92 GIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEG  140 (316)
T ss_pred             CCCCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCC
Confidence            555555578999999999999998886322         2556666654

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.23  E-value=0.014  Score=50.36  Aligned_cols=24  Identities=33%  Similarity=0.498  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||+++++|++...
T Consensus        29 ~~~l~G~nGsGKSTLl~~i~G~~~   52 (200)
T PRK13540         29 LLHLKGSNGAGKTTLLKLIAGLLN   52 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            378999999999999999998763

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=95.23  E-value=0.013  Score=51.97  Aligned_cols=24  Identities=25%  Similarity=0.400  Sum_probs=21.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||+|+++||+.+.
T Consensus        31 ~~~l~G~nGsGKSTLl~~l~G~~~   54 (241)
T PRK10895         31 IVGLLGPNGAGKTTTFYMVVGIVP   54 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            478999999999999999999763

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=95.22  E-value=0.014  Score=51.43  Aligned_cols=24  Identities=29%  Similarity=0.474  Sum_probs=21.3

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++||+.+.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~Gl~~   51 (232)
T cd03218          28 IVGLLGPNGAGKTTTFYMIVGLVK   51 (232)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            377999999999999999998763

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=95.22  E-value=0.015  Score=51.35  Aligned_cols=23  Identities=35%  Similarity=0.758  Sum_probs=21.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+|||||+++||+.+.
T Consensus        31 ~~i~G~nGsGKSTLl~~l~Gl~~   53 (234)
T cd03251          31 VALVGPSGSGKSTLVNLIPRFYD   53 (234)
T ss_pred             EEEECCCCCCHHHHHHHHhcccc
Confidence            77999999999999999998863

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=95.21  E-value=0.014  Score=51.59  Aligned_cols=23  Identities=26%  Similarity=0.590  Sum_probs=21.2

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -+.|.||+|+|||||+++||+.+
T Consensus        31 ~~~l~G~nGsGKSTLl~~i~G~~   53 (238)
T cd03249          31 TVALVGSSGCGKSTVVSLLERFY   53 (238)
T ss_pred             EEEEEeCCCCCHHHHHHHHhccC
Confidence            37899999999999999999886

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

>cd01878 HflX HflX subfamily

Probab=95.21  E-value=0.043  Score=47.11  Aligned_cols=23  Identities=30%  Similarity=0.387  Sum_probs=20.4

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .-+.+.|+||+||||+..++.+.
T Consensus        42 ~~I~iiG~~g~GKStLl~~l~~~   64 (204)
T cd01878          42 PTVALVGYTNAGKSTLFNALTGA   64 (204)
T ss_pred             CeEEEECCCCCCHHHHHHHHhcc
Confidence            35889999999999999999875

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.

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=95.21  E-value=0.014  Score=52.65  Aligned_cols=23  Identities=30%  Similarity=0.811  Sum_probs=21.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+|||||+++|++.+.
T Consensus        30 ~~i~G~nGsGKSTLl~~l~Gl~~   52 (255)
T PRK11248         30 LVVLGPSGCGKTTLLNLIAGFVP   52 (255)
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            77999999999999999998763

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=95.21  E-value=0.017  Score=51.67  Aligned_cols=25  Identities=36%  Similarity=0.675  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      +.|+.||||||||++.+-||..+..
T Consensus       139 ntLiigpP~~GKTTlLRdiaR~~s~  163 (308)
T COG3854         139 NTLIIGPPQVGKTTLLRDIARLLSD  163 (308)
T ss_pred             eeEEecCCCCChHHHHHHHHHHhhc
Confidence            4788999999999999999987643

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=95.20  E-value=0.015  Score=51.21  Aligned_cols=24  Identities=38%  Similarity=0.564  Sum_probs=21.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++||+.+.
T Consensus        38 ~~~i~G~nGsGKSTLl~~i~Gl~~   61 (228)
T PRK10584         38 TIALIGESGSGKSTLLAILAGLDD   61 (228)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCC
Confidence            488999999999999999998764

>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.20  E-value=0.014  Score=52.16  Aligned_cols=24  Identities=25%  Similarity=0.512  Sum_probs=21.3

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        31 ~~~i~G~nGsGKSTLl~~i~Gl~~   54 (250)
T PRK14262         31 ITAIIGPSGCGKTTLLRSINRMND   54 (250)
T ss_pred             EEEEECCCCCCHHHHHHHHhcccc
Confidence            377999999999999999998654

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=95.20  E-value=0.015  Score=49.42  Aligned_cols=24  Identities=42%  Similarity=0.675  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||+++++|++.+.
T Consensus        27 ~~~l~G~nGsGKStLl~~i~G~~~   50 (180)
T cd03214          27 IVGILGPNGAGKSTLLKTLAGLLK   50 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            378999999999999999998763

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D

Probab=95.19  E-value=0.011  Score=52.31  Aligned_cols=25  Identities=32%  Similarity=0.683  Sum_probs=22.3

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .-+.|.||+|+|||+|.++||+.+.
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~g~~~   51 (232)
T cd03300          27 EFFTLLGPSGCGKTTLLRLIAGFET   51 (232)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3488999999999999999999874

PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=95.19  E-value=0.022  Score=47.15  Aligned_cols=26  Identities=46%  Similarity=0.640  Sum_probs=22.7

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .-+.+.||+|+|||+++++|++.+..
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~~~   51 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLLKP   51 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            34789999999999999999998754

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=95.18  E-value=0.014  Score=50.50  Aligned_cols=24  Identities=29%  Similarity=0.610  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.+.||+|+|||+|+++|++.+.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl~~   51 (208)
T cd03268          28 IYGFLGPNGAGKTTTMKIILGLIK   51 (208)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcC
Confidence            377999999999999999998763

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=95.18  E-value=0.025  Score=48.12  Aligned_cols=22  Identities=45%  Similarity=0.815  Sum_probs=19.6

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .++.||||+|||+++..+|..+
T Consensus        35 ~~i~g~~g~GKT~~~~~l~~~~   56 (193)
T PF13481_consen   35 TLIAGPPGSGKTTLALQLAAAL   56 (193)
T ss_dssp             EEEEECSTSSHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHH
Confidence            7789999999999998888765

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=95.18  E-value=0.015  Score=49.11  Aligned_cols=24  Identities=46%  Similarity=0.748  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.+.||+|+|||+|.++||+.+.
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~~   51 (173)
T cd03230          28 IYGLLGPNGAGKTTLIKIILGLLK   51 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            377999999999999999998763

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=95.18  E-value=0.014  Score=52.23  Aligned_cols=24  Identities=29%  Similarity=0.573  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~~   51 (252)
T TIGR03005        28 KVALIGPSGSGKSTILRILMTLEP   51 (252)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            378999999999999999998764

Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.

>TIGR00767 rho transcription termination factor Rho

Probab=95.16  E-value=0.017  Score=55.66  Aligned_cols=24  Identities=29%  Similarity=0.524  Sum_probs=21.9

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      +++.||||||||++++.|++.+..
T Consensus       171 ~~IvG~~g~GKTtL~~~i~~~I~~  194 (415)
T TIGR00767       171 GLIVAPPKAGKTVLLQKIAQAITR  194 (415)
T ss_pred             EEEECCCCCChhHHHHHHHHhhcc
Confidence            899999999999999999998643

Members of this family differ in the specificity of RNA binding.

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=95.16  E-value=0.015  Score=51.85  Aligned_cols=23  Identities=26%  Similarity=0.603  Sum_probs=21.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+|||||+++|++.+.
T Consensus        32 ~~i~G~nGsGKSTLl~~l~G~~~   54 (250)
T PRK11264         32 VAIIGPSGSGKTTLLRCINLLEQ   54 (250)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCC
Confidence            77999999999999999998764

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.16  E-value=0.018  Score=51.73  Aligned_cols=24  Identities=29%  Similarity=0.576  Sum_probs=21.7

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++||+.+.
T Consensus        40 ~~~l~G~nGsGKSTLl~~l~G~~~   63 (259)
T PRK14274         40 VTAIIGPSGCGKSTFIKTLNLMIQ   63 (259)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhcc
Confidence            378999999999999999998764

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=95.15  E-value=0.015  Score=51.55  Aligned_cols=24  Identities=33%  Similarity=0.548  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~~   52 (236)
T TIGR03864        29 FVALLGPNGAGKSTLFSLLTRLYV   52 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcC
Confidence            477999999999999999998763

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=95.15  E-value=0.02  Score=48.32  Aligned_cols=28  Identities=39%  Similarity=0.510  Sum_probs=22.0

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCcE
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFNI  272 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~i  272 (288)
                      +-.+|.||+|+|||||+.++........
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~~~~~t   63 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPEAKQKT   63 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTSS----
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcchhh
Confidence            5789999999999999999998765443

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=95.15  E-value=0.033  Score=55.24  Aligned_cols=40  Identities=23%  Similarity=0.193  Sum_probs=31.0

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      |++...-++++||||+|||+++..++.+.   |.+++.++..+
T Consensus       269 G~~~g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e~  311 (509)
T PRK09302        269 GFFRGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEE  311 (509)
T ss_pred             CCCCCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecC
Confidence            56555558899999999999998887543   67787777654

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=95.15  E-value=0.015  Score=50.76  Aligned_cols=26  Identities=31%  Similarity=0.666  Sum_probs=22.6

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      ..-+.|.||+|+|||+++++|++.+.
T Consensus        24 Ge~~~i~G~nGsGKSTLl~~l~G~~~   49 (213)
T TIGR01277        24 GEIVAIMGPSGAGKSTLLNLIAGFIE   49 (213)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCCC
Confidence            34488999999999999999998863

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=95.14  E-value=0.014  Score=51.73  Aligned_cols=22  Identities=36%  Similarity=0.593  Sum_probs=20.5

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.|.||+|+|||||+++|++.+
T Consensus        29 ~~i~G~nGsGKSTLl~~l~Gl~   50 (243)
T TIGR01978        29 HAIMGPNGSGKSTLSKTIAGHP   50 (243)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999999874

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase

Probab=95.13  E-value=0.036  Score=52.33  Aligned_cols=26  Identities=27%  Similarity=0.630  Sum_probs=23.5

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      ++.+++.||+|+|||++.+++..++.
T Consensus       178 ~~~ili~G~tGsGKTTll~al~~~i~  203 (340)
T TIGR03819       178 RLAFLISGGTGSGKTTLLSALLALVA  203 (340)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHccCC
Confidence            56799999999999999999998875

Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=95.13  E-value=0.016  Score=50.12  Aligned_cols=24  Identities=42%  Similarity=0.635  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.+.||+|+|||+++++|++.+.
T Consensus        33 ~~~i~G~nG~GKSTLl~~i~G~~~   56 (204)
T cd03250          33 LVAIVGPVGSGKSSLLSALLGELE   56 (204)
T ss_pred             EEEEECCCCCCHHHHHHHHhCcCC
Confidence            378999999999999999998764

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>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=95.13  E-value=0.018  Score=52.17  Aligned_cols=38  Identities=32%  Similarity=0.582  Sum_probs=26.7

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh-----CCcEEEEecCCCCCcc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL-----KFNIYDMELTSVYCNS  284 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~~~  284 (288)
                      +=+.||||.|||||+.+++.++     ..-++-++.++-.+..
T Consensus        32 iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGG   74 (266)
T PF03308_consen   32 IGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGG   74 (266)
T ss_dssp             EEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC--
T ss_pred             EEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCC
Confidence            3379999999999999999877     3457777877766543

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.

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=95.13  E-value=0.016  Score=50.66  Aligned_cols=23  Identities=30%  Similarity=0.533  Sum_probs=21.0

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -+.|.||+|+|||+|+++|++.+
T Consensus        32 ~~~i~G~nGsGKSTLl~~i~G~~   54 (220)
T cd03245          32 KVAIIGRVGSGKSTLLKLLAGLY   54 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCc
Confidence            37799999999999999999876

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=95.13  E-value=0.027  Score=57.31  Aligned_cols=23  Identities=35%  Similarity=0.534  Sum_probs=19.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -.++.|+||||||++++.+...+
T Consensus       169 ~~vItGgpGTGKTt~v~~ll~~l  191 (615)
T PRK10875        169 ISVISGGPGTGKTTTVAKLLAAL  191 (615)
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHH
Confidence            47889999999999988877655

>TIGR03238 dnd_assoc_3 dnd system-associated protein 3

Probab=95.11  E-value=0.019  Score=56.30  Aligned_cols=40  Identities=30%  Similarity=0.503  Sum_probs=28.5

Q ss_pred             hhhHHHHHHHHHHhhcHHHHHHhCCcccce--eEEEcCCCCChHHHHH
Q 045456          217 SMKQASIDDLDRFVKRRNFYRRVGKVWKRG--YLLFGPPGTGKSSLIA  262 (288)
Q Consensus       217 ~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg--~LL~GPpGtGKTsla~  262 (288)
                      .+++.|..+++..+..      +....+.|  +.|+||+||||||+.+
T Consensus         9 hi~r~Ie~~l~~vL~~------Vsl~i~~GEiv~L~G~SGsGKSTLLr   50 (504)
T TIGR03238         9 YVKRKIQTDLERILVK------FNKELPSSSLLFLCGSSGDGKSEILA   50 (504)
T ss_pred             eechHHHHHHHHHHhC------CceeecCCCEEEEECCCCCCHHHHHh
Confidence            4566777777766643      22333444  8899999999999999

cereus E33L, Hahella chejuensis KCTC 2396, Pseudoalteromonas haloplanktis TAC12, and Escherichia coli B7A.

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=95.11  E-value=0.015  Score=51.35  Aligned_cols=24  Identities=38%  Similarity=0.786  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~~   50 (232)
T PRK10771         27 RVAILGPSGAGKSTLLNLIAGFLT   50 (232)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            477999999999999999998763

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.11  E-value=0.016  Score=50.28  Aligned_cols=24  Identities=33%  Similarity=0.533  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||+|+++|++.+.
T Consensus        29 ~~~l~G~nGsGKSTLl~~l~G~~~   52 (204)
T PRK13538         29 LVQIEGPNGAGKTSLLRILAGLAR   52 (204)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            377999999999999999998764

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=95.11  E-value=0.037  Score=51.83  Aligned_cols=28  Identities=25%  Similarity=0.265  Sum_probs=24.7

Q ss_pred             ccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          243 WKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       243 ~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+.++||+||.|+||+++|.++|+.+-+
T Consensus        24 l~hA~L~~G~~G~Gk~~lA~~~a~~llC   51 (319)
T PRK06090         24 IPGALLLQSDEGLGVESLVELFSRALLC   51 (319)
T ss_pred             cceeEeeECCCCCCHHHHHHHHHHHHcC
Confidence            3568999999999999999999998743

>cd03290 ABCC_SUR1_N The SUR domain 1

Probab=95.10  E-value=0.017  Score=50.55  Aligned_cols=24  Identities=33%  Similarity=0.495  Sum_probs=21.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||+|.++||+.+.
T Consensus        29 ~~~i~G~nGsGKSTLl~~i~G~~~   52 (218)
T cd03290          29 LTMIVGQVGCGKSSLLLAILGEMQ   52 (218)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCC
Confidence            378999999999999999998863

The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=95.10  E-value=0.019  Score=51.36  Aligned_cols=24  Identities=29%  Similarity=0.523  Sum_probs=21.3

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.++
T Consensus        34 ~~~i~G~nGsGKSTLl~~l~Gl~~   57 (253)
T PRK14242         34 VTALIGPSGCGKSTFLRCLNRMND   57 (253)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhcc
Confidence            378999999999999999998753

>PLN02348 phosphoribulokinase

Probab=95.10  E-value=0.028  Score=53.89  Aligned_cols=24  Identities=21%  Similarity=0.260  Sum_probs=21.6

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      +-+.|+|||||||+++.|++.++.
T Consensus        52 IGIaG~SGSGKSTfA~~L~~~Lg~   75 (395)
T PLN02348         52 IGLAADSGCGKSTFMRRLTSVFGG   75 (395)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            458999999999999999999973

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.09  E-value=0.014  Score=51.09  Aligned_cols=24  Identities=33%  Similarity=0.628  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||+|+++|++.+.
T Consensus        39 ~~~i~G~nGsGKSTLl~~i~G~~~   62 (214)
T PRK13543         39 ALLVQGDNGAGKTTLLRVLAGLLH   62 (214)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCCC
Confidence            478999999999999999998763

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=95.08  E-value=0.013  Score=52.53  Aligned_cols=24  Identities=29%  Similarity=0.635  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl~~   56 (255)
T PRK11300         33 IVSLIGPNGAGKTTVFNCLTGFYK   56 (255)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcC
Confidence            478999999999999999998763

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=95.08  E-value=0.042  Score=47.82  Aligned_cols=26  Identities=31%  Similarity=0.515  Sum_probs=22.6

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .+.+.|.|++|+|||+++..++.+++
T Consensus        22 ~~~i~~~G~~gsGKTTli~~l~~~~~   47 (207)
T TIGR00073        22 LVVLNFMSSPGSGKTTLIEKLIDNLK   47 (207)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34688999999999999999998865

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=95.08  E-value=0.017  Score=50.31  Aligned_cols=24  Identities=33%  Similarity=0.602  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~~   51 (213)
T cd03259          28 FLALLGPSGCGKTTLLRLIAGLER   51 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            377999999999999999998763

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules

Probab=95.08  E-value=0.018  Score=50.60  Aligned_cols=24  Identities=38%  Similarity=0.739  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||+|+++|++.+.
T Consensus        42 ~~~i~G~nGsGKSTLl~~l~Gl~~   65 (226)
T cd03248          42 VTALVGPSGSGKSTVVALLENFYQ   65 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCcC
Confidence            378999999999999999998863

Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=95.08  E-value=0.016  Score=52.38  Aligned_cols=24  Identities=29%  Similarity=0.390  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        40 ~~~I~G~NGsGKSTLlk~l~Gl~~   63 (257)
T PRK11247         40 FVAVVGRSGCGKSTLLRLLAGLET   63 (257)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            378999999999999999998764

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.07  E-value=0.017  Score=51.70  Aligned_cols=24  Identities=38%  Similarity=0.750  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        32 ~~~l~G~nGsGKSTLl~~l~G~~~   55 (253)
T PRK14267         32 VFALMGPSGCGKSTLLRTFNRLLE   55 (253)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCC
Confidence            377999999999999999998864

>COG4136 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=95.07  E-value=0.023  Score=47.79  Aligned_cols=25  Identities=40%  Similarity=0.567  Sum_probs=22.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +-|.||+|||||++...|++.|.-.
T Consensus        31 vtlMGPSGcGKSTLls~~~G~La~~   55 (213)
T COG4136          31 VTLMGPSGCGKSTLLSWMIGALAGQ   55 (213)
T ss_pred             EEEECCCCccHHHHHHHHHhhcccC
Confidence            5689999999999999999988644

>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional

Probab=95.07  E-value=0.016  Score=52.89  Aligned_cols=24  Identities=42%  Similarity=0.567  Sum_probs=21.7

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++||+.+.
T Consensus        29 ~~~l~G~nGsGKSTLl~~laG~~~   52 (272)
T PRK13547         29 VTALLGRNGAGKSTLLKALAGDLT   52 (272)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            378999999999999999999764

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.06  E-value=0.017  Score=50.26  Aligned_cols=24  Identities=38%  Similarity=0.722  Sum_probs=21.3

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+||||++++|++.+.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~G~~~   53 (207)
T PRK13539         30 ALVLTGPNGSGKTTLLRLIAGLLP   53 (207)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            377999999999999999998763

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=95.06  E-value=0.017  Score=49.66  Aligned_cols=22  Identities=32%  Similarity=0.531  Sum_probs=20.1

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -+.|.||+|+|||||+++|++.
T Consensus        35 ~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          35 LTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999975

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=95.06  E-value=0.017  Score=51.32  Aligned_cols=24  Identities=29%  Similarity=0.632  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        29 ~~~l~G~nGsGKSTLl~~l~G~~~   52 (240)
T PRK09493         29 VVVIIGPSGSGKSTLLRCINKLEE   52 (240)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            377999999999999999998764

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=95.05  E-value=0.014  Score=55.26  Aligned_cols=25  Identities=32%  Similarity=0.499  Sum_probs=22.0

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      -+.|.||+|||||||.++||+....
T Consensus        34 ~~~llGpsGsGKSTLLr~IaGl~~p   58 (351)
T PRK11432         34 MVTLLGPSGCGKTTVLRLVAGLEKP   58 (351)
T ss_pred             EEEEECCCCCcHHHHHHHHHCCCCC
Confidence            3779999999999999999988743

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=95.04  E-value=0.017  Score=51.07  Aligned_cols=23  Identities=26%  Similarity=0.478  Sum_probs=21.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+|||+|+++||+.+.
T Consensus        31 ~~i~G~nGsGKSTLl~~l~Gl~~   53 (237)
T cd03252          31 VGIVGRSGSGKSTLTKLIQRFYV   53 (237)
T ss_pred             EEEECCCCCCHHHHHHHHhcCcC
Confidence            78999999999999999998863

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=95.03  E-value=0.016  Score=50.90  Aligned_cols=24  Identities=42%  Similarity=0.768  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||+|.++|++.+.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~~   51 (223)
T TIGR03740        28 VYGLLGPNGAGKSTLLKMITGILR   51 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            377999999999999999998763

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=95.03  E-value=0.017  Score=51.33  Aligned_cols=24  Identities=25%  Similarity=0.607  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~~   52 (242)
T cd03295          29 FLVLIGPSGSGKTTTMKMINRLIE   52 (242)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            377999999999999999998764

ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG4240 Predicted kinase [General function prediction only]

Probab=95.03  E-value=0.057  Score=48.23  Aligned_cols=64  Identities=23%  Similarity=0.245  Sum_probs=38.7

Q ss_pred             ChhhhHHHHHHHHHHhhc--HHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---C-CcEEEEecCCC
Q 045456          215 DPSMKQASIDDLDRFVKR--RNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---K-FNIYDMELTSV  280 (288)
Q Consensus       215 ~~~~k~~i~~~l~~~~~~--~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~-~~i~~l~~~~~  280 (288)
                      .+..+-.+..++...+..  ..+..+.|.|.  -+-+.||.|+|||+++.+|-++|   | ..+..+++.++
T Consensus        21 ~p~~~~~~~~dl~Lpll~Kiap~~qe~grPl--i~gisGpQGSGKStls~~i~~~L~~kg~ert~~lSLDDl   90 (300)
T COG4240          21 LPPAFAALAQDLHLPLLAKIAPWAQERGRPL--IVGISGPQGSGKSTLSALIVRLLAAKGLERTATLSLDDL   90 (300)
T ss_pred             CcHHHHHHHHHHHHHHHHhhhhhhhhcCCce--EEEeecCCCCchhhHHHHHHHHHHHhcccceEEeehhhh
Confidence            344444454444443322  23334445432  24468999999999999988776   3 46667766655

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=95.02  E-value=0.018  Score=50.88  Aligned_cols=24  Identities=25%  Similarity=0.638  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||+|+++|++.+.
T Consensus        29 ~~~l~G~nGsGKSTLl~~i~Gl~~   52 (236)
T cd03253          29 KVAIVGPSGSGKSTILRLLFRFYD   52 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHhcccC
Confidence            377999999999999999998763

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.01  E-value=0.017  Score=51.38  Aligned_cols=24  Identities=38%  Similarity=0.728  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++||+.+.
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~Gl~~   54 (241)
T PRK14250         31 IYTIVGPSGAGKSTLIKLINRLID   54 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            377999999999999999998763

>PRK10908 cell division protein FtsE; Provisional

Probab=95.01  E-value=0.018  Score=50.54  Aligned_cols=24  Identities=29%  Similarity=0.452  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~G~~~   53 (222)
T PRK10908         30 MAFLTGHSGAGKSTLLKLICGIER   53 (222)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            377999999999999999998764

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=95.01  E-value=0.072  Score=49.32  Aligned_cols=60  Identities=15%  Similarity=0.275  Sum_probs=39.3

Q ss_pred             ccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC---------CcEEEEecCC
Q 045456          213 AMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK---------FNIYDMELTS  279 (288)
Q Consensus       213 ~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~---------~~i~~l~~~~  279 (288)
                      ++.+..++ +.+.++..+..|..      .-..++||+|++|.|||++++..+....         .|++.+..+.
T Consensus        37 IgY~~A~~-~L~~L~~Ll~~P~~------~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~  105 (302)
T PF05621_consen   37 IGYPRAKE-ALDRLEELLEYPKR------HRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPP  105 (302)
T ss_pred             ecCHHHHH-HHHHHHHHHhCCcc------cCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCC
Confidence            44455544 44556665655431      2235799999999999999999986552         3566666544

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=94.99  E-value=0.017  Score=51.22  Aligned_cols=24  Identities=21%  Similarity=0.564  Sum_probs=21.3

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||.++|++.+.
T Consensus        30 ~~~l~G~nGsGKSTLl~~l~G~~~   53 (242)
T TIGR03411        30 LRVIIGPNGAGKTTMMDVITGKTR   53 (242)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            377999999999999999998763

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	288
4b4t_K	428	Near-Atomic Resolution Structural Model Of The Yeas		7e-05
3vfd_A	389	Human Spastin Aaa Domain Length = 389		4e-04

>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 428

Iteration: 1
 Score = 44.3 bits (103), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 18/36 (50%), Positives = 25/36 (69%)
Query: 234 NFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK 269
           + Y ++G    RG LL+GPPGTGK+ L+ A+AN  K
Sbjct: 196 DLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTK 231

>pdb|3VFD|A Chain A, Human Spastin Aaa Domain Length = 389

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 22/41 (53%), Positives = 25/41 (60%), Gaps = 3/41 (7%)
Query: 245 RGYLLFGPPGTGKSSL---IAAMANYLKFNIYDMELTSVYC 282
           RG LLFGPPG GK+ L   +AA +N   FNI    LTS Y 
Sbjct: 149 RGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYV 189

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	288
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-08
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	1e-06
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	1e-06
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	2e-06
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	7e-06
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	7e-06
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	7e-06
2qgz_A	308	Helicase loader, putative primosome component; str	2e-05
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	2e-05
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	1e-04
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	9e-05
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	1e-04
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	3e-04
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	3e-04
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	3e-04
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	5e-04
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	5e-04
1qzv_F	154	Plant photosystem I: subunit PSAF; photosynthesis,	5e-04
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	8e-04
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	8e-04
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	9e-04

>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 = 56.8 bits (136), Expect = 3e-09
 Identities = 47/283 (16%), Positives = 91/283 (32%), Gaps = 55/283 (19%)

Query: 7   VLSTYTAFAASAMLVRTVINEVQTLTSQIIPKQLQT---MMLSKLGGLFTNHSSQMTLII 63
              T T     ++L++ +    Q L     P+++ T     LS +     +  +      
Sbjct: 294 HSMTLTPDEVKSLLLKYLDCRPQDL-----PREVLTTNPRRLSIIAESIRDGLAT----W 344

Query: 64  DEYNGFSINQLYEASELYLSTKITASLEKLKVSKTTKE--KNLSVTINKGEKISDIFEGI 121
           D +   + ++L        +T I +SL  L+     ++    LSV       I  I   +
Sbjct: 345 DNWKHVNCDKL--------TTIIESSLNVLE-PAEYRKMFDRLSV-FPPSAHIPTIL--L 392

Query: 122 CLVWEMTCKETEERSSQRGKAERVIELSFPKKYMERILNIYLPYVMEKSNAIKEQNKVVK 181
            L+W    K        +     ++E   PK+    I +IYL   ++  N       +V 
Sbjct: 393 SLIWFDVIKSDVMVVVNKLHKYSLVEKQ-PKESTISIPSIYLELKVKLENEYALHRSIVD 451

Query: 182 LYAVGHFGGDSDRGGAWGSTNLD---------HPATFDKIAMDPSMKQASIDDLDRFVKR 232
            Y +      +          LD         H    +        +   +D   RF+++
Sbjct: 452 HYNI----PKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLD--FRFLEQ 505

Query: 233 RNFYRRVGKVWK-RGYLLFGPPGTGKSSLIAAMANYLKFNIYD 274
           +   R     W   G +L         + +  +  Y  + I D
Sbjct: 506 K--IRHDSTAWNASGSIL---------NTLQQLKFYKPY-ICD 536

>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 = 55.2 bits (132), Expect = 1e-08
 Identities = 36/207 (17%), Positives = 66/207 (31%), Gaps = 63/207 (30%)

Query: 112 EKISDIFEGICLVWEMTCKETEERSSQRGKAERVIELSFPKKYMERILNIYLPYVMEKSN 171
           + I  +FE    V    CK+ ++         + I     K+ ++ I+       +  + 
Sbjct: 19  KDILSVFED-AFVDNFDCKDVQD-------MPKSI---LSKEEIDHIIM--SKDAVSGTL 65

Query: 172 AI-----KEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIA---MDPSMKQAS- 222
            +      +Q ++V+      F  +  R        +++      I      PSM     
Sbjct: 66  RLFWTLLSKQEEMVQ-----KFVEEVLR--------INYKFLMSPIKTEQRQPSMMTRMY 112

Query: 223 IDDLDR-------FVKRRNFYRRVGKVWK-----------RGYLLFGPPGTGKSSLIAAM 264
           I+  DR       F K      R+    K           +  L+ G  G+GK+ +   +
Sbjct: 113 IEQRDRLYNDNQVFAKY--NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDV 170

Query: 265 ANYLK------FNIYDMELTSVYCNSE 285
               K      F I+   L    CNS 
Sbjct: 171 CLSYKVQCKMDFKIF--WLNLKNCNSP 195

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster} Length = 297

 Score = 48.1 bits (115), Expect = 1e-06
 Identities = 20/53 (37%), Positives = 24/53 (45%), Gaps = 4/53 (7%)

Query: 230 VKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK---FNIYDMELTS 279
             R   +  +    K G LLFGPPG GK+ L  A+A        NI    LTS
Sbjct: 41  SVRPELFTGLRAPAK-GLLLFGPPGNGKTLLARAVATECSATFLNISAASLTS 92

>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} Length = 357

 Score = 47.8 bits (114), Expect = 1e-06
 Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 4/53 (7%)

Query: 230 VKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK---FNIYDMELTS 279
           + R + +  +    K G LLFGPPGTGK+ +   +A+      F+I    LTS
Sbjct: 104 MLRPDIFTGLRGPPK-GILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTS 155

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens} Length = 389

 Score = 47.5 bits (113), Expect = 2e-06
 Identities = 20/53 (37%), Positives = 25/53 (47%), Gaps = 4/53 (7%)

Query: 230 VKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK---FNIYDMELTS 279
             R   +  +    + G LLFGPPG GK+ L  A+A       FNI    LTS
Sbjct: 135 SLRPELFTGLRAPAR-GLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTS 186

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426} Length = 202

 Score = 45.1 bits (107), Expect = 7e-06
 Identities = 17/62 (27%), Positives = 30/62 (48%), Gaps = 5/62 (8%)

Query: 207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMAN 266
           A+   + ++   +  +I   +RFV      ++      +G  L G  G GK+ L+AA+AN
Sbjct: 22  ASLSDVDLNDDGRIKAIRFAERFVAEYEPGKK-----MKGLYLHGSFGVGKTYLLAAIAN 76

Query: 267 YL 268
            L
Sbjct: 77  EL 78

>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 Length = 322

 Score = 45.8 bits (109), Expect = 7e-06
 Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 4/55 (7%)

Query: 230 VKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK---FNIYDMELTSVY 281
           VK  + ++   K    G LL+GPPGTGKS L  A+A       F++   +L S +
Sbjct: 38  VKFPHLFKGNRKPTS-GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKW 91

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens} Length = 322

 Score = 45.4 bits (108), Expect = 7e-06
 Identities = 21/54 (38%), Positives = 28/54 (51%), Gaps = 5/54 (9%)

Query: 230 VKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK----FNIYDMELTS 279
           +K  + +      W+ G LLFGPPGTGKS L  A+A        F+I   +L S
Sbjct: 32  IKFPHLFTGKRTPWR-GILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVS 84

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3} Length = 308

 Score = 44.4 bits (105), Expect = 2e-05
 Identities = 18/68 (26%), Positives = 31/68 (45%), Gaps = 8/68 (11%)

Query: 209 FDKIAMDPSMKQASIDDLDRFVKRR--------NFYRRVGKVWKRGYLLFGPPGTGKSSL 260
              +++  S +   + D+D     R        +F  +     ++G  L+G  G GKS L
Sbjct: 109 IQLVSLPKSYRHIHLSDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYL 168

Query: 261 IAAMANYL 268
           +AAMA+ L
Sbjct: 169 LAAMAHEL 176

>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* Length = 180

 Score = 41.2 bits (97), Expect = 9e-05
 Identities = 16/62 (25%), Positives = 22/62 (35%), Gaps = 6/62 (9%)

Query: 207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMAN 266
           A  D        +  ++  +  FV   NF    GK    G    G PG GK+ L  A   
Sbjct: 7   ANLDTYHPKNVSQNRALLTIRVFVH--NFNPEEGK----GLTFVGSPGVGKTHLAVATLK 60

Query: 267 YL 268
            +
Sbjct: 61  AI 62

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A Length = 293

 Score = 41.7 bits (98), Expect = 1e-04
 Identities = 14/61 (22%), Positives = 22/61 (36%), Gaps = 5/61 (8%)

Query: 226 LDRFVKR--RNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDM---ELTSV 280
           +D+ V    +NF +           ++G  G GKS     +   +  N   M   EL S 
Sbjct: 16  MDKLVVHITKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESG 75

Query: 281 Y 281
            
Sbjct: 76  N 76

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A Length = 444

 Score = 41.1 bits (96), Expect = 3e-04
 Identities = 21/54 (38%), Positives = 28/54 (51%), Gaps = 5/54 (9%)

Query: 230 VKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK----FNIYDMELTS 279
           +K  + +      W+ G LLFGPPGTGKS L  A+A        F+I   +L S
Sbjct: 154 IKFPHLFTGKRTPWR-GILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVS 206

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A* 2pjh_B Length = 489

 Score = 41.3 bits (97), Expect = 3e-04
 Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 3/49 (6%)

Query: 236 YRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDM---ELTSVY 281
           ++ +G    RG LL+GPPGTGK+ +  A+AN      + +   E+ S  
Sbjct: 230 FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL 278

>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 Length = 516

 Score = 41.0 bits (96), Expect = 3e-04
 Identities = 15/80 (18%), Positives = 32/80 (40%), Gaps = 14/80 (17%)

Query: 206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVW--------KRGYLLFGPPGTGK 257
           P    ++  +    + S+  L  ++      ++              R  +L+GPPG GK
Sbjct: 35  PTNLQQVCGN----KGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGK 90

Query: 258 SSLIAAMANYLKFNIYDMEL 277
           ++    +A  L ++I  +E 
Sbjct: 91  TTAAHLVAQELGYDI--LEQ 108

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score = 39.9 bits (94), Expect = 5e-04
 Identities = 16/37 (43%), Positives = 23/37 (62%)

Query: 230 VKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMAN 266
           V+  + ++ +G V   G LL GPPG GK+ L  A+AN
Sbjct: 30  VRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVAN 66

>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} Length = 301

 Score = 39.9 bits (94), Expect = 5e-04
 Identities = 14/37 (37%), Positives = 22/37 (59%)

Query: 230 VKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMAN 266
           V+  + + + G    +G L +GPPG GK+ L  A+AN
Sbjct: 35  VEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 71

>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154

 Score = 38.8 bits (89), Expect = 5e-04
 Identities = 15/57 (26%), Positives = 24/57 (42%), Gaps = 27/57 (47%)

Query: 168 EKSNAIKEQNKVVKLYAVGHFGGDSDRGGAWGSTNLDHPATFDKIAMDPSMKQASID 224
           EK  A+K+    +KLYA      DS    A        PA    +A+     +A+++
Sbjct: 18  EK-QALKKLQASLKLYA-----DDS----A--------PA----LAI-----KATME 47

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A* Length = 355

 Score = 39.4 bits (92), Expect = 8e-04
 Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 4/55 (7%)

Query: 230 VKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK---FNIYDMELTSVY 281
           VK  + ++   K    G LL+GPPGTGKS L  A+A       F++   +L S +
Sbjct: 71  VKFPHLFKGNRKPTS-GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKW 124

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A* Length = 254

 Score = 39.2 bits (92), Expect = 8e-04
 Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 1/58 (1%)

Query: 208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMA 265
           TF  +A     K+  + ++  F+K  + +  +G    +G LL GPPG GK+ L  A+A
Sbjct: 14  TFKDVAGAEEAKE-ELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVA 70

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20 Length = 257

 Score = 38.8 bits (91), Expect = 9e-04
 Identities = 18/58 (31%), Positives = 34/58 (58%), Gaps = 1/58 (1%)

Query: 208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMA 265
           TF  +A     K+  + +L  +++  + ++++G    +G L+ GPPGTGK+ L  A+A
Sbjct: 10  TFADVAGCDEAKE-EVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIA 66

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	288
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.77
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.77
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.77
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.77
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.76
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.75
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.55
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.5
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.48
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.46
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.44
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.43
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.42
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.41
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.4
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.38
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.37
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.37
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.32
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.31
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.31
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.31
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.3
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.24
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.22
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.19
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.17
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.12
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.1
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.03
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.02
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	98.99
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.98
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.95
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.91
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.89
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.82
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.82
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	98.81
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	98.78
3pvs_A	447	Replication-associated recombination protein A; ma	98.73
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.73
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.72
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.68
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.68
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.67
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.67
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.67
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.66
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.64
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	98.64
2r44_A	331	Uncharacterized protein; putative ATPase, structur	98.63
3co5_A	143	Putative two-component system transcriptional RES	98.61
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.6
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.59
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.59
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.57
3bos_A	242	Putative DNA replication factor; P-loop containing	98.54
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.54
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.51
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.49
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.47
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	98.46
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.44
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.4
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.4
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	98.39
2qgz_A	308	Helicase loader, putative primosome component; str	98.38
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.38
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.35
1tue_A	212	Replication protein E1; helicase, replication, E1E	98.35
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.34
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.32
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.28
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.27
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.27
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	98.26
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.2
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	98.18
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.18
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.14
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	98.13
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.05
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	97.98
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.97
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	97.92
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.91
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	97.84
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	97.84
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	97.73
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.69
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	97.66
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	97.63
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.62
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.62
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.58
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	97.56
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	97.51
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.5
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	97.48
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	97.46
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.44
2fna_A	357	Conserved hypothetical protein; structural genomic	97.43
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.4
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.4
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.39
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	97.38
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.33
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.28
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.25
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	97.2
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	97.16
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.12
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	97.1
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.09
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	97.04
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	97.03
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.99
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.96
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.94
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.93
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.9
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.88
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.84
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.83
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.78
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.77
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.77
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	96.73
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.73
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.72
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.71
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.7
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.7
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.69
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.67
2og2_A	359	Putative signal recognition particle receptor; nuc	96.67
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.66
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.62
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.6
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.58
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.55
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.54
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	96.53
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.48
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.47
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.47
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.46
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.46
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	96.46
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.44
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.43
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.43
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.39
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.39
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	96.35
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.34
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.32
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.28
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.27
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.26
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.22
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.21
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	96.2
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	96.18
3io5_A	333	Recombination and repair protein; storage dimer, i	96.17
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.16
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	96.14
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.12
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.02
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	96.01
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.99
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.95
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	95.91
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.88
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	95.86
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	95.85
2r6a_A	454	DNAB helicase, replicative helicase; replication,	95.84
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	95.83
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	95.82
2xxa_A	433	Signal recognition particle protein; protein trans	95.8
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	95.8
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.79
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.78
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	95.75
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	95.74
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.73
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	95.71
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	95.7
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	95.69
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	95.63
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	95.61
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.61
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.61
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.61
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.58
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	95.58
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	95.58
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.57
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.55
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	95.52
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.51
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	95.51
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.49
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.48
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.46
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.42
1b0u_A	262	Histidine permease; ABC transporter, transport pro	95.4
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.38
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	95.38
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.33
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.33
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.32
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	95.32
1g6h_A	257	High-affinity branched-chain amino acid transport	95.32
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.31
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	95.29
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	95.29
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	95.28
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.27
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	95.26
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	95.26
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	95.26
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	95.25
1ji0_A	240	ABC transporter; ATP binding protein, structural g	95.22
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.21
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.2
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	95.19
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	95.17
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	95.17
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	95.17
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.16
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	95.14
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	95.13
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	95.13
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	95.12
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.11
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	95.1
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.04
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	95.03
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	95.0
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	94.98
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	94.98
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	94.93
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	94.91
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	94.86
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	94.85
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	94.85
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	94.85
3ice_A	422	Transcription termination factor RHO; transcriptio	94.83
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	94.82
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	94.79
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	94.78
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	94.72
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	94.57
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	94.52
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	94.51
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.45
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	94.44
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	94.4
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	94.34
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	94.29
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	94.27
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	94.26
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	94.23
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	94.19
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	94.17
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	94.16
2hf9_A	226	Probable hydrogenase nickel incorporation protein	94.14
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	94.1
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	94.1
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	94.08
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	94.07
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	94.03
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	94.01
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	93.99
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	93.99
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	93.99
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	93.98
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	93.94
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	93.9
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	93.88
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	93.88
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	93.87
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	93.87
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	93.85
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	93.85
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	93.84
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	93.82
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	93.79
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	93.77
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	93.77
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	93.7
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	93.69
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	93.67
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	93.61
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	93.6
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	93.57
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	93.55
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	93.51
1knx_A	312	Probable HPR(Ser) kinase/phosphatase; HPR kinase,	93.51
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	93.46
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	93.43
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	93.42
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	93.36
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	93.36
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	93.36
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	93.36
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	93.3
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	93.26
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	93.25
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	93.22
3f8t_A	506	Predicted ATPase involved in replication control,	93.19
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	93.14
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	93.12
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	93.11
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	93.11
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	93.1
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	93.1
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	93.07
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	93.07
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	93.05
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	93.05
3l0o_A	427	Transcription termination factor RHO; helicase, RH	92.99
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	92.96
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	92.95
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	92.84
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	92.83
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	92.8
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	92.78
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	92.77
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	92.77
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	92.69
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	92.59
3b6e_A	216	Interferon-induced helicase C domain-containing P;	92.5
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	92.49
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	92.48
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	92.46
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	92.44
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	92.41
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	92.35
3llu_A	196	RAS-related GTP-binding protein C; structural geno	92.33
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	92.29
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	92.28
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	92.16
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	92.14
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	92.12
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	92.11
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	92.1
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	92.07
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	92.04
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	92.03
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	92.02
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	92.0
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	91.95
1w1w_A	430	Structural maintenance of chromosome 1; cohesin, c	91.94
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	91.91
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	91.88
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	91.83
3qkt_A	339	DNA double-strand break repair RAD50 ATPase; RECA-	91.82
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	91.81
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	91.79
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	91.76
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	91.73
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	91.69
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	91.62
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	91.58
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	91.56
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	91.51
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	91.45
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	91.29
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	91.28
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	91.27
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	91.24
3bor_A	237	Human initiation factor 4A-II; translation initiat	91.19
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	91.17
3lfu_A	647	DNA helicase II; SF1 helicase, ATP-binding, DNA da	91.17
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	91.16
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	91.12
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	91.04
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	91.04
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	91.03
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	91.01
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	91.01
1e69_A	322	Chromosome segregation SMC protein; structural mai	90.95
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	90.87
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	90.77
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	90.7
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	90.53
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	89.94
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	90.42
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	90.38
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	90.27
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	90.25
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	90.19
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	90.09
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	90.07
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	89.99
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	89.99
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	89.93
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	89.81
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	89.76
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	89.75
3end_A	307	Light-independent protochlorophyllide reductase ir	89.68
3h1t_A	590	Type I site-specific restriction-modification syst	89.67
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	89.54
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	89.5
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	89.4
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	89.22
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	89.13
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	89.12
3auy_A	371	DNA double-strand break repair RAD50 ATPase; DNA r	88.98
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	88.93
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	88.93
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	88.9
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	88.85
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	88.84
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	88.81
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	88.7
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	88.68
1rif_A	282	DAR protein, DNA helicase UVSW; bacteriophage, REC	88.66
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	88.6
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	88.31
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	88.12
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	88.04
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	87.95
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	87.94
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	87.85
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	87.82
1ytm_A	532	Phosphoenolpyruvate carboxykinase [ATP], phosphoen	87.61
2olr_A	540	Phosphoenolpyruvate carboxykinase; carbon dioxide,	87.45
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	87.32
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	87.31
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	87.19
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	87.1
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	87.03
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	86.89
1wrb_A	253	DJVLGB; RNA helicase, DEAD BOX, VASA, structural g	86.87
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	86.86
1j3b_A	529	ATP-dependent phosphoenolpyruvate carboxykinase; a	86.84
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	86.83
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	86.79
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	86.77
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	86.76
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	86.7
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	86.63
1ii2_A	524	Phosphoenolpyruvate carboxykinase; phosphate bindi	86.5
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	86.22
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	86.1
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	86.06
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	86.02
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	85.96
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	85.93
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	85.88
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	85.71
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	85.62
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	85.33
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	85.13
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	85.07
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	85.05
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	84.93
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	84.79
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	84.59
2i4i_A	417	ATP-dependent RNA helicase DDX3X; DEAD, structural	84.46
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	84.3
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	84.08
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	83.96
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	83.89
1of1_A	376	Thymidine kinase; transferase, antiviral drug, enz	83.81
2o8b_B	1022	DNA mismatch repair protein MSH6; DNA damage respo	83.08
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	83.05
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	82.98
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	82.98
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	82.88
2oca_A	510	DAR protein, ATP-dependent DNA helicase UVSW; ATP-	82.87
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	82.66
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	81.7
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	81.41
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	81.28
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	80.78
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	80.34

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.77  E-value=4.4e-19  Score=168.09  Aligned_cols=82  Identities=21%  Similarity=0.321  Sum_probs=77.7

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                      ...+..+|+||+|.+++|++|.+.+..++.+++.|+++|+++++|+|||||||||||++|+|+|++++.+|+.++++++.
T Consensus       140 ~~~p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~~s~l~  219 (405)
T 4b4t_J          140 EKVPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELV  219 (405)
T ss_dssp             ECSCSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEEGGGGS
T ss_pred             cCCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceEEEhHHhh
Confidence            34456799999999999999999999999999999999999999999999999999999999999999999999999988


Q ss_pred             Cc
Q 045456          282 CN  283 (288)
Q Consensus       282 ~~  283 (288)
                      ++
T Consensus       220 sk  221 (405)
T 4b4t_J          220 QK  221 (405)
T ss_dssp             CS
T ss_pred             cc
Confidence            75

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.77  E-value=4e-19  Score=170.18  Aligned_cols=83  Identities=19%  Similarity=0.302  Sum_probs=78.6

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      +...++.+|+||+|.+++|++|.+.+..|+.+++.|+++|+++++|+|||||||||||++|+|+|++++.+|+.++++++
T Consensus       172 ~~~~p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s~l  251 (434)
T 4b4t_M          172 VDEKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQL  251 (434)
T ss_dssp             EESSCSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGG
T ss_pred             cCCCCCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehhhh
Confidence            34556789999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             CCc
Q 045456          281 YCN  283 (288)
Q Consensus       281 ~~~  283 (288)
                      .++
T Consensus       252 ~~~  254 (434)
T 4b4t_M          252 VQM  254 (434)
T ss_dssp             CSS
T ss_pred             hhc
Confidence            775

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.77  E-value=5.7e-19  Score=168.11  Aligned_cols=83  Identities=20%  Similarity=0.298  Sum_probs=78.5

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      +...+..+|+||+|.+++|++|.+.+..++.++++|+++|+++++|+|||||||||||++|+|+|++++.+|+.++++++
T Consensus       173 ~~~~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s~l  252 (437)
T 4b4t_I          173 MDKSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSEL  252 (437)
T ss_dssp             EESSCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESGGG
T ss_pred             eccCCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHHHh
Confidence            34556689999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             CCc
Q 045456          281 YCN  283 (288)
Q Consensus       281 ~~~  283 (288)
                      .++
T Consensus       253 ~sk  255 (437)
T 4b4t_I          253 IQK  255 (437)
T ss_dssp             CCS
T ss_pred             hhc
Confidence            775

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.77  E-value=8.4e-19  Score=167.75  Aligned_cols=82  Identities=27%  Similarity=0.383  Sum_probs=77.5

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                      ...+..+|+||+|.+++|++|.+.+..++.++++|.++|+++++|+|||||||||||++|+|+|++++.+++.++++++.
T Consensus       164 ~~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~~~~l~  243 (428)
T 4b4t_K          164 NEKPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFV  243 (428)
T ss_dssp             ESSCSCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEEGGGTC
T ss_pred             CCCCCCCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEEecchhh
Confidence            34455799999999999999999999999999999999999999999999999999999999999999999999999987


Q ss_pred             Cc
Q 045456          282 CN  283 (288)
Q Consensus       282 ~~  283 (288)
                      ++
T Consensus       244 ~~  245 (428)
T 4b4t_K          244 HK  245 (428)
T ss_dssp             CS
T ss_pred             cc
Confidence            65

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.76  E-value=9e-19  Score=167.87  Aligned_cols=81  Identities=27%  Similarity=0.343  Sum_probs=77.3

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      ..+..+|+||+|.+++|++|.+.+..++.+++.|.++|+++++|+|||||||||||++|+|||++++.+|+.++++++.+
T Consensus       174 ~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s~l~s  253 (437)
T 4b4t_L          174 EQGEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVD  253 (437)
T ss_dssp             ESCSSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGTCC
T ss_pred             cCCCCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehhhhcc
Confidence            34567999999999999999999999999999999999999999999999999999999999999999999999999877


Q ss_pred             c
Q 045456          283 N  283 (288)
Q Consensus       283 ~  283 (288)
                      +
T Consensus       254 k  254 (437)
T 4b4t_L          254 K  254 (437)
T ss_dssp             S
T ss_pred             c
Confidence            5

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.75  E-value=1.7e-18  Score=166.28  Aligned_cols=82  Identities=18%  Similarity=0.216  Sum_probs=77.6

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                      +..+..+|+||+|.+++|++|.+.+..++.+++.|.++|+.+++|+|||||||||||++|+|||++++.+|+.++++++.
T Consensus       201 ~e~P~vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L~  280 (467)
T 4b4t_H          201 EEKPDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELV  280 (467)
T ss_dssp             ESSCSCCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGGC
T ss_pred             cCCCCCCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhHHhh
Confidence            34455799999999999999999999999999999999999999999999999999999999999999999999999987


Q ss_pred             Cc
Q 045456          282 CN  283 (288)
Q Consensus       282 ~~  283 (288)
                      ++
T Consensus       281 sk  282 (467)
T 4b4t_H          281 QK  282 (467)
T ss_dssp             CC
T ss_pred             cc
Confidence            75

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=99.55  E-value=2.2e-15  Score=153.80  Aligned_cols=79  Identities=22%  Similarity=0.346  Sum_probs=74.8

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      +..+|+||+|.++++++|.+.+..++.+++.|.++|+.+++|+|||||||||||++|+++|+++|.+++.++++++.++
T Consensus       199 ~~v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~sk  277 (806)
T 3cf2_A          199 NEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  277 (806)
T ss_dssp             SSCCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHHSS
T ss_pred             CCCChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhhcc
Confidence            3469999999999999999999999999999999999999999999999999999999999999999999999877654

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.50  E-value=2.9e-14  Score=128.61  Aligned_cols=79  Identities=24%  Similarity=0.319  Sum_probs=69.0

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      +..+|+||+|.+++|++|.+.+..++.+++.++.++...++|++|+||||||||+++++||++++.+++.++..++.+.
T Consensus         5 ~~~~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~~~i~i~g~~l~~~   83 (274)
T 2x8a_A            5 PNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNM   83 (274)
T ss_dssp             -------CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEEETTTTCSS
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCCCEEEEEcHHHHhh
Confidence            4569999999999999999999999999999999999999999999999999999999999999999999999888654

>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=99.48  E-value=4.4e-14  Score=128.74  Aligned_cols=78  Identities=23%  Similarity=0.335  Sum_probs=73.0

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      ..++.+|++|+|.+++++.|.+.+..++.+++.|..+|+..++|+||+||||||||++|+++|++++.+++.++++++
T Consensus         8 ~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l   85 (301)
T 3cf0_A            8 EVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPEL   85 (301)
T ss_dssp             ECCCCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHH
T ss_pred             cCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHH
Confidence            345679999999999999999999999999999999999999999999999999999999999999999999987655

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.46  E-value=1.4e-13  Score=123.29  Aligned_cols=81  Identities=22%  Similarity=0.300  Sum_probs=75.1

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      ..++.+|++|+|.+++++.|.+.+..++..++.+.++|...++++||+||||||||++|+++|++++.+++.++.+++.+
T Consensus        10 ~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~   89 (285)
T 3h4m_A           10 ERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVK   89 (285)
T ss_dssp             SSCCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGCC
T ss_pred             CCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHHH
Confidence            44567999999999999999999999999999999999999999999999999999999999999999999999887654


Q ss_pred             c
Q 045456          283 N  283 (288)
Q Consensus       283 ~  283 (288)
                      .
T Consensus        90 ~   90 (285)
T 3h4m_A           90 K   90 (285)
T ss_dssp             C
T ss_pred             h
Confidence            3

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.44  E-value=2e-13  Score=125.84  Aligned_cols=79  Identities=25%  Similarity=0.344  Sum_probs=70.9

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-CCcEEEEecCCCCC
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-KFNIYDMELTSVYC  282 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-~~~i~~l~~~~~~~  282 (288)
                      .++.+|+||+|.+++|+.|.+.+..++.+++.+.. +..+++|+|||||||||||++|+++|+++ +.+++.++.+++.+
T Consensus         6 ~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~~~~l~~   84 (322)
T 1xwi_A            6 RPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVS   84 (322)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCT-TCCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEECCSSCC
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhC-CCCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEEhHHHHh
Confidence            34579999999999999999999999999998874 34567899999999999999999999999 99999999998765


Q ss_pred             c
Q 045456          283 N  283 (288)
Q Consensus       283 ~  283 (288)
                      .
T Consensus        85 ~   85 (322)
T 1xwi_A           85 K   85 (322)
T ss_dssp             S
T ss_pred             h
Confidence            4

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=99.43  E-value=1.4e-14  Score=147.90  Aligned_cols=80  Identities=23%  Similarity=0.327  Sum_probs=75.4

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      .++.+|++++|.+++|++|.+.+..++.+++.|.++|+.+++|+|||||||||||++|+|+|++++.+++.++++++.++
T Consensus       471 ~p~v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~  550 (806)
T 3cf2_A          471 VPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTM  550 (806)
T ss_dssp             CCCCCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTT
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCceEEeccchhhcc
Confidence            35579999999999999999999999999999999999999999999999999999999999999999999998887654

>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=99.42  E-value=2.9e-13  Score=119.41  Aligned_cols=76  Identities=25%  Similarity=0.355  Sum_probs=63.9

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      +.+|++++|.+++++.|.+.+. ++..++.|.++|...++++||+||||||||++|+++|++++.+++.++.+++.+
T Consensus         2 ~~~~~~i~G~~~~~~~l~~~~~-~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~   77 (262)
T 2qz4_A            2 GVSFKDVAGMHEAKLEVREFVD-YLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVE   77 (262)
T ss_dssp             CCCTTSSCSCHHHHHHHHHHHH-HHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSS
T ss_pred             CCCHHHhCCHHHHHHHHHHHHH-HHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHh
Confidence            4689999999999999988766 478888899999999999999999999999999999999999999999988754

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.41  E-value=3.2e-13  Score=119.53  Aligned_cols=79  Identities=23%  Similarity=0.399  Sum_probs=66.6

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      ..++.+|++|+|.+++++.+.+.+. ++.+++.+.++|...++|++|+||||||||++|+++|++++.|++.++.+++.+
T Consensus         5 ~~~~~~~~~i~G~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~~~~~~~   83 (257)
T 1lv7_A            5 DQIKTTFADVAGCDEAKEEVAELVE-YLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVE   83 (257)
T ss_dssp             CSSCCCGGGSCSCHHHHHHTHHHHH-HHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTT
T ss_pred             cCCCCCHHHhcCcHHHHHHHHHHHH-HHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEeHHHHHH
Confidence            4567899999999999999988765 477888888899989999999999999999999999999999999999888754

>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=99.40  E-value=1.5e-13  Score=126.29  Aligned_cols=81  Identities=23%  Similarity=0.327  Sum_probs=72.0

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      +...++.+|++|+|.+++|+.|.+.+..++..++.+.. +..+++|+|||||||||||++|+++|++++.+++.++.+++
T Consensus         9 ~~~~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~-~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l   87 (322)
T 3eie_A            9 LSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDL   87 (322)
T ss_dssp             EEECCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCT-TCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHH
T ss_pred             eecCCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhc-CCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHH
Confidence            44667789999999999999999999999999988877 44567899999999999999999999999999999998765


Q ss_pred             CC
Q 045456          281 YC  282 (288)
Q Consensus       281 ~~  282 (288)
                      .+
T Consensus        88 ~~   89 (322)
T 3eie_A           88 VS   89 (322)
T ss_dssp             HT
T ss_pred             hh
Confidence            43

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=99.38  E-value=4.4e-13  Score=119.14  Aligned_cols=78  Identities=29%  Similarity=0.460  Sum_probs=70.4

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      .++.+|++|+|.+++++.+.+.+. ++..++.|.++|...++|+||+||||||||++|+++|++++.+++.++.+++.+
T Consensus         5 ~~~~~~~~i~G~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~   82 (268)
T 2r62_A            5 KPNVRFKDMAGNEEAKEEVVEIVD-FLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIE   82 (268)
T ss_dssp             CCCCCSTTSSSCTTTHHHHHHHHH-HHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTTTT
T ss_pred             CCCCCHHHhCCcHHHHHHHHHHHH-HHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHHHHH
Confidence            446689999999999999998766 578899999999999999999999999999999999999999999999877654

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.37  E-value=1e-12  Score=118.44  Aligned_cols=81  Identities=25%  Similarity=0.308  Sum_probs=71.8

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                      ...++.+|++++|.+++++.+.+.+..+..+++.+...+ ..++++||+||||||||++|+++|++++.+++.++.+++.
T Consensus        13 ~~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~   91 (297)
T 3b9p_A           13 EGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLT   91 (297)
T ss_dssp             CCSSCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGG-CCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTS
T ss_pred             cCCCCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCC-CCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHh
Confidence            355778999999999999999999999988888887665 3468999999999999999999999999999999998876


Q ss_pred             Cc
Q 045456          282 CN  283 (288)
Q Consensus       282 ~~  283 (288)
                      +.
T Consensus        92 ~~   93 (297)
T 3b9p_A           92 SK   93 (297)
T ss_dssp             SS
T ss_pred             hc
Confidence            53

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=99.37  E-value=3.1e-13  Score=126.06  Aligned_cols=79  Identities=24%  Similarity=0.337  Sum_probs=69.1

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      ..++.+|++|+|.+++++.|.+.+..++..++.+.. +..+++|+||+||||||||++|+++|++++.+++.++.+++.+
T Consensus        44 ~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~~  122 (355)
T 2qp9_X           44 EKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVS  122 (355)
T ss_dssp             ---CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCS-SCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHHS
T ss_pred             cCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhc-CCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHhh
Confidence            455679999999999999999999999999998876 5566789999999999999999999999999999999876543

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=99.32  E-value=3.4e-12  Score=123.61  Aligned_cols=77  Identities=25%  Similarity=0.426  Sum_probs=70.3

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      .+.+|+||+|.+++++++.+.+. ++.+++.|.++|...++|+||+||||||||++|+++|++++.|++.++.+++..
T Consensus        11 ~~~~f~di~G~~~~~~~l~e~v~-~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~   87 (476)
T 2ce7_A           11 KRVTFKDVGGAEEAIEELKEVVE-FLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVE   87 (476)
T ss_dssp             CCCCGGGCCSCHHHHHHHHHHHH-HHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTT
T ss_pred             CCCCHHHhCCcHHHHHHHHHHHH-HhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHH
Confidence            45699999999999999998776 577889999999999999999999999999999999999999999999887754

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=99.31  E-value=1.8e-12  Score=124.48  Aligned_cols=80  Identities=25%  Similarity=0.328  Sum_probs=67.6

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-CCcEEEEecCCCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-KFNIYDMELTSVY  281 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-~~~i~~l~~~~~~  281 (288)
                      ..++.+|++|+|.+++++.|.+.+..++.+++.+.. +..+++|+||+||||||||++|+++|+++ +.+++.++.+++.
T Consensus       127 ~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~~l~  205 (444)
T 2zan_A          127 ERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLV  205 (444)
T ss_dssp             CCCCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSG-GGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC---
T ss_pred             cCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhc-cCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHHHHH
Confidence            456789999999999999999999999998888764 34557899999999999999999999999 9999999998875


Q ss_pred             Cc
Q 045456          282 CN  283 (288)
Q Consensus       282 ~~  283 (288)
                      +.
T Consensus       206 ~~  207 (444)
T 2zan_A          206 SK  207 (444)
T ss_dssp             --
T ss_pred             hh
Confidence            43

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.31  E-value=2.3e-12  Score=121.32  Aligned_cols=82  Identities=28%  Similarity=0.372  Sum_probs=72.5

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      +...+|.+|++|+|.+++++.|.+.+..+..+++.+...+. ..+++||+||||||||++|++||++++.+++.++++++
T Consensus       106 ~~~~~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~vLL~GppGtGKT~la~aia~~~~~~~~~v~~~~l  184 (389)
T 3vfd_A          106 VDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRA-PARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASL  184 (389)
T ss_dssp             BCCSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGC-CCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEECSCCC
T ss_pred             hccCCCCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCC-CCceEEEECCCCCCHHHHHHHHHHhhcCcEEEeeHHHh
Confidence            56778899999999999999999999999998888887764 46899999999999999999999999999999999887


Q ss_pred             CCc
Q 045456          281 YCN  283 (288)
Q Consensus       281 ~~~  283 (288)
                      .+.
T Consensus       185 ~~~  187 (389)
T 3vfd_A          185 TSK  187 (389)
T ss_dssp             ---
T ss_pred             hcc
Confidence            653

>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=99.31  E-value=2.5e-12  Score=119.92  Aligned_cols=80  Identities=23%  Similarity=0.319  Sum_probs=71.0

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      ..+|.+|++|+|.+++++.|.+.+..++..++.+...+ ..++++||+||||||||++|+++|++++.+++.++++++.+
T Consensus        77 ~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~  155 (357)
T 3d8b_A           77 HGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTS  155 (357)
T ss_dssp             CSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG-SCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCC
T ss_pred             CCCCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhcc-CCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhc
Confidence            34578999999999999999999999998888887665 45789999999999999999999999999999999988755


Q ss_pred             c
Q 045456          283 N  283 (288)
Q Consensus       283 ~  283 (288)
                      .
T Consensus       156 ~  156 (357)
T 3d8b_A          156 K  156 (357)
T ss_dssp             S
T ss_pred             c
Confidence            3

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=99.30  E-value=2.5e-12  Score=125.03  Aligned_cols=78  Identities=22%  Similarity=0.347  Sum_probs=73.2

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      .+.+|++|+|.+++++.|.+.+..++.+++.+..+|...++|+||+||||||||++|+++|++++.+++.++++++.+
T Consensus       199 ~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~  276 (489)
T 3hu3_A          199 NEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS  276 (489)
T ss_dssp             TCCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHT
T ss_pred             CCCCHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhh
Confidence            456899999999999999999999999999999999999999999999999999999999999999999999876643

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=99.24  E-value=1.3e-11  Score=108.87  Aligned_cols=77  Identities=23%  Similarity=0.346  Sum_probs=67.6

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      ..++.+|++++|.++.++++.+.+.. +..+..+..++...++|++|+||||||||+++++||++++.+++.++..++
T Consensus         9 ~~~~~~~~~i~g~~~~~~~l~~l~~~-~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~~~~~   85 (254)
T 1ixz_A            9 EAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDF   85 (254)
T ss_dssp             CCCSCCGGGCCSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CCCCCCHHHhCCcHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeeHHHH
Confidence            44567999999999999999886554 577888999999999999999999999999999999999999999987544

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.22  E-value=1.5e-11  Score=119.82  Aligned_cols=77  Identities=25%  Similarity=0.386  Sum_probs=70.0

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      ++.+|++|+|.+++++++.+.+. ++..++.+.++|...++|+||+||||||||+++++||++++.+++.++.+++.+
T Consensus        26 ~~~~f~dv~G~~~~k~~l~~lv~-~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~~i~i~g~~~~~  102 (499)
T 2dhr_A           26 PKVTFKDVAGAEEAKEELKEIVE-FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVE  102 (499)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHHH-HHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCCEEEEEGGGGTS
T ss_pred             CCCCHHHcCCcHHHHHHHHHHHH-HhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEehhHHHH
Confidence            56799999999999999988665 577888899999999999999999999999999999999999999999987654

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.17  E-value=5.2e-11  Score=106.76  Aligned_cols=78  Identities=24%  Similarity=0.388  Sum_probs=68.1

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      ...++.+|++++|.+++++++.+.+. .+..+..+..++...++|++|+||||||||+++++||+.++.+++.++..++
T Consensus        32 ~~~~~~~~~~i~g~~~~~~~l~~l~~-~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~~i~~~~~~~  109 (278)
T 1iy2_A           32 TEAPKVTFKDVAGAEEAKEELKEIVE-FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDF  109 (278)
T ss_dssp             CCCCCCCGGGSSSCHHHHHHHHHHHH-HHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             cCCCCCCHHHhCChHHHHHHHHHHHH-HHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCCEEEecHHHH
Confidence            34467899999999999999987655 4567788999999999999999999999999999999999999999987544

>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=99.12  E-value=3.9e-11  Score=117.17  Aligned_cols=87  Identities=22%  Similarity=0.395  Sum_probs=69.6

Q ss_pred             CCCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhc-HHHHHHhCC---cccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          195 GGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKR-RNFYRRVGK---VWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       195 ~~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~-~~~~~~~g~---~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ...|  ++.++|.+|++|+|.++.++.+.+.+..+... +..+...|.   +..+++||+||||||||++|+++|+++++
T Consensus        26 ~~lW--~ekyrP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~  103 (516)
T 1sxj_A           26 DKLW--TVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGY  103 (516)
T ss_dssp             CCCH--HHHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             CCCc--ccccCCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCC
Confidence            3578  46899999999999999999998888765432 122333333   25678999999999999999999999999


Q ss_pred             cEEEEecCCCCCc
Q 045456          271 NIYDMELTSVYCN  283 (288)
Q Consensus       271 ~i~~l~~~~~~~~  283 (288)
                      +++.+++++..+.
T Consensus       104 ~~i~in~s~~~~~  116 (516)
T 1sxj_A          104 DILEQNASDVRSK  116 (516)
T ss_dssp             EEEEECTTSCCCH
T ss_pred             CEEEEeCCCcchH
Confidence            9999999887654

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=99.10  E-value=1.2e-10  Score=112.02  Aligned_cols=70  Identities=27%  Similarity=0.316  Sum_probs=59.6

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC--CcEEEEecCCCCCc
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK--FNIYDMELTSVYCN  283 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~--~~i~~l~~~~~~~~  283 (288)
                      ...|++++|++++++.+...+..+.        .|..+++|+||+||||||||++|+++|++++  .+++.++.+++.+.
T Consensus        33 ~~~~~~iiG~~~~~~~l~~~~~~~~--------~~~~~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~~~~~~~~  104 (456)
T 2c9o_A           33 KQAASGLVGQENAREACGVIVELIK--------SKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYST  104 (456)
T ss_dssp             CSEETTEESCHHHHHHHHHHHHHHH--------TTCCTTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEEGGGGCCS
T ss_pred             hhchhhccCHHHHHHHHHHHHHHHH--------hCCCCCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEeHHHHHHH
Confidence            3478999999999998887665332        2666778999999999999999999999999  99999999887654

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.03  E-value=9.2e-11  Score=106.46  Aligned_cols=44  Identities=16%  Similarity=0.021  Sum_probs=39.7

Q ss_pred             hCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          239 VGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       239 ~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      .+..+++|+|||||||||||++|++||++++.+++.++++++.+
T Consensus        31 ~~~~~p~~lLl~GppGtGKT~la~aiA~~l~~~~i~v~~~~l~~   74 (293)
T 3t15_A           31 PNIKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELES   74 (293)
T ss_dssp             TTCCCCSEEEEEECTTSCHHHHHHHHHHHHTCCCEEEEHHHHHC
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCEEEEeHHHhhh
Confidence            46677899999999999999999999999999999999877644

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=99.02  E-value=3.2e-10  Score=108.73  Aligned_cols=73  Identities=19%  Similarity=0.237  Sum_probs=60.7

Q ss_pred             cccccChhhhHHHHHHHHHHhhcHHHHHHhCCc-ccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          210 DKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKV-WKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       210 ~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~-~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      ++|+|+++.|+.+...+..+..+...+..++.. +++++||+||||||||++|+++|+.++.+++.++.+.+.+
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~~~~v~~~~~~~   88 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTE   88 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC-
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCCceeecchhhcc
Confidence            368999999999999988777666555444432 5689999999999999999999999999999999887665

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.98  E-value=9.5e-10  Score=100.70  Aligned_cols=79  Identities=20%  Similarity=0.208  Sum_probs=61.1

Q ss_pred             CCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEE
Q 045456          196 GAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDM  275 (288)
Q Consensus       196 ~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  275 (288)
                      ..|.  ...+|.+|++++|.++.++.+...+......        .....++||+||||||||++|+++|+.++.+++.+
T Consensus        17 ~~~~--~~~~p~~~~~iiG~~~~~~~l~~~l~~~~~~--------~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~   86 (338)
T 3pfi_A           17 ETYE--TSLRPSNFDGYIGQESIKKNLNVFIAAAKKR--------NECLDHILFSGPAGLGKTTLANIISYEMSANIKTT   86 (338)
T ss_dssp             --------CCCCSGGGCCSCHHHHHHHHHHHHHHHHT--------TSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEE
T ss_pred             hhhh--hccCCCCHHHhCChHHHHHHHHHHHHHHHhc--------CCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEe
Confidence            4674  5788999999999999999988877754321        12356799999999999999999999999999999


Q ss_pred             ecCCCCCcc
Q 045456          276 ELTSVYCNS  284 (288)
Q Consensus       276 ~~~~~~~~~  284 (288)
                      +.+.+....
T Consensus        87 ~~~~~~~~~   95 (338)
T 3pfi_A           87 AAPMIEKSG   95 (338)
T ss_dssp             EGGGCCSHH
T ss_pred             cchhccchh
Confidence            987765443

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=98.95  E-value=7.8e-10  Score=100.80  Aligned_cols=73  Identities=16%  Similarity=0.153  Sum_probs=60.2

Q ss_pred             CCCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEE
Q 045456          195 GGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYD  274 (288)
Q Consensus       195 ~~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  274 (288)
                      ...|  +..++|.+|++++|.++.++.+.+.+..           | ..+..+|++||||||||++++++|++++.+++.
T Consensus        13 ~~~~--~~k~rP~~~~~ivg~~~~~~~l~~~l~~-----------~-~~~~~~L~~G~~G~GKT~la~~la~~l~~~~~~   78 (324)
T 3u61_B           13 EHIL--EQKYRPSTIDECILPAFDKETFKSITSK-----------G-KIPHIILHSPSPGTGKTTVAKALCHDVNADMMF   78 (324)
T ss_dssp             CSSH--HHHSCCCSTTTSCCCHHHHHHHHHHHHT-----------T-CCCSEEEECSSTTSSHHHHHHHHHHHTTEEEEE
T ss_pred             cchH--HHhhCCCCHHHHhCcHHHHHHHHHHHHc-----------C-CCCeEEEeeCcCCCCHHHHHHHHHHHhCCCEEE
Confidence            3467  4688999999999999988877776551           2 235678899999999999999999999999999


Q ss_pred             EecCCCC
Q 045456          275 MELTSVY  281 (288)
Q Consensus       275 l~~~~~~  281 (288)
                      +++++..
T Consensus        79 i~~~~~~   85 (324)
T 3u61_B           79 VNGSDCK   85 (324)
T ss_dssp             EETTTCC
T ss_pred             EcccccC
Confidence            9987653

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=98.91  E-value=2e-09  Score=97.57  Aligned_cols=76  Identities=28%  Similarity=0.298  Sum_probs=61.6

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      ..+|.+|++++|.+..++.+.+.+......       + ...+++||+||||||||++|+++|+.++.+++.++.+.+..
T Consensus         5 ~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~-------~-~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~   76 (324)
T 1hqc_A            5 ALRPKTLDEYIGQERLKQKLRVYLEAAKAR-------K-EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK   76 (324)
T ss_dssp             CCCCCSTTTCCSCHHHHHHHHHHHHHHHHH-------C-SCCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCCS
T ss_pred             ccCcccHHHhhCHHHHHHHHHHHHHHHHcc-------C-CCCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccCC
Confidence            567889999999999988888777654321       1 23468999999999999999999999999999999888765


Q ss_pred             cccc
Q 045456          283 NSEL  286 (288)
Q Consensus       283 ~~~l  286 (288)
                      ..++
T Consensus        77 ~~~l   80 (324)
T 1hqc_A           77 PGDL   80 (324)
T ss_dssp             HHHH
T ss_pred             hHHH
Confidence            5443

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.89  E-value=3.5e-09  Score=95.48  Aligned_cols=73  Identities=16%  Similarity=0.233  Sum_probs=59.3

Q ss_pred             cc-ccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccc---eeEEEcCCCCChHHHHHHHHHHhC-------CcEEEEec
Q 045456          209 FD-KIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKR---GYLLFGPPGTGKSSLIAAMANYLK-------FNIYDMEL  277 (288)
Q Consensus       209 ~~-~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~r---g~LL~GPpGtGKTsla~aiA~~l~-------~~i~~l~~  277 (288)
                      ++ +|+|.+++++.|.+.+..+.. +..+.+.|+...+   ++||+||||||||++|+++|+.++       .+++.++.
T Consensus        29 l~~~i~G~~~~~~~l~~~~~~~~~-~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~  107 (309)
T 3syl_A           29 LDRELIGLKPVKDRIRETAALLLV-ERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTR  107 (309)
T ss_dssp             HHHHSSSCHHHHHHHHHHHHHHHH-HHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECG
T ss_pred             HHHHccChHHHHHHHHHHHHHHHh-HHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcH
Confidence            44 799999999999998886553 5667777766543   599999999999999999999984       38999988


Q ss_pred             CCCCC
Q 045456          278 TSVYC  282 (288)
Q Consensus       278 ~~~~~  282 (288)
                      +++.+
T Consensus       108 ~~l~~  112 (309)
T 3syl_A          108 DDLVG  112 (309)
T ss_dssp             GGTCC
T ss_pred             HHhhh
Confidence            77654

>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=98.82  E-value=3.2e-09  Score=95.28  Aligned_cols=73  Identities=21%  Similarity=0.262  Sum_probs=55.0

Q ss_pred             cccccChhhhHHHHHHHHHHhhcHHHHHHh-CCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          210 DKIAMDPSMKQASIDDLDRFVKRRNFYRRV-GKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       210 ~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~-g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      ++++|.+++++.+...+...+......... +...+.++||+||||||||++|+++|+.++.+++.++.+++.+
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~i~~~~~~~   88 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTE   88 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSS
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEcchhccc
Confidence            358899999999988877644322111111 0123568999999999999999999999999999999887654

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.82  E-value=7.5e-09  Score=95.55  Aligned_cols=71  Identities=23%  Similarity=0.288  Sum_probs=54.5

Q ss_pred             CCCCCC-ccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC--cEEEEecCC
Q 045456          203 LDHPAT-FDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF--NIYDMELTS  279 (288)
Q Consensus       203 ~~~p~~-~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~--~i~~l~~~~  279 (288)
                      ..+|.. |++++|.++.++.+...+....        .|...++++||+||||||||++|+++|+.++.  +++.++...
T Consensus        36 ~~~p~~~~~~ivG~~~~~~~l~~l~~~~~--------~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~~~~~~~  107 (368)
T 3uk6_A           36 ALEPRQASQGMVGQLAARRAAGVVLEMIR--------EGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSE  107 (368)
T ss_dssp             TSCBCSEETTEESCHHHHHHHHHHHHHHH--------TTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEEEEEGGG
T ss_pred             ccCcCcchhhccChHHHHHHHHHHHHHHH--------cCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCcccccchh
Confidence            345555 9999999999887655443322        14445689999999999999999999999985  788888765


Q ss_pred             CC
Q 045456          280 VY  281 (288)
Q Consensus       280 ~~  281 (288)
                      +.
T Consensus       108 ~~  109 (368)
T 3uk6_A          108 IF  109 (368)
T ss_dssp             GS
T ss_pred             hh
Confidence            43

>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=98.81  E-value=3.3e-09  Score=98.55  Aligned_cols=71  Identities=23%  Similarity=0.229  Sum_probs=53.8

Q ss_pred             cccChhhhHHHHHHHHHHhhcHHHHHH-hCC-cccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          212 IAMDPSMKQASIDDLDRFVKRRNFYRR-VGK-VWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       212 l~~~~~~k~~i~~~l~~~~~~~~~~~~-~g~-~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      |+|++++++.|...+............ .+. ..++++||+||||||||++|++||+.++.|++.++.+++..
T Consensus        17 i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~~~~~~~~~~l~~   89 (363)
T 3hws_A           17 VIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTE   89 (363)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHTT
T ss_pred             ccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEechHHhcc
Confidence            589999999998888654433211100 111 24678999999999999999999999999999999876653

>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=98.78  E-value=1.4e-08  Score=94.62  Aligned_cols=70  Identities=24%  Similarity=0.284  Sum_probs=53.6

Q ss_pred             ccccChhhhHHHHHHHHHHhhcHHH------------------HHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcE
Q 045456          211 KIAMDPSMKQASIDDLDRFVKRRNF------------------YRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNI  272 (288)
Q Consensus       211 ~l~~~~~~k~~i~~~l~~~~~~~~~------------------~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i  272 (288)
                      .|+|++++|+.|...+.....+...                  ... ....+.++||+||||||||++|+++|+.++.++
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~-~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~  100 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEE-VELSKSNILLIGPTGSGKTLMAQTLAKHLDIPI  100 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHH-TTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCE
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccc-cccCCCCEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            4789999999998887544433221                  011 112356799999999999999999999999999


Q ss_pred             EEEecCCCC
Q 045456          273 YDMELTSVY  281 (288)
Q Consensus       273 ~~l~~~~~~  281 (288)
                      +.++.+.+.
T Consensus       101 ~~~~~~~~~  109 (376)
T 1um8_A          101 AISDATSLT  109 (376)
T ss_dssp             EEEEGGGCC
T ss_pred             EEecchhhh
Confidence            999987764

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.73  E-value=1.9e-08  Score=96.68  Aligned_cols=66  Identities=20%  Similarity=0.415  Sum_probs=53.8

Q ss_pred             CCCCCCCccccccChhhh---HHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecC
Q 045456          202 NLDHPATFDKIAMDPSMK---QASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELT  278 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k---~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  278 (288)
                      ...+|.+|++++|+++..   +.+...+..           |.  ..++||+||||||||++|++||+.++.+++.++..
T Consensus        18 ~r~rP~~l~~ivGq~~~~~~~~~L~~~i~~-----------~~--~~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~   84 (447)
T 3pvs_A           18 ARMRPENLAQYIGQQHLLAAGKPLPRAIEA-----------GH--LHSMILWGPPGTGKTTLAEVIARYANADVERISAV   84 (447)
T ss_dssp             HHTCCCSTTTCCSCHHHHSTTSHHHHHHHH-----------TC--CCEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETT
T ss_pred             HHhCCCCHHHhCCcHHHHhchHHHHHHHHc-----------CC--CcEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEec
Confidence            457899999999999887   555554442           22  25799999999999999999999999999999976


Q ss_pred             CC
Q 045456          279 SV  280 (288)
Q Consensus       279 ~~  280 (288)
                      ..
T Consensus        85 ~~   86 (447)
T 3pvs_A           85 TS   86 (447)
T ss_dssp             TC
T ss_pred             cC
Confidence            53

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=98.73  E-value=8.5e-09  Score=92.74  Aligned_cols=73  Identities=26%  Similarity=0.378  Sum_probs=56.5

Q ss_pred             CCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-----CCc
Q 045456          197 AWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-----KFN  271 (288)
Q Consensus       197 ~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-----~~~  271 (288)
                      .|  +..++|.+|++++|.++.++.+.+.+..           |.  ..++||+||||||||++|+++|+.+     +.+
T Consensus         6 ~~--~~k~~p~~~~~~~g~~~~~~~l~~~l~~-----------~~--~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~   70 (319)
T 2chq_A            6 IW--VEKYRPRTLDEVVGQDEVIQRLKGYVER-----------KN--IPHLLFSGPPGTGKTATAIALARDLFGENWRDN   70 (319)
T ss_dssp             CT--TTTTSCSSGGGSCSCHHHHHHHHTTTTT-----------TC--CCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHH
T ss_pred             cH--HHhcCCCCHHHHhCCHHHHHHHHHHHhC-----------CC--CCeEEEECcCCcCHHHHHHHHHHHhcCCcccCC
Confidence            56  4688999999999999888877664431           21  2249999999999999999999997     457


Q ss_pred             EEEEecCCCCCcc
Q 045456          272 IYDMELTSVYCNS  284 (288)
Q Consensus       272 i~~l~~~~~~~~~  284 (288)
                      ++.++.++.....
T Consensus        71 ~~~~~~~~~~~~~   83 (319)
T 2chq_A           71 FIEMNASDERGID   83 (319)
T ss_dssp             CEEEETTSTTCTT
T ss_pred             eEEEeCccccChH
Confidence            8888887654433

>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=98.72  E-value=1.2e-08  Score=85.22  Aligned_cols=70  Identities=19%  Similarity=0.262  Sum_probs=50.7

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----CCcEEEEecCC
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----KFNIYDMELTS  279 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~~  279 (288)
                      ..+.+|++++..+...+.+.+.+..+...      +.++..++++|+||||||||+++++||+.+    |..++.++..+
T Consensus         4 ~~~~~f~~~~~~~~~~~~~~~~~~~~~~~------~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~~   77 (180)
T 3ec2_A            4 YWNANLDTYHPKNVSQNRALLTIRVFVHN------FNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKD   77 (180)
T ss_dssp             CTTCCSSSCCCCSHHHHHHHHHHHHHHHS------CCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHHH
T ss_pred             hhhCccccccCCCHHHHHHHHHHHHHHHh------ccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHHH
Confidence            45679999988655555555655555543      334446789999999999999999999988    66666665543

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.68  E-value=2.3e-08  Score=82.26  Aligned_cols=64  Identities=19%  Similarity=0.374  Sum_probs=50.5

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----------CCcEE
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----------KFNIY  273 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~  273 (288)
                      ..|.+|++++|.++..+.+.+.+..             ..+++++|+||||||||++++++|+.+          +.+++
T Consensus        16 ~~~~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~   82 (195)
T 1jbk_A           16 AEQGKLDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVL   82 (195)
T ss_dssp             HHTTCSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEE
T ss_pred             HhhccccccccchHHHHHHHHHHhc-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEE
Confidence            4567899999988877766654321             235679999999999999999999997          78888


Q ss_pred             EEecCCC
Q 045456          274 DMELTSV  280 (288)
Q Consensus       274 ~l~~~~~  280 (288)
                      .++++++
T Consensus        83 ~~~~~~~   89 (195)
T 1jbk_A           83 ALDMGAL   89 (195)
T ss_dssp             EECHHHH
T ss_pred             EeeHHHH
Confidence            8886554

>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=98.68  E-value=4e-08  Score=87.35  Aligned_cols=67  Identities=22%  Similarity=0.231  Sum_probs=48.3

Q ss_pred             cccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCC
Q 045456          210 DKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTS  279 (288)
Q Consensus       210 ~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~  279 (288)
                      +.+++.+...+.+......+.   +.+...+...++++||+||||||||++|+++|++++.+++.++.++
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~---~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~   99 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLV---QQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPD   99 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHH---HHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGG
T ss_pred             cCCCCccHHHHHHHHHHHHHH---HHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHH
Confidence            345666666555555432222   2233334566789999999999999999999999999999998754

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.67  E-value=1.4e-08  Score=92.76  Aligned_cols=72  Identities=24%  Similarity=0.400  Sum_probs=55.0

Q ss_pred             CCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC------
Q 045456          196 GAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK------  269 (288)
Q Consensus       196 ~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~------  269 (288)
                      ..|.  ..++|.+|++++|.+++++.+...+..           |.  ..++||+||||||||++++++|+.++      
T Consensus        25 ~~~~--~k~~p~~~~~i~g~~~~~~~l~~~l~~-----------~~--~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~   89 (353)
T 1sxj_D           25 QPWV--EKYRPKNLDEVTAQDHAVTVLKKTLKS-----------AN--LPHMLFYGPPGTGKTSTILALTKELYGPDLMK   89 (353)
T ss_dssp             -CHH--HHTCCSSTTTCCSCCTTHHHHHHHTTC-----------TT--CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHT
T ss_pred             ccHH--HhcCCCCHHHhhCCHHHHHHHHHHHhc-----------CC--CCEEEEECCCCCCHHHHHHHHHHHhCCCcccc
Confidence            3574  578999999999999988877664431           21  23499999999999999999999975      


Q ss_pred             CcEEEEecCCCCC
Q 045456          270 FNIYDMELTSVYC  282 (288)
Q Consensus       270 ~~i~~l~~~~~~~  282 (288)
                      ..+..++.++...
T Consensus        90 ~~~~~~~~~~~~~  102 (353)
T 1sxj_D           90 SRILELNASDERG  102 (353)
T ss_dssp             TSEEEECSSSCCC
T ss_pred             cceEEEccccccc
Confidence            3588888776543

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.67  E-value=2.7e-08  Score=80.49  Aligned_cols=61  Identities=11%  Similarity=0.111  Sum_probs=46.9

Q ss_pred             ccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCCc
Q 045456          211 KIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYCN  283 (288)
Q Consensus       211 ~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~  283 (288)
                      +++|.+...+.+.+.+.....           ....+||+||||||||++|++|++..   +.|++ ++.+.+.+.
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~-----------~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~~~~~~   65 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSE-----------TDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YRELTPDNA   65 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTT-----------CCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEECCTTTS
T ss_pred             CceeCCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECCCCCcc
Confidence            467777777777776665432           24569999999999999999999987   78999 999877654

>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=98.67  E-value=3.3e-08  Score=83.31  Aligned_cols=68  Identities=26%  Similarity=0.329  Sum_probs=53.3

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-----CCcEEEEe
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-----KFNIYDME  276 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~  276 (288)
                      ...+|.+|++++|.++.++.+.+.+..           +  ...+++|+||||||||++++++++.+     ..+++.++
T Consensus         9 ~~~~p~~~~~~~g~~~~~~~l~~~l~~-----------~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~   75 (226)
T 2chg_A            9 EKYRPRTLDEVVGQDEVIQRLKGYVER-----------K--NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMN   75 (226)
T ss_dssp             HHTSCSSGGGCCSCHHHHHHHHHHHHT-----------T--CCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEE
T ss_pred             HhcCCCCHHHHcCcHHHHHHHHHHHhC-----------C--CCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEec
Confidence            467889999999998888877665542           1  12359999999999999999999986     46688888


Q ss_pred             cCCCCC
Q 045456          277 LTSVYC  282 (288)
Q Consensus       277 ~~~~~~  282 (288)
                      .++..+
T Consensus        76 ~~~~~~   81 (226)
T 2chg_A           76 ASDERG   81 (226)
T ss_dssp             TTCTTC
T ss_pred             cccccC
Confidence            766544

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=98.66  E-value=4.7e-08  Score=89.95  Aligned_cols=76  Identities=24%  Similarity=0.266  Sum_probs=55.4

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      +...+|.+|+++++.+.+++.+...+..-..       .|. ....++|+||||||||+++++||++++.++...+++..
T Consensus        16 ~~~lr~~~l~~~~g~~~~~~~l~~~i~~~~~-------~~~-~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~sg~~~   87 (334)
T 1in4_A           16 VQFLRPKSLDEFIGQENVKKKLSLALEAAKM-------RGE-VLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVL   87 (334)
T ss_dssp             -CTTSCSSGGGCCSCHHHHHHHHHHHHHHHH-------HTC-CCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTC
T ss_pred             HHHcCCccHHHccCcHHHHHHHHHHHHHHHh-------cCC-CCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEechHh
Confidence            3567788999999987766665554432211       122 23579999999999999999999999999888877655


Q ss_pred             CCcc
Q 045456          281 YCNS  284 (288)
Q Consensus       281 ~~~~  284 (288)
                      ....
T Consensus        88 ~~~~   91 (334)
T 1in4_A           88 VKQG   91 (334)
T ss_dssp             CSHH
T ss_pred             cCHH
Confidence            4433

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.64  E-value=2.5e-08  Score=82.11  Aligned_cols=65  Identities=23%  Similarity=0.404  Sum_probs=50.6

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----------CCcE
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----------KFNI  272 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i  272 (288)
                      ...|.+|++++|.++..+.+.+.+..             ...++++|+||||||||++++++|+++          +.++
T Consensus        15 ~~~~~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~   81 (187)
T 2p65_A           15 LARAGKLDPVIGRDTEIRRAIQILSR-------------RTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKL   81 (187)
T ss_dssp             HHHTTCSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEE
T ss_pred             HHhccccchhhcchHHHHHHHHHHhC-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeE
Confidence            34577899999988776666554321             235689999999999999999999998          7888


Q ss_pred             EEEecCCC
Q 045456          273 YDMELTSV  280 (288)
Q Consensus       273 ~~l~~~~~  280 (288)
                      +.+++..+
T Consensus        82 ~~~~~~~~   89 (187)
T 2p65_A           82 VSLDLSSL   89 (187)
T ss_dssp             EEECHHHH
T ss_pred             EEEeHHHh
Confidence            88876543

>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=98.64  E-value=3.6e-08  Score=87.23  Aligned_cols=64  Identities=11%  Similarity=0.188  Sum_probs=47.0

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC---CcEEEEecCCCC
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK---FNIYDMELTSVY  281 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~~~~~  281 (288)
                      .+|++++|.+...+.+.+.+.....           ...++||+||||||||++|+++++.+.   .+++.++++++.
T Consensus         3 ~~f~~~ig~~~~~~~~~~~~~~~~~-----------~~~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~~   69 (265)
T 2bjv_A            3 EYKDNLLGEANSFLEVLEQVSHLAP-----------LDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALN   69 (265)
T ss_dssp             -------CCCHHHHHHHHHHHHHTT-----------SCSCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGSC
T ss_pred             cccccceeCCHHHHHHHHHHHHHhC-----------CCCCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCCC
Confidence            3789999999888888777765432           246799999999999999999999885   789999988763

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=98.63  E-value=3.4e-08  Score=90.23  Aligned_cols=58  Identities=16%  Similarity=0.177  Sum_probs=47.7

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecC
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELT  278 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  278 (288)
                      |..+++++|.++.++.+...+..               .+++||+||||||||++|+++|+.++.+++.++.+
T Consensus        23 ~~~~~~i~g~~~~~~~l~~~l~~---------------~~~vll~G~pGtGKT~la~~la~~~~~~~~~i~~~   80 (331)
T 2r44_A           23 DEVGKVVVGQKYMINRLLIGICT---------------GGHILLEGVPGLAKTLSVNTLAKTMDLDFHRIQFT   80 (331)
T ss_dssp             HHHTTTCCSCHHHHHHHHHHHHH---------------TCCEEEESCCCHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             HHhccceeCcHHHHHHHHHHHHc---------------CCeEEEECCCCCcHHHHHHHHHHHhCCCeEEEecC
Confidence            44567888888887776654432               25899999999999999999999999999999875

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.61  E-value=1.1e-08  Score=82.75  Aligned_cols=58  Identities=9%  Similarity=-0.018  Sum_probs=45.2

Q ss_pred             ccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          211 KIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       211 ~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      +++|.++..+.+.+.+..+..           ...++||+||||||||++|++|++..+ +++.++++++
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~-----------~~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~~~~~   62 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAK-----------RTSPVFLTGEAGSPFETVARYFHKNGT-PWVSPARVEY   62 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHT-----------CSSCEEEEEETTCCHHHHHGGGCCTTS-CEECCSSTTH
T ss_pred             CceeCCHHHHHHHHHHHHHhC-----------CCCcEEEECCCCccHHHHHHHHHHhCC-CeEEechhhC
Confidence            467777787888777765432           245799999999999999999999988 9999888765

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=98.60  E-value=3.8e-08  Score=88.77  Aligned_cols=70  Identities=23%  Similarity=0.381  Sum_probs=54.5

Q ss_pred             CCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC-----C
Q 045456          196 GAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK-----F  270 (288)
Q Consensus       196 ~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~-----~  270 (288)
                      ..|.  ..++|.+|++++|.++.++.+...+..           |.  ..++||+||||||||++|+++|+.+.     .
T Consensus        13 ~~~~--~k~~p~~~~~~~g~~~~~~~l~~~l~~-----------~~--~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~   77 (327)
T 1iqp_A           13 KPWV--EKYRPQRLDDIVGQEHIVKRLKHYVKT-----------GS--MPHLLFAGPPGVGKTTAALALARELFGENWRH   77 (327)
T ss_dssp             SCHH--HHTCCCSTTTCCSCHHHHHHHHHHHHH-----------TC--CCEEEEESCTTSSHHHHHHHHHHHHHGGGHHH
T ss_pred             Cchh--hccCCCCHHHhhCCHHHHHHHHHHHHc-----------CC--CCeEEEECcCCCCHHHHHHHHHHHhcCCcccC
Confidence            3564  578899999999999888887765542           22  22499999999999999999999973     3


Q ss_pred             cEEEEecCCC
Q 045456          271 NIYDMELTSV  280 (288)
Q Consensus       271 ~i~~l~~~~~  280 (288)
                      +++.++.++.
T Consensus        78 ~~~~~~~~~~   87 (327)
T 1iqp_A           78 NFLELNASDE   87 (327)
T ss_dssp             HEEEEETTCH
T ss_pred             ceEEeecccc
Confidence            5788887654

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.59  E-value=6.9e-08  Score=88.72  Aligned_cols=71  Identities=27%  Similarity=0.425  Sum_probs=53.1

Q ss_pred             CCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC-----C
Q 045456          196 GAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK-----F  270 (288)
Q Consensus       196 ~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~-----~  270 (288)
                      ..|.  ..++|.+|++++|++++.+.|...+..           |. .+ .++|+||||||||++++++|+.+.     .
T Consensus        13 ~~~~--~k~rp~~~~~~~g~~~~~~~L~~~i~~-----------g~-~~-~~ll~Gp~G~GKTtla~~la~~l~~~~~~~   77 (340)
T 1sxj_C           13 LPWV--EKYRPETLDEVYGQNEVITTVRKFVDE-----------GK-LP-HLLFYGPPGTGKTSTIVALAREIYGKNYSN   77 (340)
T ss_dssp             CCHH--HHTCCSSGGGCCSCHHHHHHHHHHHHT-----------TC-CC-CEEEECSSSSSHHHHHHHHHHHHHTTSHHH
T ss_pred             CchH--HHhCCCcHHHhcCcHHHHHHHHHHHhc-----------CC-Cc-eEEEECCCCCCHHHHHHHHHHHHcCCCccc
Confidence            3574  578999999999988777766554431           32 22 399999999999999999999974     3


Q ss_pred             cEEEEecCCCC
Q 045456          271 NIYDMELTSVY  281 (288)
Q Consensus       271 ~i~~l~~~~~~  281 (288)
                      .+..++.++..
T Consensus        78 ~~~~~~~~~~~   88 (340)
T 1sxj_C           78 MVLELNASDDR   88 (340)
T ss_dssp             HEEEECTTSCC
T ss_pred             eEEEEcCcccc
Confidence            47777776543

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.59  E-value=6.5e-08  Score=81.89  Aligned_cols=69  Identities=25%  Similarity=0.317  Sum_probs=49.1

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCc-ccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKV-WKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~-~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      .+.+|+++.+.+...+.+.+.+..++...      ... .+++++|+||||||||++++++++++   +.+++.++.++
T Consensus        20 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~   92 (202)
T 2w58_A           20 LRASLSDVDLNDDGRIKAIRFAERFVAEY------EPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPE   92 (202)
T ss_dssp             GCCCTTSSCCSSHHHHHHHHHHHHHHHHC------CSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEEHHH
T ss_pred             HcCCHhhccCCChhHHHHHHHHHHHHHHh------hhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEhHH
Confidence            35689999887654454555555554421      111 12789999999999999999999988   67887777654

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.57  E-value=6.3e-08  Score=87.14  Aligned_cols=72  Identities=15%  Similarity=0.238  Sum_probs=55.4

Q ss_pred             CCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-----CC
Q 045456          196 GAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-----KF  270 (288)
Q Consensus       196 ~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-----~~  270 (288)
                      ..|.  ..++|.+|++++|.++.++.+.+.+..           +. .+ .+||+||||||||++|+++|+.+     +.
T Consensus         9 ~~~~--~~~~p~~~~~~~g~~~~~~~l~~~l~~-----------~~-~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~   73 (323)
T 1sxj_B            9 LPWV--EKYRPQVLSDIVGNKETIDRLQQIAKD-----------GN-MP-HMIISGMPGIGKTTSVHCLAHELLGRSYAD   73 (323)
T ss_dssp             CCHH--HHTCCSSGGGCCSCTHHHHHHHHHHHS-----------CC-CC-CEEEECSTTSSHHHHHHHHHHHHHGGGHHH
T ss_pred             CcHH--HhcCCCCHHHHHCCHHHHHHHHHHHHc-----------CC-CC-eEEEECcCCCCHHHHHHHHHHHhcCCcccC
Confidence            3564  468899999999999888877765431           22 22 39999999999999999999996     45


Q ss_pred             cEEEEecCCCCC
Q 045456          271 NIYDMELTSVYC  282 (288)
Q Consensus       271 ~i~~l~~~~~~~  282 (288)
                      +++.++.++..+
T Consensus        74 ~~~~~~~~~~~~   85 (323)
T 1sxj_B           74 GVLELNASDDRG   85 (323)
T ss_dssp             HEEEECTTSCCS
T ss_pred             CEEEecCccccC
Confidence            688888776443

>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=98.54  E-value=1.2e-07  Score=81.37  Aligned_cols=69  Identities=19%  Similarity=0.173  Sum_probs=47.8

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC---CcEEEEecCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK---FNIYDMELTS  279 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~~~  279 (288)
                      ..++.+|+++++.+ ..+.+.+.+..+...         +..++++|+||||||||++++++|++++   .+++.++.++
T Consensus        21 ~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~---------~~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~   90 (242)
T 3bos_A           21 LPDDETFTSYYPAA-GNDELIGALKSAASG---------DGVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGI   90 (242)
T ss_dssp             CCTTCSTTTSCC---CCHHHHHHHHHHHHT---------CSCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGG
T ss_pred             CCCCCChhhccCCC-CCHHHHHHHHHHHhC---------CCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHH
Confidence            33447999998832 223344444443321         1356899999999999999999999885   7888888776


Q ss_pred             CC
Q 045456          280 VY  281 (288)
Q Consensus       280 ~~  281 (288)
                      +.
T Consensus        91 ~~   92 (242)
T 3bos_A           91 HA   92 (242)
T ss_dssp             GG
T ss_pred             HH
Confidence            54

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=98.54  E-value=1.3e-07  Score=86.98  Aligned_cols=57  Identities=26%  Similarity=0.363  Sum_probs=46.9

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..++|.+|++++|.++..+.+...+..           | ..+..+||+||||||||++++++|+.++.
T Consensus         8 ~k~rp~~~~~~vg~~~~~~~L~~~l~~-----------~-~~~~~~ll~G~~G~GKT~la~~la~~l~~   64 (373)
T 1jr3_A            8 RKWRPQTFADVVGQEHVLTALANGLSL-----------G-RIHHAYLFSGTRGVGKTSIARLLAKGLNC   64 (373)
T ss_dssp             HHTCCCSTTTSCSCHHHHHHHHHHHHH-----------T-CCCSEEEEESCTTSSHHHHHHHHHHHHSC
T ss_pred             HhhCCCchhhccCcHHHHHHHHHHHHh-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            467899999999999888877776542           2 12457999999999999999999999865

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.51  E-value=6.2e-08  Score=88.89  Aligned_cols=58  Identities=21%  Similarity=0.411  Sum_probs=44.3

Q ss_pred             CCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          197 AWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       197 ~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .|  +.+++|.+|++++|.++..+.+...+.   .       .|. .+. ++|+||||||||++++++|+++
T Consensus         3 ~w--~~kyrP~~~~~~vg~~~~~~~l~~~~~---~-------~~~-~~~-~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E            3 LW--VDKYRPKSLNALSHNEELTNFLKSLSD---Q-------PRD-LPH-LLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             -C--TTTTCCCSGGGCCSCHHHHHHHHTTTT---C-------TTC-CCC-EEEECSTTSSHHHHHHTHHHHH
T ss_pred             cc--hhccCCCCHHHhcCCHHHHHHHHHHHh---h-------CCC-CCe-EEEECCCCCCHHHHHHHHHHHH
Confidence            47  468999999999999887776655431   1       122 233 9999999999999999999965

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.49  E-value=1.1e-07  Score=91.68  Aligned_cols=63  Identities=21%  Similarity=0.376  Sum_probs=49.7

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----------CCcE
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----------KFNI  272 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i  272 (288)
                      ..+|..+++++|.++..+.+.+.+..             ..+.++||+||||||||++|+++|+.+          +.++
T Consensus       173 ~~r~~~ld~iiGr~~~i~~l~~~l~r-------------~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~  239 (468)
T 3pxg_A          173 IAKEDSLDPVIGRSKEIQRVIEVLSR-------------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRV  239 (468)
T ss_dssp             HTTSSCSCCCCCCHHHHHHHHHHHHC-------------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCE
T ss_pred             HHhcCCCCCccCcHHHHHHHHHHHhc-------------cCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeE
Confidence            45778999999999888877665431             235689999999999999999999997          8889


Q ss_pred             EEEecC
Q 045456          273 YDMELT  278 (288)
Q Consensus       273 ~~l~~~  278 (288)
                      +.++++
T Consensus       240 ~~l~~~  245 (468)
T 3pxg_A          240 MTLDMG  245 (468)
T ss_dssp             ECC---
T ss_pred             EEeeCC
Confidence            888876

>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=98.47  E-value=2e-07  Score=79.14  Aligned_cols=57  Identities=26%  Similarity=0.390  Sum_probs=46.2

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ....|.+|++++|.++..+.+.+.+..           +. .++.++|+||||||||++++++++.++.
T Consensus        15 ~~~~p~~~~~~~g~~~~~~~l~~~l~~-----------~~-~~~~~ll~G~~G~GKT~l~~~~~~~~~~   71 (250)
T 1njg_A           15 RKWRPQTFADVVGQEHVLTALANGLSL-----------GR-IHHAYLFSGTRGVGKTSIARLLAKGLNC   71 (250)
T ss_dssp             HHTCCCSGGGCCSCHHHHHHHHHHHHH-----------TC-CCSEEEEECSTTSCHHHHHHHHHHHHHC
T ss_pred             hccCCccHHHHhCcHHHHHHHHHHHHc-----------CC-CCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            467889999999999888877776542           21 2357999999999999999999998864

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=98.46  E-value=1.7e-07  Score=92.01  Aligned_cols=71  Identities=24%  Similarity=0.195  Sum_probs=50.2

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCccc
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSE  285 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~  285 (288)
                      ..++++|.+++++.+.+.+.......      .. ....++|+||||||||+++++||+.++.++..++++.+.+.++
T Consensus        79 l~~di~G~~~vk~~i~~~~~l~~~~~------~~-~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~  149 (543)
T 3m6a_A           79 LDEEHHGLEKVKERILEYLAVQKLTK------SL-KGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESE  149 (543)
T ss_dssp             HHHHCSSCHHHHHHHHHHHHHHHHSS------SC-CSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC------
T ss_pred             HHHHhccHHHHHHHHHHHHHHHHhcc------cC-CCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhh
Confidence            35668899998888866544322111      11 2446999999999999999999999999999999988765443

>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=98.44  E-value=2.7e-07  Score=84.03  Aligned_cols=70  Identities=17%  Similarity=0.292  Sum_probs=47.4

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      +.++.+|++++..+..... ...+......+      + ....+++|+||||||||++++++|+++   +.+++.++.++
T Consensus         4 l~~~~~f~~fv~g~~~~~a-~~~~~~~~~~~------~-~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~~   75 (324)
T 1l8q_A            4 LNPKYTLENFIVGEGNRLA-YEVVKEALENL------G-SLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADD   75 (324)
T ss_dssp             CCTTCCSSSCCCCTTTHHH-HHHHHHHHHTT------T-TSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHH
T ss_pred             CCCCCCcccCCCCCcHHHH-HHHHHHHHhCc------C-CCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHHH
Confidence            3455689999732222222 22233333221      1 134679999999999999999999999   89999998765


Q ss_pred             C
Q 045456          280 V  280 (288)
Q Consensus       280 ~  280 (288)
                      +
T Consensus        76 ~   76 (324)
T 1l8q_A           76 F   76 (324)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.40  E-value=1.7e-07  Score=86.12  Aligned_cols=66  Identities=15%  Similarity=0.105  Sum_probs=51.3

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---------CCcEEEEecC
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---------KFNIYDMELT  278 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~  278 (288)
                      ..++++|.++..+.+.+.+...+.         ...+++++|+||||||||++++++++.+         +.+++.+++.
T Consensus        17 ~p~~~~gr~~~~~~l~~~l~~~~~---------~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~   87 (387)
T 2v1u_A           17 VPDVLPHREAELRRLAEVLAPALR---------GEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNAR   87 (387)
T ss_dssp             CCSCCTTCHHHHHHHHHTTGGGTS---------SCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETT
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHc---------CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECC
Confidence            347889988888877765543221         1235679999999999999999999999         8899999987


Q ss_pred             CCCC
Q 045456          279 SVYC  282 (288)
Q Consensus       279 ~~~~  282 (288)
                      ...+
T Consensus        88 ~~~~   91 (387)
T 2v1u_A           88 HRET   91 (387)
T ss_dssp             TSCS
T ss_pred             cCCC
Confidence            6554

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.40  E-value=3.6e-07  Score=82.14  Aligned_cols=70  Identities=19%  Similarity=0.277  Sum_probs=50.1

Q ss_pred             cccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCCc
Q 045456          210 DKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYCN  283 (288)
Q Consensus       210 ~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~  283 (288)
                      ++++|.+..++.+...+......-.   . ...+...+||+||||||||++|+++|+.+   +.+++.++.+.+...
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~---~-~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~   89 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLK---D-PNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEK   89 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCS---C-TTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCST
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCC---C-CCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeeccccccc
Confidence            3567888888888877765432100   0 01122469999999999999999999998   667999998876543

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=98.39  E-value=1.9e-07  Score=85.28  Aligned_cols=55  Identities=31%  Similarity=0.290  Sum_probs=40.4

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ..+|.+|++++|.++.++.+...+.    .         +...++||+||||||||++|+++|+.++.
T Consensus        17 ~~~~~~f~~i~G~~~~~~~l~~~~~----~---------~~~~~vLl~G~~GtGKT~la~~la~~~~~   71 (350)
T 1g8p_A           17 TRPVFPFSAIVGQEDMKLALLLTAV----D---------PGIGGVLVFGDRGTGKSTAVRALAALLPE   71 (350)
T ss_dssp             -CCCCCGGGSCSCHHHHHHHHHHHH----C---------GGGCCEEEECCGGGCTTHHHHHHHHHSCC
T ss_pred             CCCCCCchhccChHHHHHHHHHHhh----C---------CCCceEEEECCCCccHHHHHHHHHHhCcc
Confidence            3456799999999886664322111    1         12346999999999999999999999873

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.38  E-value=3.3e-07  Score=83.64  Aligned_cols=68  Identities=25%  Similarity=0.385  Sum_probs=48.2

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC----CcEEEEecCC
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK----FNIYDMELTS  279 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~----~~i~~l~~~~  279 (288)
                      +.+|+++......+..+.+.+..|+..      .+....++++|+||||||||++|.+||+++.    .++..++.++
T Consensus       120 ~~tfd~f~~~~~~~~~~~~~~~~~i~~------~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~~~~  191 (308)
T 2qgz_A          120 HIHLSDIDVNNASRMEAFSAILDFVEQ------YPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPS  191 (308)
T ss_dssp             SCCGGGSCCCSHHHHHHHHHHHHHHHH------CSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEEHHH
T ss_pred             hCCHhhCcCCChHHHHHHHHHHHHHHh------ccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEHHH
Confidence            468999987664444455555555542      1212357899999999999999999998765    7787777553

>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=98.38  E-value=2.8e-07  Score=85.14  Aligned_cols=63  Identities=21%  Similarity=0.217  Sum_probs=51.9

Q ss_pred             cccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-----------CCcEEEEecC
Q 045456          210 DKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-----------KFNIYDMELT  278 (288)
Q Consensus       210 ~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-----------~~~i~~l~~~  278 (288)
                      ++++|.++..+.+.+.+...+..         ..+++++|+||||||||++++++++++           +.+++.+++.
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~---------~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~   90 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKN---------EVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCR   90 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTT---------CCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcC---------CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECc
Confidence            78999999988888877665432         234689999999999999999999998           9999999876


Q ss_pred             CCC
Q 045456          279 SVY  281 (288)
Q Consensus       279 ~~~  281 (288)
                      +..
T Consensus        91 ~~~   93 (384)
T 2qby_B           91 EVG   93 (384)
T ss_dssp             HHC
T ss_pred             cCC
Confidence            543

>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=98.35  E-value=1.2e-06  Score=80.79  Aligned_cols=67  Identities=13%  Similarity=0.057  Sum_probs=52.3

Q ss_pred             ccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----CCcEEEEecCCCCC
Q 045456          209 FDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----KFNIYDMELTSVYC  282 (288)
Q Consensus       209 ~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~~~~~  282 (288)
                      .+++++.++..+.+.+.+...+..       +.+..+.++|+||||||||++++++++.+    +.+++.+++....+
T Consensus        16 p~~l~gr~~~~~~l~~~l~~~~~~-------~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~   86 (389)
T 1fnn_A           16 PKRLPHREQQLQQLDILLGNWLRN-------PGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRN   86 (389)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHS-------TTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCS
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcC-------CCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCC
Confidence            378999999988888877765432       11112379999999999999999999999    68899999766543

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=98.35  E-value=3.5e-07  Score=79.01  Aligned_cols=35  Identities=23%  Similarity=0.383  Sum_probs=30.1

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEE
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYD  274 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  274 (288)
                      ++|.++++|+|||||||||++|.++|+.++-.++.
T Consensus        54 ~iPkkn~ili~GPPGtGKTt~a~ala~~l~g~i~~   88 (212)
T 1tue_A           54 GTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVIS   88 (212)
T ss_dssp             TCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEECC
T ss_pred             cCCcccEEEEECCCCCCHHHHHHHHHHHhCCCeee
Confidence            46667789999999999999999999999765543

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.34  E-value=4.9e-07  Score=91.92  Aligned_cols=62  Identities=21%  Similarity=0.388  Sum_probs=50.0

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----------CCcE
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----------KFNI  272 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i  272 (288)
                      ...|..+++++|.++..+.+.+.+..             ..+.++||+||||||||++|+++|+.+          +.++
T Consensus       173 ~~~~~~ld~iiG~~~~i~~l~~~l~~-------------~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~  239 (758)
T 3pxi_A          173 IAKEDSLDPVIGRSKEIQRVIEVLSR-------------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRV  239 (758)
T ss_dssp             HTTSSCSCCCCCCHHHHHHHHHHHHC-------------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCE
T ss_pred             HHhhCCCCCccCchHHHHHHHHHHhC-------------CCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeE
Confidence            45677899999999888887765431             235679999999999999999999997          8888


Q ss_pred             EEEec
Q 045456          273 YDMEL  277 (288)
Q Consensus       273 ~~l~~  277 (288)
                      +.+++
T Consensus       240 ~~~~~  244 (758)
T 3pxi_A          240 MTLDM  244 (758)
T ss_dssp             ECC--
T ss_pred             EEecc
Confidence            88776

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.32  E-value=3.9e-07  Score=83.76  Aligned_cols=41  Identities=10%  Similarity=0.152  Sum_probs=34.0

Q ss_pred             ccceeEEEcCCCCChHHHHHHHHHHh----------CCcEEEEecCCCCCc
Q 045456          243 WKRGYLLFGPPGTGKSSLIAAMANYL----------KFNIYDMELTSVYCN  283 (288)
Q Consensus       243 ~~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~~~~~~~  283 (288)
                      .+.+++|+||||||||++++++++++          ++.++.|++..+.+.
T Consensus        44 ~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~   94 (318)
T 3te6_A           44 QNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGM   94 (318)
T ss_dssp             CCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCH
Confidence            46789999999999999999999999          467888888776654

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=98.28  E-value=1.4e-06  Score=88.47  Aligned_cols=65  Identities=15%  Similarity=0.265  Sum_probs=48.7

Q ss_pred             ccccChhhhHHHHHHHHHHhhcHHHHHHhCCc----ccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          211 KIAMDPSMKQASIDDLDRFVKRRNFYRRVGKV----WKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       211 ~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~----~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      +++|+++.++.|...+...        +.|..    +...+||+||||||||++|+++|+.++.+++.++.++....
T Consensus       459 ~v~g~~~~~~~l~~~i~~~--------~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~~~~~~i~~s~~~~~  527 (758)
T 1r6b_X          459 LVFGQDKAIEALTEAIKMA--------RAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMER  527 (758)
T ss_dssp             TSCSCHHHHHHHHHHHHHH--------HTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSS
T ss_pred             hccCHHHHHHHHHHHHHHH--------hcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCEEEEechhhcch
Confidence            3566666666666655432        22332    22359999999999999999999999999999999887654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.27  E-value=1.3e-06  Score=88.90  Aligned_cols=67  Identities=16%  Similarity=0.289  Sum_probs=51.6

Q ss_pred             cccccChhhhHHHHHHHHHHhhcHHHHHHhCCcc---cc-eeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCC
Q 045456          210 DKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVW---KR-GYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYC  282 (288)
Q Consensus       210 ~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~---~r-g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  282 (288)
                      ++++|.++.++.+.+.+.....        |...   +. ++||+||||||||++|+++|+.+   +.+++.++++++..
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~--------~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~  562 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARA--------GLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYME  562 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTT--------TCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCS
T ss_pred             CcCcChHHHHHHHHHHHHHHHc--------ccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEechhccc
Confidence            4577888888887777664332        2221   22 59999999999999999999998   78999999998876


Q ss_pred             cc
Q 045456          283 NS  284 (288)
Q Consensus       283 ~~  284 (288)
                      ..
T Consensus       563 ~~  564 (758)
T 3pxi_A          563 KH  564 (758)
T ss_dssp             SC
T ss_pred             cc
Confidence            53

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.27  E-value=8.2e-07  Score=91.51  Aligned_cols=66  Identities=21%  Similarity=0.319  Sum_probs=50.3

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----------CCcEE
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----------KFNIY  273 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~  273 (288)
                      .+|.+|++++|.++..+.+.+.+.    .         ..+++++|+||||||||++++++|+.+          +.+++
T Consensus       164 ~r~~~ld~viGr~~~i~~l~~~l~----~---------~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~  230 (854)
T 1qvr_A          164 AAEGKLDPVIGRDEEIRRVIQILL----R---------RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIV  230 (854)
T ss_dssp             HHTTCSCCCCSCHHHHHHHHHHHH----C---------SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEE
T ss_pred             HhcCCCcccCCcHHHHHHHHHHHh----c---------CCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEE
Confidence            457899999999877776665442    1         235679999999999999999999998          89999


Q ss_pred             EEecCCCCC
Q 045456          274 DMELTSVYC  282 (288)
Q Consensus       274 ~l~~~~~~~  282 (288)
                      .++++++..
T Consensus       231 ~l~~~~l~~  239 (854)
T 1qvr_A          231 SLQMGSLLA  239 (854)
T ss_dssp             EECC-----
T ss_pred             EeehHHhhc
Confidence            999888753

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=98.26  E-value=1.1e-06  Score=80.04  Aligned_cols=60  Identities=13%  Similarity=0.187  Sum_probs=47.7

Q ss_pred             ccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCC
Q 045456          211 KIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVY  281 (288)
Q Consensus       211 ~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~  281 (288)
                      +++|.+...+.+.+.+....           ....++||+||||||||++|++|++..   +.|++.++++.+.
T Consensus         3 ~iig~s~~~~~~~~~~~~~a-----------~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~~   65 (304)
T 1ojl_A            3 HMIGSSPAMQHLLNEIAMVA-----------PSDATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALN   65 (304)
T ss_dssp             CCCCCSHHHHHHHHHHHHHC-----------STTSCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSCC
T ss_pred             CcEECCHHHHHHHHHHHHHh-----------CCCCcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCCC
Confidence            56777777777777666532           224579999999999999999999976   6799999988764

>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=98.20  E-value=6.4e-07  Score=82.16  Aligned_cols=63  Identities=16%  Similarity=0.229  Sum_probs=48.6

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh------CCcEEEEecCC
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL------KFNIYDMELTS  279 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l------~~~i~~l~~~~  279 (288)
                      ..++++|.++..+.+.+.+...+.        + ..++.++|+||||||||++++++++.+      +.+++.+++..
T Consensus        18 ~p~~~~gr~~e~~~l~~~l~~~~~--------~-~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~   86 (386)
T 2qby_A           18 IPDELPHREDQIRKIASILAPLYR--------E-EKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQ   86 (386)
T ss_dssp             CCSCCTTCHHHHHHHHHSSGGGGG--------T-CCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHH
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHc--------C-CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCC
Confidence            457889988887777665443221        1 234579999999999999999999999      89999998653

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=98.18  E-value=1.7e-06  Score=77.59  Aligned_cols=29  Identities=34%  Similarity=0.571  Sum_probs=25.4

Q ss_pred             cccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          242 VWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       242 ~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      +.+++++||||||||||++|.|||+.++.
T Consensus       102 ~~~n~~~l~GppgtGKt~~a~ala~~~~l  130 (267)
T 1u0j_A          102 GKRNTIWLFGPATTGKTNIAEAIAHTVPF  130 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHSSC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHhhhcc
Confidence            45678999999999999999999997644

>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=98.18  E-value=3.2e-06  Score=80.78  Aligned_cols=68  Identities=18%  Similarity=0.336  Sum_probs=46.8

Q ss_pred             CCCCCCccccc-cChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-----CCcEEEEe
Q 045456          203 LDHPATFDKIA-MDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-----KFNIYDME  276 (288)
Q Consensus       203 ~~~p~~~~~l~-~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~  276 (288)
                      +.+..+|++++ |.....  ....+..+...+      +.  ..+++|+||||||||+++++||+++     +.+++.++
T Consensus        98 l~~~~tfd~fv~g~~n~~--a~~~~~~~a~~~------~~--~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~  167 (440)
T 2z4s_A           98 LNPDYTFENFVVGPGNSF--AYHAALEVAKHP------GR--YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT  167 (440)
T ss_dssp             CCTTCSGGGCCCCTTTHH--HHHHHHHHHHST------TS--SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEE
T ss_pred             CCCCCChhhcCCCCchHH--HHHHHHHHHhCC------CC--CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee
Confidence            33445899988 543322  223333333221      21  5679999999999999999999999     88899888


Q ss_pred             cCCC
Q 045456          277 LTSV  280 (288)
Q Consensus       277 ~~~~  280 (288)
                      ..++
T Consensus       168 ~~~~  171 (440)
T 2z4s_A          168 SEKF  171 (440)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7654

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=98.14  E-value=3e-06  Score=86.01  Aligned_cols=67  Identities=22%  Similarity=0.342  Sum_probs=51.3

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----------CCcE
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----------KFNI  272 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i  272 (288)
                      ...|..|++++|.++..+.+.+.+.             ...+.++||+||||||||++|+++|+.+          +.++
T Consensus       179 ~~~~~~~d~~iGr~~~i~~l~~~l~-------------~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~  245 (758)
T 1r6b_X          179 LARVGGIDPLIGREKELERAIQVLC-------------RRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTI  245 (758)
T ss_dssp             HHHTTCSCCCCSCHHHHHHHHHHHT-------------SSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEE
T ss_pred             HHhcCCCCCccCCHHHHHHHHHHHh-------------ccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEE
Confidence            3456799999999887777665432             1246789999999999999999999987          7788


Q ss_pred             EEEecCCCCC
Q 045456          273 YDMELTSVYC  282 (288)
Q Consensus       273 ~~l~~~~~~~  282 (288)
                      +.++.+.+..
T Consensus       246 ~~~~~~~l~~  255 (758)
T 1r6b_X          246 YSLDIGSLLA  255 (758)
T ss_dssp             EECCCC---C
T ss_pred             EEEcHHHHhc
Confidence            8888776653

>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=98.13  E-value=2.3e-06  Score=93.37  Aligned_cols=73  Identities=12%  Similarity=0.145  Sum_probs=51.1

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhc----------HHHHHH------hCCc----------ccce--eEEEcCCCCChH
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKR----------RNFYRR------VGKV----------WKRG--YLLFGPPGTGKS  258 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~----------~~~~~~------~g~~----------~~rg--~LL~GPpGtGKT  258 (288)
                      .+|+|+.+.++.|+.+++.+++++.+          ++.++.      .|+.          +++|  +|+|||||||||
T Consensus      1017 ~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tG~~glD~~lg~GG~p~g~~~l~~G~~g~GKT 1096 (1706)
T 3cmw_A         1017 SSTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKT 1096 (1706)
T ss_dssp             -------CTTHHHHHHHHHHHHHHHHHHCGGGSEEGGGCGGGSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHH
T ss_pred             ceeeecCCccHHHHHHHHHHHHHHhhccCcccchhchhhhhccccccccCchhHHHHhccCCCCCCCEEEEEcCCCCChH
Confidence            68999999999999999999999854          445555      3333          4566  999999999999


Q ss_pred             HHHHHHHHHh---CCcEEEEecCC
Q 045456          259 SLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       259 sla~aiA~~l---~~~i~~l~~~~  279 (288)
                      ++|.++|.+.   |-|...|+..+
T Consensus      1097 ~la~~~~~~~~~~g~~~~fi~~~~ 1120 (1706)
T 3cmw_A         1097 TLTLQVIAAAQREGKTCAFIDAEH 1120 (1706)
T ss_dssp             HHHHHHHHHHHHTTCCEEEECTTS
T ss_pred             HHHHHHHHHhhhcCCceeEEEccc
Confidence            9999999876   45555665554

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.05  E-value=4.9e-06  Score=85.70  Aligned_cols=66  Identities=21%  Similarity=0.336  Sum_probs=50.2

Q ss_pred             cccccChhhhHHHHHHHHHHhhcHHHHHHhCCc----ccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCC
Q 045456          210 DKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKV----WKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYC  282 (288)
Q Consensus       210 ~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~----~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  282 (288)
                      ++++|.++.++.+...+.....        |..    +...+||+||||||||++|++||+.+   +.+++.++.+++..
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~--------g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~~~~~~~  629 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARA--------GLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYME  629 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGG--------GCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCS
T ss_pred             cccCCcHHHHHHHHHHHHHHhc--------ccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEechhccc
Confidence            4567777777777766654321        211    12369999999999999999999999   88999999988765


Q ss_pred             c
Q 045456          283 N  283 (288)
Q Consensus       283 ~  283 (288)
                      .
T Consensus       630 ~  630 (854)
T 1qvr_A          630 K  630 (854)
T ss_dssp             S
T ss_pred             h
Confidence            4

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=97.98  E-value=6.6e-06  Score=79.99  Aligned_cols=34  Identities=21%  Similarity=0.307  Sum_probs=27.3

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCC--cEEEEec
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKF--NIYDMEL  277 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~--~i~~l~~  277 (288)
                      ..++||+||||||||++|++||+.++.  ++..+..
T Consensus        41 ~~~VLL~GpPGtGKT~LAraLa~~l~~~~~f~~~~~   76 (500)
T 3nbx_X           41 GESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMT   76 (500)
T ss_dssp             TCEEEEECCSSSSHHHHHHHGGGGBSSCCEEEEECC
T ss_pred             CCeeEeecCchHHHHHHHHHHHHHHhhhhHHHHHHH
Confidence            357999999999999999999999854  4444443

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.97  E-value=4e-06  Score=70.96  Aligned_cols=33  Identities=30%  Similarity=0.385  Sum_probs=29.5

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEe
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDME  276 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  276 (288)
                      .+.++|.|||||||||+++++|+.+|+++++.+
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~l~~~~i~~d   57 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARKLNVPFIDLD   57 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHTCCEEEHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHcCCCEEcch
Confidence            446889999999999999999999999998754

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=97.92  E-value=6.2e-06  Score=81.82  Aligned_cols=54  Identities=31%  Similarity=0.313  Sum_probs=43.6

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      ...+|.+|++++|.+.+++.+...+..               ...++|+||||||||++|++||+.+..
T Consensus        33 ~~~rp~~l~~i~G~~~~l~~l~~~i~~---------------g~~vll~Gp~GtGKTtlar~ia~~l~~   86 (604)
T 3k1j_A           33 IEVPEKLIDQVIGQEHAVEVIKTAANQ---------------KRHVLLIGEPGTGKSMLGQAMAELLPT   86 (604)
T ss_dssp             SCCCSSHHHHCCSCHHHHHHHHHHHHT---------------TCCEEEECCTTSSHHHHHHHHHHTSCC
T ss_pred             ccccccccceEECchhhHhhccccccC---------------CCEEEEEeCCCCCHHHHHHHHhccCCc
Confidence            456788999999998877665554331               247999999999999999999999864

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.91  E-value=1.1e-05  Score=65.56  Aligned_cols=39  Identities=23%  Similarity=0.231  Sum_probs=33.5

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYC  282 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  282 (288)
                      ...++|+||+|+|||++++++++.+   |..++.++..++..
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~~~   77 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASMPL   77 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHhhH
Confidence            4568999999999999999999998   77788888876653

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=97.84  E-value=1.4e-05  Score=72.83  Aligned_cols=36  Identities=8%  Similarity=0.170  Sum_probs=30.6

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh------CCcEEEEecCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL------KFNIYDMELTS  279 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l------~~~i~~l~~~~  279 (288)
                      ...||||||||||||++|+++|+.+      ..+++.++.++
T Consensus        18 ~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~   59 (305)
T 2gno_A           18 GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEG   59 (305)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCc
Confidence            3479999999999999999999975      45888888763

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=97.84  E-value=2.3e-05  Score=73.48  Aligned_cols=39  Identities=28%  Similarity=0.343  Sum_probs=33.7

Q ss_pred             hCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEec
Q 045456          239 VGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMEL  277 (288)
Q Consensus       239 ~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  277 (288)
                      .+++.++.++|+||||+||||+++++|+.++..++.++.
T Consensus       164 ~~i~~~~~i~l~G~~GsGKSTl~~~l~~~~~g~~~~~~~  202 (377)
T 1svm_A          164 YNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNL  202 (377)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSS
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHhhcCCcEEEEec
Confidence            477778889999999999999999999999888776543

>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=97.73  E-value=3.2e-05  Score=71.70  Aligned_cols=64  Identities=13%  Similarity=0.155  Sum_probs=46.7

Q ss_pred             CccccccChhhhHHHHHHH-HHHhhcHHHHHHhCC-cccceeEE--EcCCCCChHHHHHHHHHHh---------CCcEEE
Q 045456          208 TFDKIAMDPSMKQASIDDL-DRFVKRRNFYRRVGK-VWKRGYLL--FGPPGTGKSSLIAAMANYL---------KFNIYD  274 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l-~~~~~~~~~~~~~g~-~~~rg~LL--~GPpGtGKTsla~aiA~~l---------~~~i~~  274 (288)
                      ..++++|-++..+.|.+.+ .....        |. ..++.+++  +||||||||++++++++.+         +.+++.
T Consensus        20 ~p~~l~gR~~el~~l~~~l~~~~~~--------~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~   91 (412)
T 1w5s_A           20 IPPELRVRRGEAEALARIYLNRLLS--------GAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAY   91 (412)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHT--------SSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCCCCChHHHHHHHHHHHhHHHhc--------CCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEE
Confidence            3467888888888777766 54332        21 12456889  9999999999999999887         567778


Q ss_pred             EecCC
Q 045456          275 MELTS  279 (288)
Q Consensus       275 l~~~~  279 (288)
                      +++..
T Consensus        92 ~~~~~   96 (412)
T 1w5s_A           92 VNAFN   96 (412)
T ss_dssp             EEGGG
T ss_pred             EECCC
Confidence            87643

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=97.69  E-value=1.9e-05  Score=66.54  Aligned_cols=30  Identities=33%  Similarity=0.558  Sum_probs=27.7

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCcEEEE
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFNIYDM  275 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l  275 (288)
                      -++|.||||+||||+++.+|..++++++++
T Consensus        22 ~I~l~G~~GsGKST~a~~La~~l~~~~i~~   51 (201)
T 2cdn_A           22 RVLLLGPPGAGKGTQAVKLAEKLGIPQIST   51 (201)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeh
Confidence            488999999999999999999999998875

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=97.66  E-value=4.8e-05  Score=69.73  Aligned_cols=28  Identities=32%  Similarity=0.521  Sum_probs=25.0

Q ss_pred             ccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          243 WKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       243 ~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+.++||+||||||||++|+++|+.+..
T Consensus        23 ~~~a~L~~G~~G~GKt~~a~~la~~l~~   50 (334)
T 1a5t_A           23 GHHALLIQALPGMGDDALIYALSRYLLC   50 (334)
T ss_dssp             CCSEEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             cceeEEEECCCCchHHHHHHHHHHHHhC
Confidence            4567999999999999999999999863

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=97.63  E-value=6.2e-05  Score=85.41  Aligned_cols=43  Identities=28%  Similarity=0.635  Sum_probs=36.0

Q ss_pred             cceeEEEcCCCCChHHHH-HHHHHHhCCcEEEEecCCCCCcccc
Q 045456          244 KRGYLLFGPPGTGKSSLI-AAMANYLKFNIYDMELTSVYCNSEL  286 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla-~aiA~~l~~~i~~l~~~~~~~~~~l  286 (288)
                      .+++||+||||||||++| +++++..+++++.++.++..+..++
T Consensus      1267 ~~~vLL~GPpGtGKT~la~~~l~~~~~~~~~~infsa~ts~~~~ 1310 (2695)
T 4akg_A         1267 KRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHI 1310 (2695)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHSCSSCEEEEEECCTTCCHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHhcCCCCceEEEEeecCCCHHHH
Confidence            578999999999999999 6666666899999999887765443

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.62  E-value=7.7e-05  Score=67.15  Aligned_cols=34  Identities=32%  Similarity=0.464  Sum_probs=27.5

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEec
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMEL  277 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  277 (288)
                      +.-++|.||||+||||++++++..++...+.|+.
T Consensus        33 ~~livl~G~sGsGKSTla~~L~~~~~~~~~~Is~   66 (287)
T 1gvn_B           33 PTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDN   66 (287)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCeEEEec
Confidence            3458899999999999999999998545556654

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.62  E-value=3.1e-05  Score=65.34  Aligned_cols=33  Identities=24%  Similarity=0.384  Sum_probs=28.7

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEe
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDME  276 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  276 (288)
                      +.-++|.||||+||||+++.+++.+|+++++.+
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~lg~~~i~~d   50 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEACGYPFIEGD   50 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHHTCCEEEGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCEEEeCC
Confidence            346889999999999999999999998877643

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.58  E-value=4.8e-05  Score=66.90  Aligned_cols=37  Identities=24%  Similarity=0.240  Sum_probs=31.0

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      +.-++|.||||+||||+++.++..++.+.+.++...+
T Consensus        32 ~~~i~l~G~~GsGKSTla~~L~~~l~~~~~~~~~D~~   68 (253)
T 2p5t_B           32 PIAILLGGQSGAGKTTIHRIKQKEFQGNIVIIDGDSF   68 (253)
T ss_dssp             CEEEEEESCGGGTTHHHHHHHHHHTTTCCEEECGGGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCCcEEEecHHH
Confidence            3458899999999999999999999877777776554

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=97.56  E-value=9e-06  Score=75.68  Aligned_cols=33  Identities=21%  Similarity=0.381  Sum_probs=28.8

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCcEEEEec
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFNIYDMEL  277 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  277 (288)
                      ..++|.||||+|||+++++||+.++++++.++.
T Consensus        25 ~~i~l~G~~G~GKTTl~~~la~~l~~~f~~l~a   57 (359)
T 2ga8_A           25 VCVILVGSPGSGKSTIAEELCQIINEKYHTFLS   57 (359)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHhCCCeeeecc
Confidence            358999999999999999999999999866443

>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=97.51  E-value=6.6e-05  Score=64.97  Aligned_cols=33  Identities=24%  Similarity=0.384  Sum_probs=29.9

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEe
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDME  276 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  276 (288)
                      ...++|.||||+||||+++.||+.+++++++.+
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~d   48 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFCVCHLATG   48 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCEEEEHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCceecHH
Confidence            346999999999999999999999999998863

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.50  E-value=8.5e-05  Score=62.70  Aligned_cols=30  Identities=20%  Similarity=0.453  Sum_probs=26.1

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCcEEE
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFNIYD  274 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  274 (288)
                      .-+.|.||||+||||++++|++.+|..+++
T Consensus        30 ~~i~l~G~~GsGKSTl~~~L~~~~g~~~i~   59 (200)
T 4eun_A           30 RHVVVMGVSGSGKTTIAHGVADETGLEFAE   59 (200)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHCCEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhhCCeEEc
Confidence            347899999999999999999999876654

>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=97.48  E-value=0.00013  Score=69.68  Aligned_cols=68  Identities=22%  Similarity=0.207  Sum_probs=39.3

Q ss_pred             CCCCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CC-
Q 045456          195 GGAWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KF-  270 (288)
Q Consensus       195 ~~~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~-  270 (288)
                      .+.|  ++.++|.+|++|  .+++++.+...+. ++..       +   .+.+++.||||||||+++.+++..+   +. 
T Consensus        11 ~~~~--~~~~~p~~~~~L--n~~Q~~av~~~~~-~i~~-------~---~~~~li~G~aGTGKT~ll~~~~~~l~~~~~~   75 (459)
T 3upu_A           11 SSGL--VPRGSHMTFDDL--TEGQKNAFNIVMK-AIKE-------K---KHHVTINGPAGTGATTLTKFIIEALISTGET   75 (459)
T ss_dssp             ------------CCSSCC--CHHHHHHHHHHHH-HHHS-------S---SCEEEEECCTTSCHHHHHHHHHHHHHHTTCC
T ss_pred             cCCC--ccccCCCccccC--CHHHHHHHHHHHH-HHhc-------C---CCEEEEEeCCCCCHHHHHHHHHHHHHhcCCc
Confidence            3467  468899999986  4566665544333 2322       1   2368899999999999999999887   33 


Q ss_pred             cEEEEec
Q 045456          271 NIYDMEL  277 (288)
Q Consensus       271 ~i~~l~~  277 (288)
                      .++.+..
T Consensus        76 ~il~~a~   82 (459)
T 3upu_A           76 GIILAAP   82 (459)
T ss_dssp             CEEEEES
T ss_pred             eEEEecC
Confidence            4555543

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=97.46  E-value=1.9e-05  Score=78.25  Aligned_cols=29  Identities=28%  Similarity=0.528  Sum_probs=26.7

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCcEEE
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFNIYD  274 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~i~~  274 (288)
                      ++||+||||||||++|+++|+.++..++.
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~~~r~~~~  357 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRVAPRAVYT  357 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTTCSCEECC
T ss_pred             ceEEECCCchHHHHHHHHHHHhCCCceec
Confidence            69999999999999999999999877765

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.44  E-value=8.2e-05  Score=64.54  Aligned_cols=31  Identities=23%  Similarity=0.502  Sum_probs=27.2

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEE
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYD  274 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  274 (288)
                      ++-++|.||||+||+|.|+.||+.+|++.+.
T Consensus        29 ~kiI~llGpPGsGKgTqa~~L~~~~g~~hIs   59 (217)
T 3umf_A           29 AKVIFVLGGPGSGKGTQCEKLVQKFHFNHLS   59 (217)
T ss_dssp             CEEEEEECCTTCCHHHHHHHHHHHHCCEEEC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHCCceEc
Confidence            4568899999999999999999999987653

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=97.43  E-value=0.00015  Score=65.45  Aligned_cols=58  Identities=21%  Similarity=0.127  Sum_probs=42.5

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCC
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSV  280 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~  280 (288)
                      +..-+.++|-++..+.|.+ +.    .            +.++++||+|+|||++++.+++.++.+++.+++...
T Consensus         9 ~~~~~~~~gR~~el~~L~~-l~----~------------~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~   66 (357)
T 2fna_A            9 KDNRKDFFDREKEIEKLKG-LR----A------------PITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKF   66 (357)
T ss_dssp             CCSGGGSCCCHHHHHHHHH-TC----S------------SEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGG
T ss_pred             CCCHHHhcChHHHHHHHHH-hc----C------------CcEEEECCCCCCHHHHHHHHHHhcCCCEEEEEchhh
Confidence            3455667776655444433 22    1            478999999999999999999999888888887653

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=97.40  E-value=8.8e-05  Score=64.91  Aligned_cols=32  Identities=19%  Similarity=0.419  Sum_probs=28.4

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEE
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDM  275 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  275 (288)
                      +.-++|.||||+||||+++.+++.+|.++++.
T Consensus        29 ~~~I~l~G~~GsGKsT~a~~L~~~~g~~~is~   60 (243)
T 3tlx_A           29 DGRYIFLGAPGSGKGTQSLNLKKSHCYCHLST   60 (243)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            34588999999999999999999999888765

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.40  E-value=0.00039  Score=62.59  Aligned_cols=57  Identities=21%  Similarity=0.108  Sum_probs=42.0

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecC
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELT  278 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  278 (288)
                      ++..-+.++|-++..+.|.+.+..           |    +.++++||+|+|||++++.+++..+  .+.+++.
T Consensus         7 ~~~~~~~~~gR~~el~~L~~~l~~-----------~----~~v~i~G~~G~GKT~Ll~~~~~~~~--~~~~~~~   63 (350)
T 2qen_A            7 PKTRREDIFDREEESRKLEESLEN-----------Y----PLTLLLGIRRVGKSSLLRAFLNERP--GILIDCR   63 (350)
T ss_dssp             CCCSGGGSCSCHHHHHHHHHHHHH-----------C----SEEEEECCTTSSHHHHHHHHHHHSS--EEEEEHH
T ss_pred             CCCChHhcCChHHHHHHHHHHHhc-----------C----CeEEEECCCcCCHHHHHHHHHHHcC--cEEEEee
Confidence            444556778877766666654431           2    5799999999999999999999986  5556553

>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=97.39  E-value=4.1e-05  Score=70.40  Aligned_cols=37  Identities=16%  Similarity=0.103  Sum_probs=28.5

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEe
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDME  276 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  276 (288)
                      |++..+.++|+||||||||++|.++|...|.++..++
T Consensus       119 Gi~~gsviLI~GpPGsGKTtLAlqlA~~~G~~VlyIs  155 (331)
T 2vhj_A          119 HRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYAT  155 (331)
T ss_dssp             EEEESEEEEEECSCSSSHHHHHHHHHHHHHTTSCCEE
T ss_pred             CCCCCcEEEEEcCCCCCHHHHHHHHHHhCCCCEEEEE
Confidence            5555566899999999999999999987665533333

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=97.38  E-value=0.00012  Score=64.69  Aligned_cols=32  Identities=31%  Similarity=0.563  Sum_probs=29.1

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCcEEEEe
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFNIYDME  276 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  276 (288)
                      .-+.|.||||+||||+++++|+.+|+++++.+
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~lg~~~~d~d   80 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSLGYTFFDCD   80 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHHTCEEEEHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcCCcEEeCc
Confidence            45889999999999999999999999998754

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=97.33  E-value=0.00015  Score=63.25  Aligned_cols=30  Identities=23%  Similarity=0.543  Sum_probs=26.2

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCcEEE
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFNIYD  274 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  274 (288)
                      .-+.|.||||+||||++++||+.+|...++
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La~~lg~~~~~   57 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIAQNFGLQHLS   57 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHCCCCEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEec
Confidence            458899999999999999999999876554

>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=97.28  E-value=0.00029  Score=59.41  Aligned_cols=40  Identities=15%  Similarity=0.124  Sum_probs=33.0

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~  279 (288)
                      |++...-++++||||+|||+++..+|...+.+++.++...
T Consensus        16 gi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~v~~i~~~~   55 (220)
T 2cvh_A           16 GFAPGVLTQVYGPYASGKTTLALQTGLLSGKKVAYVDTEG   55 (220)
T ss_dssp             SBCTTSEEEEECSTTSSHHHHHHHHHHHHCSEEEEEESSC
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHHHcCCcEEEEECCC
Confidence            4554455889999999999999999987788888888765

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=97.25  E-value=0.00027  Score=59.51  Aligned_cols=35  Identities=26%  Similarity=0.283  Sum_probs=27.5

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      .-+.|.||+||||||+++++|+.+   |...+.++..+
T Consensus        26 ~~i~l~G~sGsGKSTl~~~La~~l~~~G~~~~~~d~d~   63 (200)
T 3uie_A           26 CVIWVTGLSGSGKSTLACALNQMLYQKGKLCYILDGDN   63 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhcCceEEEecCch
Confidence            347799999999999999999999   65544555433

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=97.20  E-value=0.00025  Score=62.29  Aligned_cols=29  Identities=34%  Similarity=0.584  Sum_probs=26.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCcEEE
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFNIYD  274 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~i~~  274 (288)
                      -+.|.||+|+||||+++.+|+.||+++++
T Consensus        29 ~I~I~G~~GsGKSTl~k~La~~Lg~~~~d   57 (252)
T 4e22_A           29 VITVDGPSGAGKGTLCKALAESLNWRLLD   57 (252)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHTTCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCCcCC
Confidence            47799999999999999999999988775

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=97.16  E-value=0.00083  Score=66.93  Aligned_cols=56  Identities=27%  Similarity=0.409  Sum_probs=36.2

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      .|-+=.+++.+++.|...+..               +.-.|++||||||||+++..+..++   +..+..+..+
T Consensus       184 ~~~~~~LN~~Q~~AV~~al~~---------------~~~~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~a~T  242 (646)
T 4b3f_X          184 TFFNTCLDTSQKEAVLFALSQ---------------KELAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAPS  242 (646)
T ss_dssp             CCSSTTCCHHHHHHHHHHHHC---------------SSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             cccCCCCCHHHHHHHHHHhcC---------------CCceEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEcCc
Confidence            333335677888877665431               1236889999999998766655443   5566665544

>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=97.12  E-value=0.00036  Score=59.79  Aligned_cols=40  Identities=20%  Similarity=0.148  Sum_probs=31.5

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHH--h-------CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANY--L-------KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~--l-------~~~i~~l~~~~  279 (288)
                      |++...-++|+||||+|||+++..+|..  +       +..++.++..+
T Consensus        20 gi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~   68 (243)
T 1n0w_A           20 GIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEG   68 (243)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             CCcCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCC
Confidence            4554555889999999999999999985  3       45677887765

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=97.10  E-value=0.00042  Score=59.94  Aligned_cols=32  Identities=25%  Similarity=0.392  Sum_probs=28.6

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEE
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDM  275 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  275 (288)
                      ..-+.|.||+|+|||++++.+|+.+|+++++.
T Consensus        16 ~~~i~i~G~~gsGKst~~~~l~~~lg~~~~d~   47 (236)
T 1q3t_A           16 TIQIAIDGPASSGKSTVAKIIAKDFGFTYLDT   47 (236)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCceecC
Confidence            34578999999999999999999999998875

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.09  E-value=0.00053  Score=58.06  Aligned_cols=39  Identities=21%  Similarity=0.036  Sum_probs=29.7

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      |++...-++|.||||+|||++++.+|..+   +.+++.++..
T Consensus        19 gi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~~~   60 (235)
T 2w0m_A           19 GIPQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVTTE   60 (235)
T ss_dssp             SEETTCEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEESS
T ss_pred             CCcCCCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEEcc
Confidence            44444458899999999999999999664   5677766654

>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=97.04  E-value=0.00042  Score=60.61  Aligned_cols=37  Identities=27%  Similarity=0.249  Sum_probs=29.8

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCc--------EEEEecCCCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFN--------IYDMELTSVY  281 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~--------i~~l~~~~~~  281 (288)
                      .-+.|.||||+||||+++.+|..+|++        +..++..++.
T Consensus        23 ~iI~I~G~~GSGKST~a~~L~~~lg~~~~d~~~~~~~~i~~D~~~   67 (252)
T 1uj2_A           23 FLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDSFY   67 (252)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGGGB
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhhhhcccccCCceEEEecCccc
Confidence            347799999999999999999999987        3356655553

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=97.03  E-value=0.00038  Score=79.18  Aligned_cols=43  Identities=28%  Similarity=0.402  Sum_probs=38.4

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCcccc
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSEL  286 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l  286 (288)
                      ..|.++.||||||||++++++|+.+|.+++.+++++-.+-.++
T Consensus       645 ~~~~~l~GpaGtGKTe~vk~LA~~lg~~~v~~nc~e~ld~~~l  687 (2695)
T 4akg_A          645 KYGGCFFGPAGTGKTETVKAFGQNLGRVVVVFNCDDSFDYQVL  687 (2695)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHTTTCCCEEEETTSSCCHHHH
T ss_pred             CCCCcccCCCCCCcHHHHHHHHHHhCCcEEEEECCCCCChhHh
Confidence            4689999999999999999999999999999999987765543

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.99  E-value=0.00029  Score=65.03  Aligned_cols=33  Identities=27%  Similarity=0.427  Sum_probs=28.9

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCcEEEEecC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFNIYDMELT  278 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  278 (288)
                      -++|.||+|+|||+++..||+.++.+|++.+.-
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~~l~~eiIs~Ds~   74 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAAHFPLEVINSDKM   74 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTTSCEEEEECCSS
T ss_pred             eEEEECCCCCCHHHHHHHHHHHCCCcEEccccc
Confidence            578999999999999999999999888776543

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.96  E-value=0.00032  Score=59.16  Aligned_cols=30  Identities=17%  Similarity=0.309  Sum_probs=25.3

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh-CCcEEEEe
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL-KFNIYDME  276 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l-~~~i~~l~  276 (288)
                      +.+.||||+||||+++.+++.+ +++++..+
T Consensus        24 i~i~G~~GsGKSTl~~~L~~~~~~~~~i~~D   54 (207)
T 2qt1_A           24 IGISGVTNSGKTTLAKNLQKHLPNCSVISQD   54 (207)
T ss_dssp             EEEEESTTSSHHHHHHHHHTTSTTEEEEEGG
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCcEEEeCC
Confidence            6789999999999999999988 66665543

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.94  E-value=0.00078  Score=57.11  Aligned_cols=40  Identities=20%  Similarity=0.297  Sum_probs=29.2

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHhCC---------cEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLKF---------NIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~---------~i~~l~~~~  279 (288)
                      |++...-+.|.||||+|||++++.|+..+-.         ..+.++...
T Consensus        21 gi~~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~   69 (231)
T 4a74_A           21 GIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTEN   69 (231)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSS
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCC
Confidence            4444444889999999999999999986533         266666544

>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=96.93  E-value=0.00068  Score=61.77  Aligned_cols=41  Identities=17%  Similarity=0.193  Sum_probs=33.1

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---------CCcEEEEecCCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---------KFNIYDMELTSV  280 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~~~  280 (288)
                      |++...-++++||||+|||+++..+|...         +.+++.++...-
T Consensus       103 Gl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~  152 (324)
T 2z43_A          103 GIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGT  152 (324)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSC
T ss_pred             CCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCC
Confidence            55555558899999999999999999875         567888887654

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.90  E-value=0.0009  Score=57.33  Aligned_cols=40  Identities=25%  Similarity=0.136  Sum_probs=30.4

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      |++...-+++.||||+|||+++..+|..+   +.+++.++...
T Consensus        19 Gl~~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~~e~   61 (247)
T 2dr3_A           19 GIPERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVALEE   61 (247)
T ss_dssp             SEETTCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEESSS
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccC
Confidence            55555558899999999999988887643   66787777654

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=96.88  E-value=0.00045  Score=61.76  Aligned_cols=29  Identities=34%  Similarity=0.321  Sum_probs=25.9

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCcEEEE
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFNIYDM  275 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l  275 (288)
                      -+.|.||||+||||+++.++ .+|+++++.
T Consensus        77 iI~I~G~~GSGKSTva~~La-~lg~~~id~  105 (281)
T 2f6r_A           77 VLGLTGISGSGKSSVAQRLK-NLGAYIIDS  105 (281)
T ss_dssp             EEEEEECTTSCHHHHHHHHH-HHTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHH-HCCCcEEeh
Confidence            47899999999999999999 689988765

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.84  E-value=0.0022  Score=54.05  Aligned_cols=33  Identities=15%  Similarity=0.237  Sum_probs=27.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      -+.+.||+|+||||+++.++..+   +.+++.++..
T Consensus        24 ~i~i~G~~GsGKstl~~~l~~~~~~~~~~v~~~~~d   59 (201)
T 1rz3_A           24 VLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMD   59 (201)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhcCCeEEEeccC
Confidence            36789999999999999999986   6777776544

>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=96.83  E-value=0.0011  Score=61.70  Aligned_cols=41  Identities=17%  Similarity=0.084  Sum_probs=32.1

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSV  280 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  280 (288)
                      |++..+-++++||||+|||+|+..+|..+   +.+++.++....
T Consensus        57 Gi~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~s  100 (356)
T 3hr8_A           57 GYPRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHA  100 (356)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCC
T ss_pred             CccCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecccc
Confidence            45544458899999999999999999875   567777877654

>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=96.78  E-value=0.0013  Score=60.45  Aligned_cols=41  Identities=20%  Similarity=0.061  Sum_probs=32.2

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---------CCcEEEEecCCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---------KFNIYDMELTSV  280 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~~~  280 (288)
                      |++...-++++||||+|||+++..+|...         +..++.++....
T Consensus       118 Gl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~  167 (343)
T 1v5w_A          118 GIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENT  167 (343)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSC
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCC
Confidence            45444447899999999999999999872         567888887653

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=96.77  E-value=0.00045  Score=65.31  Aligned_cols=30  Identities=23%  Similarity=0.296  Sum_probs=26.0

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCcEEE
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFNIYD  274 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~  274 (288)
                      .-++|.||||+||||+++.++..+++.+++
T Consensus       259 ~lIil~G~pGSGKSTla~~L~~~~~~~~i~  288 (416)
T 3zvl_A          259 EVVVAVGFPGAGKSTFIQEHLVSAGYVHVN  288 (416)
T ss_dssp             CEEEEESCTTSSHHHHHHHHTGGGTCEECC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhcCcEEEc
Confidence            447899999999999999999999876654

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.77  E-value=0.001  Score=56.46  Aligned_cols=33  Identities=24%  Similarity=0.348  Sum_probs=27.0

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC----CcEEEEec
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK----FNIYDMEL  277 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~----~~i~~l~~  277 (288)
                      .-++|.||||+||||+++.+++.++    .+++.++.
T Consensus        26 ~~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~~   62 (211)
T 1m7g_A           26 LTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDG   62 (211)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhccccCCcEEEECC
Confidence            3477899999999999999999875    55666654

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=96.73  E-value=0.0016  Score=55.75  Aligned_cols=40  Identities=25%  Similarity=0.142  Sum_probs=30.1

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHH----hCCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANY----LKFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~----l~~~i~~l~~~~  279 (288)
                      |++...-++++|+||+|||++|..+|..    .+.+++.++...
T Consensus        26 Gl~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~E~   69 (251)
T 2zts_A           26 GFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTLEE   69 (251)
T ss_dssp             SEETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEESSS
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeecccC
Confidence            5555555889999999999998876533    377888877653

>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=96.73  E-value=0.0016  Score=60.47  Aligned_cols=40  Identities=18%  Similarity=0.204  Sum_probs=32.8

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      |++..+-++++||||+|||++|..+|..+   |.+++.++...
T Consensus        59 Gl~~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~E~  101 (356)
T 1u94_A           59 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEH  101 (356)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSC
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCC
Confidence            56666668999999999999999988764   67888888754

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.71  E-value=0.0012  Score=59.77  Aligned_cols=53  Identities=17%  Similarity=0.328  Sum_probs=33.2

Q ss_pred             hhhhHHHHHHHHHHhhcHHHHHHhCCcccc--eeEEEcCCCCChHHHHHHHHHHh
Q 045456          216 PSMKQASIDDLDRFVKRRNFYRRVGKVWKR--GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       216 ~~~k~~i~~~l~~~~~~~~~~~~~g~~~~r--g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.+++.+.+.+...+........+.....+  -+.|.||+|+||||+++.||+.+
T Consensus        70 ~~~~~~~~~~l~~~l~~~~~~~~l~~~~~~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           70 SEIKDALKESVLEMLAKKNSKTELQLGFRKPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             HHHHHHHHHHHHHHHCC--CCCSCCCCSSSCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCcccccccccccCCCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            345566666666655432200112222233  37799999999999999999987

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=96.70  E-value=0.00082  Score=57.59  Aligned_cols=32  Identities=22%  Similarity=0.297  Sum_probs=26.5

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEe
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDME  276 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  276 (288)
                      .+++++.||||+|||++|..+|.... +++..+
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g~-~iIsdD   65 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRGH-RLIADD   65 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTTC-EEEESS
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhCC-eEEecc
Confidence            46799999999999999999998876 555443

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.70  E-value=0.0017  Score=54.98  Aligned_cols=23  Identities=43%  Similarity=0.638  Sum_probs=21.4

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.+.||+|+||||++++|++.+.
T Consensus        25 v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           25 VALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             EEEECCTTSCTHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            66899999999999999999986

>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=96.69  E-value=0.0015  Score=60.50  Aligned_cols=40  Identities=15%  Similarity=0.142  Sum_probs=31.6

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      |++..+-++++||||+|||+++..+|..+   +.+++.++...
T Consensus        57 Gl~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~   99 (349)
T 2zr9_A           57 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEH   99 (349)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSC
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence            45555558999999999999999998664   56778787764

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.67  E-value=0.0017  Score=53.24  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=21.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -+.|.||.|+||||++++|++.+
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            37799999999999999999988

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.67  E-value=0.0016  Score=60.49  Aligned_cols=52  Identities=17%  Similarity=0.311  Sum_probs=32.5

Q ss_pred             hhhHHHHHHHHHHhhcHHHHHHhCCccc--ceeEEEcCCCCChHHHHHHHHHHh
Q 045456          217 SMKQASIDDLDRFVKRRNFYRRVGKVWK--RGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       217 ~~k~~i~~~l~~~~~~~~~~~~~g~~~~--rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .+++.+.+.+...+........+....+  .-+.|.||+|+||||+++.||+.+
T Consensus       128 ~~~~~l~~~l~~~l~~~~~~~~l~l~~~~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          128 EIKDALKESVLEMLAKKNSKTELQLGFRKPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             HHHHHHHHHHHHHHCCC---CSCCCCSSSSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCcccCCCcceecCCCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            4555566666555543221111222223  347799999999999999999987

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.66  E-value=0.00098  Score=57.17  Aligned_cols=23  Identities=35%  Similarity=0.681  Sum_probs=21.2

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -+.|.||+|+||||++++|++.+
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            37799999999999999999987

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.62  E-value=0.0015  Score=72.36  Aligned_cols=41  Identities=17%  Similarity=0.200  Sum_probs=33.3

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSV  280 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  280 (288)
                      |++..++++|+||||||||+||.++|.+.   |..+..++..+.
T Consensus      1423 Gi~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e~~ 1466 (2050)
T 3cmu_A         1423 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHA 1466 (2050)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSC
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEcccc
Confidence            37778889999999999999999998775   566777776644

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=96.60  E-value=0.0023  Score=57.04  Aligned_cols=39  Identities=18%  Similarity=0.084  Sum_probs=30.2

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh----CCcEEEEecC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL----KFNIYDMELT  278 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~  278 (288)
                      |++...-++|.||||+|||++++.||..+    |.+++.++..
T Consensus        31 ~l~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~~e   73 (296)
T 1cr0_A           31 GARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLE   73 (296)
T ss_dssp             SBCTTCEEEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEESS
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEeCc
Confidence            55444458899999999999999999876    4567766654

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=96.58  E-value=0.002  Score=59.82  Aligned_cols=23  Identities=52%  Similarity=0.907  Sum_probs=21.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +++.||+|+||||+.++|++.+.
T Consensus       126 i~I~GptGSGKTTlL~~l~g~~~  148 (356)
T 3jvv_A          126 VLVTGPTGSGKSTTLAAMLDYLN  148 (356)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhccc
Confidence            77899999999999999998874

>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=96.55  E-value=0.002  Score=59.42  Aligned_cols=41  Identities=20%  Similarity=0.231  Sum_probs=31.0

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHhC---------CcEEEEecCCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLK---------FNIYDMELTSV  280 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l~---------~~i~~l~~~~~  280 (288)
                      |++...-+.|+||||+|||+|+..+|..+.         -.++.++..+.
T Consensus       127 gi~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~  176 (349)
T 1pzn_A          127 GIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENT  176 (349)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSC
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCC
Confidence            444444488999999999999999999872         35567776543

>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=96.54  E-value=0.0021  Score=59.90  Aligned_cols=40  Identities=20%  Similarity=0.194  Sum_probs=32.4

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      |++..+-++++||||+|||++|..+|..+   +.+++.++...
T Consensus        70 Gl~~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~  112 (366)
T 1xp8_A           70 GIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEH  112 (366)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSC
T ss_pred             CccCCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCC
Confidence            55555568899999999999999988764   67888888764

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=96.53  E-value=0.0054  Score=57.27  Aligned_cols=61  Identities=10%  Similarity=0.220  Sum_probs=43.6

Q ss_pred             cccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC---CcEEEEecCCCC
Q 045456          210 DKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK---FNIYDMELTSVY  281 (288)
Q Consensus       210 ~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~~~~~  281 (288)
                      +.+++.....+.+.+.+....           .....+|++|++||||+.+|++|....+   .|++.++++++.
T Consensus       137 ~~~ig~s~~m~~l~~~i~~~a-----------~~~~~vli~Ge~GtGK~~lAr~ih~~s~r~~~~fv~v~~~~~~  200 (387)
T 1ny5_A          137 EEYVFESPKMKEILEKIKKIS-----------CAECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIP  200 (387)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHT-----------TCCSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSC
T ss_pred             hhhhhccHHhhHHHHHHHHhc-----------CCCCCeEEecCCCcCHHHHHHHHHHhcCCCCCCeEEEecCCCC
Confidence            345555555555555444321           1234589999999999999999998864   699999988764

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.48  E-value=0.0031  Score=56.77  Aligned_cols=25  Identities=32%  Similarity=0.309  Sum_probs=22.2

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      -+.+.||+|+||||+++.|+..++.
T Consensus        33 ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           33 FIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhh
Confidence            3668999999999999999999863

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=96.47  E-value=0.002  Score=62.41  Aligned_cols=22  Identities=32%  Similarity=0.578  Sum_probs=20.7

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.|.||+|+||||+++.||+.+
T Consensus       296 I~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          296 ILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCcccHHHHHHHHHHHh
Confidence            7799999999999999999987

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=96.47  E-value=0.0026  Score=55.07  Aligned_cols=29  Identities=24%  Similarity=0.500  Sum_probs=24.9

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC--CcEEEE
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK--FNIYDM  275 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~--~~i~~l  275 (288)
                      +.|.||||+||||+++.+++.++  .+++..
T Consensus        29 i~i~G~~GsGKsT~~~~l~~~l~~~~~~~~~   59 (229)
T 4eaq_A           29 ITFEGPEGSGKTTVINEVYHRLVKDYDVIMT   59 (229)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTTTSCEEEE
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHhcCCCceee
Confidence            66899999999999999999996  566544

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=96.46  E-value=0.0018  Score=54.81  Aligned_cols=23  Identities=26%  Similarity=0.563  Sum_probs=21.4

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+||||++++|++.+.
T Consensus        23 ~~l~GpnGsGKSTLl~~l~gl~~   45 (207)
T 1znw_A           23 VVLSGPSAVGKSTVVRCLRERIP   45 (207)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHST
T ss_pred             EEEECCCCCCHHHHHHHHHhhCC
Confidence            67999999999999999999884

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=96.46  E-value=0.0014  Score=58.00  Aligned_cols=29  Identities=31%  Similarity=0.290  Sum_probs=23.2

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      |++...-++|+||||+|||+++..+|..+
T Consensus        26 gl~~G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           26 NMVAGTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             TEETTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CccCCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            44444458899999999999999999754

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=96.46  E-value=0.0037  Score=71.99  Aligned_cols=43  Identities=26%  Similarity=0.589  Sum_probs=33.5

Q ss_pred             cceeEEEcCCCCChHHHHHH-HHHHhCCcEEEEecCCCCCcccc
Q 045456          244 KRGYLLFGPPGTGKSSLIAA-MANYLKFNIYDMELTSVYCNSEL  286 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~a-iA~~l~~~i~~l~~~~~~~~~~l  286 (288)
                      .+.+||+||||||||+++.. +++..+.+++.++.++-.+..+|
T Consensus      1304 ~~pvLL~GptGtGKT~li~~~L~~l~~~~~~~infS~~Tta~~l 1347 (3245)
T 3vkg_A         1304 HRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTPELL 1347 (3245)
T ss_dssp             TCCCEEESSTTSSHHHHHHHHGGGCTTEEEEEECCCTTCCHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHhCCCCceEEEEeeCCCCHHHH
Confidence            46799999999999987654 55555788999999887765443

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=96.44  E-value=0.002  Score=58.57  Aligned_cols=30  Identities=37%  Similarity=0.586  Sum_probs=25.0

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .++...-+.|.||+|+|||||+++|++.+.
T Consensus       122 ~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~~  151 (305)
T 2v9p_A          122 GIPKKNCLAFIGPPNTGKSMLCNSLIHFLG  151 (305)
T ss_dssp             TCTTCSEEEEECSSSSSHHHHHHHHHHHHT
T ss_pred             EecCCCEEEEECCCCCcHHHHHHHHhhhcC
Confidence            444445588999999999999999999873

>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=96.43  E-value=0.002  Score=64.17  Aligned_cols=32  Identities=28%  Similarity=0.497  Sum_probs=29.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh---CCcEEEEec
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL---KFNIYDMEL  277 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  277 (288)
                      -++|.|+||+||||+++++|..|   |.+++.++.
T Consensus        54 lIvLtGlsGSGKSTlAr~La~~L~~~G~~~v~lDg   88 (630)
T 1x6v_B           54 TVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDG   88 (630)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEESH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEech
Confidence            47899999999999999999999   999999864

>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=96.43  E-value=0.002  Score=58.27  Aligned_cols=41  Identities=15%  Similarity=0.101  Sum_probs=31.4

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---------------C----CcEEEEecCCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---------------K----FNIYDMELTSV  280 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---------------~----~~i~~l~~~~~  280 (288)
                      |++...-++++||||+|||++|..+|...               |    .+++.++...-
T Consensus        94 Gl~~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~  153 (322)
T 2i1q_A           94 GLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGT  153 (322)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSC
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCC
Confidence            55544558899999999999999999753               2    57777877653

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.39  E-value=0.0019  Score=56.08  Aligned_cols=25  Identities=24%  Similarity=0.290  Sum_probs=22.7

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +-|.||+|+||||+++.|++.+|..
T Consensus        28 igI~G~~GsGKSTl~k~L~~~lG~~   52 (245)
T 2jeo_A           28 IGVSGGTASGKSTVCEKIMELLGQN   52 (245)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTGG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhchh
Confidence            5689999999999999999998865

>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=96.39  E-value=0.0029  Score=60.21  Aligned_cols=35  Identities=17%  Similarity=0.293  Sum_probs=27.9

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      ++-+++.||||+||||++..+|..+   |..+..+++.
T Consensus        97 ~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D  134 (433)
T 3kl4_A           97 PFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAAD  134 (433)
T ss_dssp             SEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecC
Confidence            3457889999999999999999776   6667666644

>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=96.35  E-value=0.0045  Score=60.96  Aligned_cols=33  Identities=33%  Similarity=0.373  Sum_probs=26.3

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEec
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMEL  277 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  277 (288)
                      +-+++.||||||||+++.+++..+   +.++..+..
T Consensus       205 ~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~Ap  240 (574)
T 3e1s_A          205 RLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCAP  240 (574)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEecC
Confidence            458899999999999999998754   666665543

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=96.34  E-value=0.0023  Score=58.16  Aligned_cols=59  Identities=12%  Similarity=0.035  Sum_probs=36.6

Q ss_pred             hhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEec
Q 045456          218 MKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMEL  277 (288)
Q Consensus       218 ~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  277 (288)
                      .++.+.+.+...+.....+ .+....++-+++.||+|+||||++..+|..+   +..+..++.
T Consensus        79 ~~~~~~~~l~~~l~~~~~~-~~~~~~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~  140 (306)
T 1vma_A           79 ALESLKEIILEILNFDTKL-NVPPEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAA  140 (306)
T ss_dssp             HHHHHHHHHHHHTCSCCCC-CCCSSSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             HHHHHHHHHHHHhCCCCCC-cccCCCCeEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEcc
Confidence            4555555555555432100 1111223447899999999999999999876   455665554

>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=96.32  E-value=0.0027  Score=54.03  Aligned_cols=25  Identities=24%  Similarity=0.449  Sum_probs=22.0

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +-+.|.||+|+||||++++|++.+.
T Consensus        20 ~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           20 KTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CEEEEECcCCCCHHHHHHHHHhhCC
Confidence            3477899999999999999998865

>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=96.28  E-value=0.0032  Score=59.30  Aligned_cols=41  Identities=24%  Similarity=0.127  Sum_probs=29.3

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---------CCcEEEEecCCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---------KFNIYDMELTSV  280 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~~~  280 (288)
                      |++...-++|+||||||||+|+..+|-..         +..++.++..+.
T Consensus       174 GI~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~  223 (400)
T 3lda_A          174 GVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGT  223 (400)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSC
T ss_pred             CcCCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCc
Confidence            44444448899999999999999776433         234777877653

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.27  E-value=0.0029  Score=57.90  Aligned_cols=33  Identities=18%  Similarity=0.172  Sum_probs=25.9

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC-----cEEEEecCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF-----NIYDMELTS  279 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~-----~i~~l~~~~  279 (288)
                      +.+.||+||||||++++|+..++.     .+..+....
T Consensus        95 igI~GpsGSGKSTl~~~L~~ll~~~~~~~~v~~i~~D~  132 (321)
T 3tqc_A           95 IGIAGSVAVGKSTTSRVLKALLSRWPDHPNVEVITTDG  132 (321)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcccCCCCeEEEEeecc
Confidence            568999999999999999999863     355555443

>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=96.26  E-value=0.0043  Score=59.21  Aligned_cols=63  Identities=17%  Similarity=0.294  Sum_probs=39.7

Q ss_pred             hhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          216 PSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       216 ~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      +.+++.+.+.+...+......... ...+.-+++.||||+||||++..+|..+   |..+..+++..
T Consensus        73 ~~v~~~l~~eL~~~L~~~~~~~~~-~~~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~  138 (443)
T 3dm5_A           73 EHIIKIVYEELTKFLGTEAKPIEI-KEKPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDT  138 (443)
T ss_dssp             HHHHHHHHHHHHHHTTSSCCCCCC-CSSSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCC
T ss_pred             HHHHHHHHHHHHHHhcCccccccc-CCCCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCC
Confidence            345555666666655431110000 0124558899999999999999999876   66777776543

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=96.22  E-value=0.0054  Score=56.20  Aligned_cols=24  Identities=38%  Similarity=0.607  Sum_probs=21.6

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .-+.|.||+|+||||+++.||+.+
T Consensus       130 ~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          130 YVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            347799999999999999999887

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=96.21  E-value=0.0063  Score=57.62  Aligned_cols=56  Identities=25%  Similarity=0.316  Sum_probs=37.6

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccce-eEEEcCCCCChHHHHHHHHHHhCC---cEEEEe
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRG-YLLFGPPGTGKSSLIAAMANYLKF---NIYDME  276 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg-~LL~GPpGtGKTsla~aiA~~l~~---~i~~l~  276 (288)
                      +.+++++......+..+.+.    +           ..+.| +++.||+|+||||+.++|++.+..   .++.+.
T Consensus       143 ~~~l~~Lg~~~~~~~~L~~l----~-----------~~~ggii~I~GpnGSGKTTlL~allg~l~~~~g~I~~~e  202 (418)
T 1p9r_A          143 RLDLHSLGMTAHNHDNFRRL----I-----------KRPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVE  202 (418)
T ss_dssp             CCCGGGSCCCHHHHHHHHHH----H-----------TSSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEE
T ss_pred             CCCHHHcCCCHHHHHHHHHH----H-----------HhcCCeEEEECCCCCCHHHHHHHHHhhcCCCCCEEEEec
Confidence            34788887766544333221    1           11344 679999999999999999999853   455554

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=96.20  E-value=0.0055  Score=55.90  Aligned_cols=35  Identities=31%  Similarity=0.522  Sum_probs=27.9

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      ++-+++.||+|+||||++..||..+   +..+..++..
T Consensus       105 ~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid~D  142 (320)
T 1zu4_A          105 LNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAAD  142 (320)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCC
Confidence            3447899999999999999999876   5667666653

>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=96.18  E-value=0.0041  Score=61.69  Aligned_cols=32  Identities=31%  Similarity=0.352  Sum_probs=23.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh----CCcEEEEec
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL----KFNIYDMEL  277 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~  277 (288)
                      -.++.||||||||+++..++..+    +..+..+..
T Consensus       197 ~~li~GppGTGKT~~~~~~i~~l~~~~~~~ilv~a~  232 (624)
T 2gk6_A          197 LSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAP  232 (624)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTSSSCCEEEEES
T ss_pred             CeEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEeC
Confidence            47899999999999888777654    345555443

>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=96.17  E-value=0.005  Score=56.45  Aligned_cols=40  Identities=18%  Similarity=0.006  Sum_probs=28.7

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh-----CCcEEEEecCCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL-----KFNIYDMELTSV  280 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~  280 (288)
                      |++.. -++++||||+|||+|+..++..+     +-.+..++..+-
T Consensus        25 Gl~~G-iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s   69 (333)
T 3io5_A           25 GMQSG-LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFG   69 (333)
T ss_dssp             CBCSE-EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCC
T ss_pred             CCcCC-eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccch
Confidence            44443 36789999999999977666544     567777877543

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.16  E-value=0.0037  Score=55.33  Aligned_cols=24  Identities=46%  Similarity=0.801  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+++.||+|+||||++++|++.+.
T Consensus        27 ~v~i~Gp~GsGKSTll~~l~g~~~   50 (261)
T 2eyu_A           27 LILVTGPTGSGKSTTIASMIDYIN   50 (261)
T ss_dssp             EEEEECSTTCSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHHHHhCC
Confidence            377999999999999999999864

>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=96.14  E-value=0.0024  Score=62.11  Aligned_cols=34  Identities=18%  Similarity=0.330  Sum_probs=27.0

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      .-++|.|+||+|||++++.+|..+   +.+...++..
T Consensus        36 ~lIvlvGlpGSGKSTia~~La~~L~~~~~d~~v~s~D   72 (520)
T 2axn_A           36 TVIVMVGLPARGKTYISKKLTRYLNWIGVPTKVFNVG   72 (520)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEeccc
Confidence            358899999999999999999998   4455455543

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.12  E-value=0.0065  Score=55.04  Aligned_cols=39  Identities=18%  Similarity=0.167  Sum_probs=31.0

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      |++...-+++.|+||+|||+++..+|...   +.++..+++.
T Consensus        64 Gl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~slE  105 (315)
T 3bh0_A           64 GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLE  105 (315)
T ss_dssp             SBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEESS
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEECC
Confidence            56555558999999999999999998664   4678877765

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=96.02  E-value=0.0043  Score=53.48  Aligned_cols=26  Identities=38%  Similarity=0.543  Sum_probs=23.1

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .+-+.|.||+|+|||||+++|++.+.
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccCC
Confidence            44577999999999999999999886

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=96.01  E-value=0.018  Score=53.32  Aligned_cols=61  Identities=18%  Similarity=0.178  Sum_probs=44.0

Q ss_pred             ccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCc--EEEEecCCCCC
Q 045456          211 KIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFN--IYDMELTSVYC  282 (288)
Q Consensus       211 ~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~--i~~l~~~~~~~  282 (288)
                      .+++......++.+.+.....           ....+|++|++||||+.+|++|....+..  ++.++++.+..
T Consensus       130 ~~ig~s~~~~~~~~~~~~~a~-----------~~~~vli~GesGtGKe~lAr~ih~~s~r~~~fv~vnc~~~~~  192 (368)
T 3dzd_A          130 EFVGEHPKILEIKRLIPKIAK-----------SKAPVLITGESGTGKEIVARLIHRYSGRKGAFVDLNCASIPQ  192 (368)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHT-----------SCSCEEEECCTTSSHHHHHHHHHHHHCCCSCEEEEESSSSCT
T ss_pred             cccccchHHHHHHhhhhhhhc-----------cchhheEEeCCCchHHHHHHHHHHhccccCCcEEEEcccCCh
Confidence            456666665555554443221           23459999999999999999999887654  99999987643

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.99  E-value=0.0023  Score=54.87  Aligned_cols=22  Identities=23%  Similarity=0.443  Sum_probs=14.2

Q ss_pred             eEEEcCCCCChHHHHHHHH-HHh
Q 045456          247 YLLFGPPGTGKSSLIAAMA-NYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA-~~l  268 (288)
                      +.|.||+|+||||++++|+ +.+
T Consensus        30 i~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           30 LVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             EEEECSCC----CHHHHHHC---
T ss_pred             EEEECCCCCCHHHHHHHHHhcCC
Confidence            6789999999999999999 876

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=95.95  E-value=0.0053  Score=57.13  Aligned_cols=26  Identities=42%  Similarity=0.709  Sum_probs=22.5

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      ..-+++.||+|+||||++++|++.+.
T Consensus       136 g~~i~ivG~~GsGKTTll~~l~~~~~  161 (372)
T 2ewv_A          136 MGLILVTGPTGSGKSTTIASMIDYIN  161 (372)
T ss_dssp             SEEEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            33478999999999999999999864

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=95.91  E-value=0.0051  Score=59.77  Aligned_cols=35  Identities=20%  Similarity=0.368  Sum_probs=28.1

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCC--cEEEEecC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKF--NIYDMELT  278 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~--~i~~l~~~  278 (288)
                      ..++++.||+|+||||+++++++.+.-  .++.++..
T Consensus       260 g~~i~I~GptGSGKTTlL~aL~~~i~~~~giitied~  296 (511)
T 2oap_1          260 KFSAIVVGETASGKTTTLNAIMMFIPPDAKVVSIEDT  296 (511)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCCCCCCEEEEcCc
Confidence            346899999999999999999998853  46666544

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=95.88  E-value=0.0047  Score=50.63  Aligned_cols=23  Identities=30%  Similarity=0.395  Sum_probs=20.7

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .+++||.|+|||+++.||+..++
T Consensus        29 ~~i~G~NGsGKStll~ai~~~l~   51 (182)
T 3kta_A           29 TAIVGANGSGKSNIGDAILFVLG   51 (182)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHc
Confidence            56899999999999999998775

>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=95.86  E-value=0.0039  Score=56.33  Aligned_cols=23  Identities=22%  Similarity=0.301  Sum_probs=21.3

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +-|.||+|+||||++++|++.++
T Consensus        83 igI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           83 ISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            66899999999999999999887

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=95.85  E-value=0.0091  Score=56.84  Aligned_cols=36  Identities=36%  Similarity=0.537  Sum_probs=28.5

Q ss_pred             cccce--eEEEcCCCCChHHHHHHHHHHhCCcEEEEec
Q 045456          242 VWKRG--YLLFGPPGTGKSSLIAAMANYLKFNIYDMEL  277 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  277 (288)
                      +..+|  +.|.||+|||||+|++.||+....+.-.+.+
T Consensus       153 ~i~~Gq~~~IvG~sGsGKSTLl~~Iag~~~~~~G~i~~  190 (438)
T 2dpy_A          153 TVGRGQRMGLFAGSGVGKSVLLGMMARYTRADVIVVGL  190 (438)
T ss_dssp             CCBTTCEEEEEECTTSSHHHHHHHHHHHSCCSEEEEEE
T ss_pred             EecCCCEEEEECCCCCCHHHHHHHHhcccCCCeEEEEE
Confidence            44455  7799999999999999999999776544433

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=95.84  E-value=0.0098  Score=56.59  Aligned_cols=39  Identities=18%  Similarity=0.227  Sum_probs=30.5

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh----CCcEEEEecC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL----KFNIYDMELT  278 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~  278 (288)
                      |++...-+++.||||+|||+++..+|..+    |.+++.+++.
T Consensus       199 Gl~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~E  241 (454)
T 2r6a_A          199 GFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSLE  241 (454)
T ss_dssp             SBCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEESS
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEECC
Confidence            45444448899999999999999988754    5688888765

>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=95.83  E-value=0.0053  Score=60.48  Aligned_cols=34  Identities=18%  Similarity=0.154  Sum_probs=29.1

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC----CcEEEEecCC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK----FNIYDMELTS  279 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~----~~i~~l~~~~  279 (288)
                      -++|.|+||+||||++++++..|+    .+++.++...
T Consensus       398 ~I~l~GlsGSGKSTiA~~La~~L~~~G~~~~~~lD~D~  435 (573)
T 1m8p_A          398 TIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLLGDT  435 (573)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEEHHH
T ss_pred             EEEeecCCCCCHHHHHHHHHHHhcccCCceEEEECcHH
Confidence            377899999999999999999987    7888887543

>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=95.82  E-value=0.0074  Score=61.74  Aligned_cols=23  Identities=43%  Similarity=0.609  Sum_probs=19.3

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -.++.||||||||+++..++..+
T Consensus       373 ~~lI~GppGTGKT~ti~~~i~~l  395 (800)
T 2wjy_A          373 LSLIQGPPGTGKTVTSATIVYHL  395 (800)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHH
Confidence            47899999999999888777654

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.80  E-value=0.0096  Score=56.63  Aligned_cols=36  Identities=19%  Similarity=0.351  Sum_probs=30.1

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh----CCcEEEEecCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL----KFNIYDMELTS  279 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~~  279 (288)
                      ++.+++.|++|+||||++..+|..+    |..+..+++.-
T Consensus       100 ~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~  139 (433)
T 2xxa_A          100 PAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADV  139 (433)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCC
Confidence            4568889999999999999999776    77888887764

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=95.80  E-value=0.0091  Score=55.08  Aligned_cols=35  Identities=26%  Similarity=0.359  Sum_probs=28.1

Q ss_pred             cccce--eEEEcCCCCChHHHHHHHHHHhCCcEEEEe
Q 045456          242 VWKRG--YLLFGPPGTGKSSLIAAMANYLKFNIYDME  276 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  276 (288)
                      +..+|  +.|.||+|+|||+|++.|++.+..+...+.
T Consensus        67 ~i~~Gq~~gIiG~nGaGKTTLl~~I~g~~~~~~g~i~  103 (347)
T 2obl_A           67 TCGIGQRIGIFAGSGVGKSTLLGMICNGASADIIVLA  103 (347)
T ss_dssp             CEETTCEEEEEECTTSSHHHHHHHHHHHSCCSEEEEE
T ss_pred             eecCCCEEEEECCCCCCHHHHHHHHhcCCCCCEEEEE
Confidence            34445  779999999999999999999987655443

>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=95.79  E-value=0.0064  Score=55.09  Aligned_cols=25  Identities=36%  Similarity=0.628  Sum_probs=21.9

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .-+.|.||+|+||||+++.||..+.
T Consensus       103 ~vi~lvG~nGsGKTTll~~Lagll~  127 (304)
T 1rj9_A          103 RVVLVVGVNGVGKTTTIAKLGRYYQ  127 (304)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHH
Confidence            3477899999999999999998873

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.78  E-value=0.0063  Score=49.86  Aligned_cols=25  Identities=24%  Similarity=0.510  Sum_probs=21.6

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      ..-+++.|++|+|||+++.++++.-
T Consensus        48 ~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           48 QPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3468999999999999999998753

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=95.75  E-value=0.0085  Score=52.03  Aligned_cols=32  Identities=16%  Similarity=0.170  Sum_probs=23.4

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh-------CCcEEEEecC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL-------KFNIYDMELT  278 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l-------~~~i~~l~~~  278 (288)
                      +.|.||+|+||||+++.+++.+       |.+++...-+
T Consensus        28 I~~eG~~GsGKsT~~~~l~~~l~~~~~~~g~~v~~~rep   66 (227)
T 3v9p_A           28 ITFEGIDGAGKTTHLQWFCDRLQERLGPAGRHVVVTREP   66 (227)
T ss_dssp             EEEECCC---CHHHHHHHHHHHHHHHGGGTCCEEEEESS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhhccccceeeeeecCC
Confidence            6688999999999999999988       6777655433

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=95.74  E-value=0.011  Score=56.04  Aligned_cols=39  Identities=13%  Similarity=0.057  Sum_probs=30.5

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh----CCcEEEEecC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL----KFNIYDMELT  278 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~  278 (288)
                      |++...-+++.||||+|||+++..+|...    |.++..+++.
T Consensus       196 Gl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~slE  238 (444)
T 2q6t_A          196 TLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSLE  238 (444)
T ss_dssp             CCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEESS
T ss_pred             CcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEECC
Confidence            55544448899999999999998888653    5688888775

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.73  E-value=0.0085  Score=58.13  Aligned_cols=34  Identities=18%  Similarity=0.336  Sum_probs=27.9

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEec
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMEL  277 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  277 (288)
                      ++-+++.|+||+||||++..+|..+   |..+..++.
T Consensus       101 ~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~  137 (504)
T 2j37_W          101 QNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICA  137 (504)
T ss_dssp             -EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEec
Confidence            3458899999999999999999776   677777765

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=95.71  E-value=0.0027  Score=55.68  Aligned_cols=28  Identities=14%  Similarity=0.303  Sum_probs=23.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh-CCcEE
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL-KFNIY  273 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l-~~~i~  273 (288)
                      -+.|.|++|+||||+++.+|+.+ +..++
T Consensus        26 ~I~ieG~~GsGKST~~~~L~~~l~~~~~i   54 (263)
T 1p5z_B           26 KISIEGNIAAGKSTFVNILKQLCEDWEVV   54 (263)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGCTTEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCCEEE
Confidence            36789999999999999999999 54443

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=95.70  E-value=0.016  Score=56.46  Aligned_cols=63  Identities=19%  Similarity=0.112  Sum_probs=40.1

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-----CC--cEEEEecC
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-----KF--NIYDMELT  278 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-----~~--~i~~l~~~  278 (288)
                      |.....++|-++..+.|.+.+..    .       ..-.+-++++||+|+|||++|..+++..     .+  .++.++++
T Consensus       120 P~~~~~~vGR~~~l~~L~~~L~~----~-------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~  188 (591)
T 1z6t_A          120 PQRPVVFVTRKKLVNAIQQKLSK----L-------KGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVG  188 (591)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHTT----S-------TTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEE
T ss_pred             CCCCCeecccHHHHHHHHHHHhc----c-------cCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECC
Confidence            33445677877776666654431    0       1123458899999999999999987532     22  36666655


Q ss_pred             C
Q 045456          279 S  279 (288)
Q Consensus       279 ~  279 (288)
                      .
T Consensus       189 ~  189 (591)
T 1z6t_A          189 K  189 (591)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=95.69  E-value=0.007  Score=58.81  Aligned_cols=25  Identities=12%  Similarity=0.041  Sum_probs=23.1

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+.|.|++||||||+++++|+.|+.
T Consensus       397 ~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          397 SIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             EEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             EEEecccCCCCHHHHHHHHHHHHHH
Confidence            4778999999999999999999985

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=95.63  E-value=0.01  Score=68.39  Aligned_cols=40  Identities=25%  Similarity=0.305  Sum_probs=35.3

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      ..|..+.||+|||||.+++.+|+.+|.+++.+++++-.+-
T Consensus       604 ~~gg~~~GPaGtGKTet~k~La~~lgr~~~vfnC~~~~d~  643 (3245)
T 3vkg_A          604 RMGGNPFGPAGTGKTETVKALGSQLGRFVLVFCCDEGFDL  643 (3245)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHTTCCEEEEECSSCCCH
T ss_pred             cCCCCCCCCCCCCHHHHHHHHHHHhCCeEEEEeCCCCCCH
Confidence            4467899999999999999999999999999999876543

>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=95.61  E-value=0.0033  Score=60.19  Aligned_cols=27  Identities=26%  Similarity=0.515  Sum_probs=23.5

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      .-++|.|+||+|||++++.+|..++.+
T Consensus        40 ~~IvlvGlpGsGKSTia~~La~~l~~~   66 (469)
T 1bif_A           40 TLIVMVGLPARGKTYISKKLTRYLNFI   66 (469)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence            358899999999999999999987643

>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=95.61  E-value=0.008  Score=54.62  Aligned_cols=23  Identities=22%  Similarity=0.247  Sum_probs=21.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+||||++++|++.+.
T Consensus        93 vgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           93 IGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCchHHHHHHHHHhhcc
Confidence            56899999999999999999874

>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=95.61  E-value=0.0068  Score=57.62  Aligned_cols=34  Identities=26%  Similarity=0.387  Sum_probs=27.5

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      +-+++.||||+||||++..+|..+   |..+..+++.
T Consensus       100 ~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D  136 (432)
T 2v3c_C          100 NVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAAD  136 (432)
T ss_dssp             CCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Confidence            458899999999999999999876   4566666553

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.61  E-value=0.0059  Score=52.18  Aligned_cols=22  Identities=36%  Similarity=0.425  Sum_probs=20.1

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -+.|.||+|+|||||+++|++.
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3778999999999999999986

>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=95.58  E-value=0.012  Score=53.06  Aligned_cols=34  Identities=24%  Similarity=0.353  Sum_probs=27.8

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      +-+++.||+|+||||++..+|..+   |..+..++..
T Consensus        99 ~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D  135 (297)
T 1j8m_F           99 YVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGAD  135 (297)
T ss_dssp             EEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecC
Confidence            347789999999999999999877   6677777654

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=95.58  E-value=0.0058  Score=56.38  Aligned_cols=27  Identities=22%  Similarity=0.406  Sum_probs=23.8

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      .-+.+.||+|+|||||+++|++.+..+
T Consensus       171 ~k~~IvG~nGsGKSTLlk~L~gl~~~~  197 (365)
T 1lw7_A          171 KTVAILGGESSGKSVLVNKLAAVFNTT  197 (365)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHHTTCE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            347899999999999999999998754

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=95.58  E-value=0.0041  Score=53.67  Aligned_cols=25  Identities=24%  Similarity=0.347  Sum_probs=22.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|+|||||+++|++.+...
T Consensus        33 ~~iiG~nGsGKSTLl~~l~Gl~~p~   57 (224)
T 2pcj_A           33 VSIIGASGSGKSTLLYILGLLDAPT   57 (224)
T ss_dssp             EEEEECTTSCHHHHHHHHTTSSCCS
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCCC
Confidence            6799999999999999999887543

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.57  E-value=0.0053  Score=53.68  Aligned_cols=27  Identities=33%  Similarity=0.582  Sum_probs=23.1

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      .-+.|.||+|+|||||.++|++.+...
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~~p~   51 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIVKPD   51 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            456799999999999999999987543

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.55  E-value=0.0065  Score=50.88  Aligned_cols=24  Identities=38%  Similarity=0.498  Sum_probs=21.7

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHH
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .+|+||.||+|+|||++|.++...
T Consensus        16 G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            469999999999999999998865

>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=95.52  E-value=0.011  Score=58.62  Aligned_cols=24  Identities=38%  Similarity=0.577  Sum_probs=20.2

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +-+++.||||||||+++..+...+
T Consensus       165 ~~~vi~G~pGTGKTt~l~~ll~~l  188 (608)
T 1w36_D          165 RISVISGGPGTGKTTTVAKLLAAL  188 (608)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHH
Confidence            458899999999999988877654

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.51  E-value=0.022  Score=52.11  Aligned_cols=22  Identities=41%  Similarity=0.616  Sum_probs=20.3

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.|.||||+||||++++|++.+
T Consensus        58 v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           58 VGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhh
Confidence            6689999999999999999876

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=95.51  E-value=0.005  Score=53.52  Aligned_cols=25  Identities=28%  Similarity=0.521  Sum_probs=22.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|+|||||.++|++.+...
T Consensus        34 ~~iiG~nGsGKSTLl~~l~Gl~~p~   58 (235)
T 3tif_A           34 VSIMGPSGSGKSTMLNIIGCLDKPT   58 (235)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEECCCCCcHHHHHHHHhcCCCCC
Confidence            7799999999999999999887543

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=95.49  E-value=0.0054  Score=57.00  Aligned_cols=25  Identities=24%  Similarity=0.620  Sum_probs=22.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|||||||.++||+.+.-.
T Consensus        33 ~~llGpsGsGKSTLLr~iaGl~~p~   57 (359)
T 3fvq_A           33 LFIIGASGCGKTTLLRCLAGFEQPD   57 (359)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEECCCCchHHHHHHHHhcCCCCC
Confidence            6789999999999999999987543

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=95.48  E-value=0.0051  Score=53.55  Aligned_cols=24  Identities=33%  Similarity=0.450  Sum_probs=21.2

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~~   56 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAEMD   56 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCSE
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            377999999999999999998763

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.46  E-value=0.017  Score=53.19  Aligned_cols=39  Identities=21%  Similarity=0.146  Sum_probs=31.0

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      |+....-+++.|+||+|||+++..+|..+   |.++..+++.
T Consensus        42 Gl~~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fSlE   83 (338)
T 4a1f_A           42 GFNKGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFSLE   83 (338)
T ss_dssp             SBCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEESS
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeCC
Confidence            55444448899999999999999998764   7888888775

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.42  E-value=0.014  Score=55.50  Aligned_cols=40  Identities=18%  Similarity=0.151  Sum_probs=31.0

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      |++...-+++.|+||+|||+++..+|...   |.++..+++..
T Consensus       193 Gl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fSlEm  235 (444)
T 3bgw_A          193 GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLEM  235 (444)
T ss_dssp             SBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEECSSS
T ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEECCC
Confidence            44433348899999999999998888665   67888887763

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=95.40  E-value=0.0057  Score=54.12  Aligned_cols=25  Identities=24%  Similarity=0.418  Sum_probs=22.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|+|||||+++|++.+...
T Consensus        35 ~~liG~nGsGKSTLlk~l~Gl~~p~   59 (262)
T 1b0u_A           35 ISIIGSSGSGKSTFLRCINFLEKPS   59 (262)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCCC
Confidence            6799999999999999999987643

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=95.38  E-value=0.0067  Score=56.80  Aligned_cols=25  Identities=32%  Similarity=0.622  Sum_probs=22.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|||||||.++||+.+...
T Consensus        32 ~~llGpsGsGKSTLLr~iaGl~~p~   56 (381)
T 3rlf_A           32 VVFVGPSGCGKSTLLRMIAGLETIT   56 (381)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEcCCCchHHHHHHHHHcCCCCC
Confidence            6699999999999999999987643

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=95.38  E-value=0.011  Score=60.50  Aligned_cols=33  Identities=36%  Similarity=0.409  Sum_probs=23.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh----CCcEEEEecC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL----KFNIYDMELT  278 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~  278 (288)
                      -.++.||||||||+++..++..+    +..+..+..+
T Consensus       377 ~~lI~GppGTGKT~~i~~~i~~l~~~~~~~ILv~a~t  413 (802)
T 2xzl_A          377 LSLIQGPPGTGKTVTSATIVYHLSKIHKDRILVCAPS  413 (802)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEESS
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEEEcCc
Confidence            47899999999999877666543    4556555443

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.33  E-value=0.0072  Score=56.20  Aligned_cols=25  Identities=40%  Similarity=0.673  Sum_probs=22.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|||||||.++||+.+...
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~~p~   56 (362)
T 2it1_A           32 MALLGPSGSGKSTLLYTIAGIYKPT   56 (362)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEECCCCchHHHHHHHHhcCCCCC
Confidence            6689999999999999999987543

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=95.33  E-value=0.0086  Score=49.54  Aligned_cols=23  Identities=30%  Similarity=0.523  Sum_probs=20.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -+.|.||+|+|||||++++++..
T Consensus        31 kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           31 KVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            47899999999999999999864

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=95.32  E-value=0.0093  Score=53.72  Aligned_cols=36  Identities=25%  Similarity=0.386  Sum_probs=28.2

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh----CCcEEEEecCC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL----KFNIYDMELTS  279 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~~  279 (288)
                      ++-++|.||+|+||||++..+|..+    |..+..++...
T Consensus       105 g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~  144 (296)
T 2px0_A          105 SKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDT  144 (296)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCc
Confidence            3457899999999999999999765    55677766543

>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=95.32  E-value=0.012  Score=56.68  Aligned_cols=40  Identities=13%  Similarity=-0.037  Sum_probs=30.6

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh----CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL----KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~~  279 (288)
                      |++...-+++.||||+|||+++..+|..+    |.++..+++..
T Consensus       238 Gl~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s~E~  281 (503)
T 1q57_A          238 GARGGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAMLEE  281 (503)
T ss_dssp             CCCTTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEESSS
T ss_pred             ccCCCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEeccC
Confidence            44434448899999999999999988765    56788887754

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=95.32  E-value=0.0058  Score=53.81  Aligned_cols=25  Identities=44%  Similarity=0.857  Sum_probs=22.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|+|||||.++|++.+...
T Consensus        36 ~~liG~nGsGKSTLlk~l~Gl~~p~   60 (257)
T 1g6h_A           36 TLIIGPNGSGKSTLINVITGFLKAD   60 (257)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEECCCCCCHHHHHHHHhCCCCCC
Confidence            6799999999999999999887543

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=95.31  E-value=0.011  Score=50.79  Aligned_cols=25  Identities=36%  Similarity=0.656  Sum_probs=22.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|+|||||.++|++.+...
T Consensus        38 ~~iiG~NGsGKSTLlk~l~Gl~~p~   62 (214)
T 1sgw_A           38 VNFHGPNGIGKTTLLKTISTYLKPL   62 (214)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCCC
Confidence            7799999999999999999887543

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=95.29  E-value=0.0067  Score=52.49  Aligned_cols=25  Identities=28%  Similarity=0.375  Sum_probs=22.0

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      -+.|.||.|+|||||.++|++.+..
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl~~p   60 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGELEP   60 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcC
Confidence            3779999999999999999988753

>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=95.29  E-value=0.027  Score=53.46  Aligned_cols=58  Identities=17%  Similarity=0.150  Sum_probs=36.3

Q ss_pred             hhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEec
Q 045456          218 MKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMEL  277 (288)
Q Consensus       218 ~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  277 (288)
                      +.+.+.+.+...+....  ..+....++.+++.||+|+||||++..+|..+   |..+..+++
T Consensus        74 ~~~~v~~~L~~~~~~~~--~~i~l~~~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~  134 (425)
T 2ffh_A           74 ILATVYEALKEALGGEA--RLPVLKDRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAA  134 (425)
T ss_dssp             HHHHHHHHHHHHTTSSC--CCCCCCSSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEC
T ss_pred             HHHHHHHHHHHHhCCCc--ccccCCCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeec
Confidence            44445555554443221  11122223457788999999999999999887   566776665

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=95.28  E-value=0.0075  Score=56.01  Aligned_cols=25  Identities=32%  Similarity=0.555  Sum_probs=22.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|||||||.++||+.+...
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~~p~   56 (359)
T 2yyz_A           32 VALLGPSGCGKTTTLLMLAGIYKPT   56 (359)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEcCCCchHHHHHHHHHCCCCCC
Confidence            6689999999999999999987543

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=95.27  E-value=0.01  Score=52.15  Aligned_cols=29  Identities=38%  Similarity=0.539  Sum_probs=24.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCcEEEEe
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFNIYDME  276 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~  276 (288)
                      +.|.||+|+|||||.++|++.+... =.+.
T Consensus        29 ~~liG~NGsGKSTLlk~l~Gl~~p~-G~i~   57 (249)
T 2qi9_C           29 LHLVGPNGAGKSTLLARMAGMTSGK-GSIQ   57 (249)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSCCE-EEEE
T ss_pred             EEEECCCCCcHHHHHHHHhCCCCCC-eEEE
Confidence            6799999999999999999987654 4443

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=95.26  E-value=0.012  Score=54.43  Aligned_cols=25  Identities=28%  Similarity=0.557  Sum_probs=22.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|||||||.++||+.+...
T Consensus        44 ~~llGpnGsGKSTLLr~iaGl~~p~   68 (355)
T 1z47_A           44 VGLLGPSGSGKTTILRLIAGLERPT   68 (355)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEECCCCCcHHHHHHHHhCCCCCC
Confidence            6799999999999999999887543

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=95.26  E-value=0.0077  Score=56.19  Aligned_cols=25  Identities=28%  Similarity=0.559  Sum_probs=22.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|||||||.++||+.+...
T Consensus        40 ~~llGpnGsGKSTLLr~iaGl~~p~   64 (372)
T 1v43_A           40 LVLLGPSGCGKTTTLRMIAGLEEPT   64 (372)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEECCCCChHHHHHHHHHcCCCCC
Confidence            6699999999999999999987543

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=95.26  E-value=0.0067  Score=54.19  Aligned_cols=25  Identities=32%  Similarity=0.477  Sum_probs=22.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|+|||||+++|++.+...
T Consensus        37 ~~iiGpnGsGKSTLl~~l~Gl~~p~   61 (275)
T 3gfo_A           37 TAILGGNGVGKSTLFQNFNGILKPS   61 (275)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEECCCCCCHHHHHHHHHcCCCCC
Confidence            7799999999999999999987543

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=95.25  E-value=0.007  Score=52.80  Aligned_cols=23  Identities=26%  Similarity=0.650  Sum_probs=21.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+|||||+++|++.+.
T Consensus        31 ~~i~G~nGsGKSTLl~~l~Gl~~   53 (243)
T 1mv5_A           31 IAFAGPSGGGKSTIFSLLERFYQ   53 (243)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCCC
Confidence            77999999999999999998774

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=95.22  E-value=0.0066  Score=52.91  Aligned_cols=25  Identities=28%  Similarity=0.558  Sum_probs=22.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|+|||||.++|++.+...
T Consensus        35 ~~l~G~nGsGKSTLl~~l~Gl~~p~   59 (240)
T 1ji0_A           35 VTLIGANGAGKTTTLSAIAGLVRAQ   59 (240)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEECCCCCCHHHHHHHHhCCCCCC
Confidence            6799999999999999999887543

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=95.21  E-value=0.007  Score=53.05  Aligned_cols=25  Identities=24%  Similarity=0.401  Sum_probs=22.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|+|||||+++|++.+...
T Consensus        38 ~~i~G~nGsGKSTLl~~l~Gl~~p~   62 (247)
T 2ff7_A           38 IGIVGRSGSGKSTLTKLIQRFYIPE   62 (247)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCCC
Confidence            7799999999999999999987543

>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=95.20  E-value=0.017  Score=53.08  Aligned_cols=32  Identities=28%  Similarity=0.380  Sum_probs=26.0

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh---CCcEEEEec
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL---KFNIYDMEL  277 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  277 (288)
                      -+.+.|+||+||||++.+++..+   |..+..++.
T Consensus        81 ~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~~  115 (355)
T 3p32_A           81 RVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAV  115 (355)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEec
Confidence            47899999999999999999886   566555544

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=95.19  E-value=0.0091  Score=52.32  Aligned_cols=21  Identities=43%  Similarity=0.593  Sum_probs=19.8

Q ss_pred             eEEEcCCCCChHHHHHHHHHH
Q 045456          247 YLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~  267 (288)
                      +.|.||+|+|||||+++|++.
T Consensus        32 ~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           32 HALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            779999999999999999986

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=95.17  E-value=0.008  Score=53.31  Aligned_cols=25  Identities=28%  Similarity=0.677  Sum_probs=22.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|+|||||+++|++.+...
T Consensus        53 ~~liG~NGsGKSTLlk~l~Gl~~p~   77 (263)
T 2olj_A           53 VVVIGPSGSGKSTFLRCLNLLEDFD   77 (263)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEcCCCCcHHHHHHHHHcCCCCC
Confidence            7799999999999999999987543

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=95.17  E-value=0.0068  Score=59.43  Aligned_cols=33  Identities=27%  Similarity=0.287  Sum_probs=26.6

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC----CcEEEEecCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK----FNIYDMELTS  279 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~----~~i~~l~~~~  279 (288)
                      +.|.||+|+||||++++||+.++    ..+..++...
T Consensus       372 I~LiG~sGSGKSTLar~La~~L~~~~G~~i~~lDgD~  408 (552)
T 3cr8_A          372 VFFTGLSGAGKSTLARALAARLMEMGGRCVTLLDGDI  408 (552)
T ss_dssp             EEEEESSCHHHHHHHHHHHHHHHTTCSSCEEEESSHH
T ss_pred             EEEECCCCChHHHHHHHHHHhhcccCCceEEEECCcH
Confidence            77999999999999999999986    3455555433

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=95.17  E-value=0.014  Score=54.46  Aligned_cols=25  Identities=28%  Similarity=0.575  Sum_probs=22.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|||||||.++||+.+...
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~~p~   56 (372)
T 1g29_1           32 MILLGPSGCGKTTTLRMIAGLEEPS   56 (372)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEECCCCcHHHHHHHHHHcCCCCC
Confidence            6799999999999999999887543

>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=95.16  E-value=0.017  Score=63.39  Aligned_cols=42  Identities=17%  Similarity=0.196  Sum_probs=33.6

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVY  281 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~  281 (288)
                      |++....++|+||||+|||++|..+|..+   +.++..+++.+..
T Consensus       728 Gl~~G~lVlI~G~PG~GKTtLal~lA~~aa~~g~~VlyiS~Ees~  772 (1706)
T 3cmw_A          728 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHAL  772 (1706)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCC
T ss_pred             CcCCCceEEEECCCCCCcHHHHHHHHHHHHHcCCCeEEEeccchH
Confidence            46666679999999999999999998775   4578888876543

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=95.14  E-value=0.016  Score=64.34  Aligned_cols=43  Identities=16%  Similarity=0.166  Sum_probs=35.0

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYC  282 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~  282 (288)
                      |++..+.++++||||||||+++.+++.+.   |.+.+.+++.+..+
T Consensus      1077 gi~~g~~vll~G~~GtGKT~la~~~~~ea~k~Ge~~~Fit~ee~~~ 1122 (2050)
T 3cmu_A         1077 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALD 1122 (2050)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCC
T ss_pred             CcCCCcEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEccccHH
Confidence            46667779999999999999999988653   78888888876543

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=95.13  E-value=0.0073  Score=54.00  Aligned_cols=25  Identities=28%  Similarity=0.666  Sum_probs=22.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|+|||||.++|++.+...
T Consensus        50 ~~liG~NGsGKSTLlk~l~Gl~~p~   74 (279)
T 2ihy_A           50 WILYGLNGAGKTTLLNILNAYEPAT   74 (279)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEECCCCCcHHHHHHHHhCCCCCC
Confidence            7799999999999999999987543

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=95.13  E-value=0.011  Score=52.49  Aligned_cols=22  Identities=41%  Similarity=0.638  Sum_probs=20.3

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.|.||+|+|||||+++|++.+
T Consensus        49 ~~l~G~NGsGKSTLlk~l~Gl~   70 (267)
T 2zu0_C           49 HAIMGPNGSGKSTLSATLAGRE   70 (267)
T ss_dssp             EEEECCTTSSHHHHHHHHHTCT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7799999999999999999864

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=95.12  E-value=0.0082  Score=53.36  Aligned_cols=25  Identities=36%  Similarity=0.570  Sum_probs=22.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|+|||||+++|++.+...
T Consensus        48 ~~i~G~nGsGKSTLlk~l~Gl~~p~   72 (271)
T 2ixe_A           48 TALVGPNGSGKSTVAALLQNLYQPT   72 (271)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCCC
Confidence            7799999999999999999987543

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.11  E-value=0.0079  Score=53.10  Aligned_cols=24  Identities=25%  Similarity=0.493  Sum_probs=21.7

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl~~   71 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRFYD   71 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhccCC
Confidence            377999999999999999998775

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=95.10  E-value=0.0077  Score=53.43  Aligned_cols=24  Identities=38%  Similarity=0.728  Sum_probs=21.4

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      +.|.||+|+|||||+++|++.+..
T Consensus        40 ~~liG~nGsGKSTLl~~l~Gl~~p   63 (266)
T 4g1u_C           40 VAIIGPNGAGKSTLLRLLTGYLSP   63 (266)
T ss_dssp             EEEECCTTSCHHHHHHHHTSSSCC
T ss_pred             EEEECCCCCcHHHHHHHHhcCCCC
Confidence            679999999999999999987743

>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=95.04  E-value=0.02  Score=55.44  Aligned_cols=39  Identities=18%  Similarity=0.132  Sum_probs=28.4

Q ss_pred             CcccceeEEEcCCCCChHHHHHH--HHHHh--CCcEEEEecCC
Q 045456          241 KVWKRGYLLFGPPGTGKSSLIAA--MANYL--KFNIYDMELTS  279 (288)
Q Consensus       241 ~~~~rg~LL~GPpGtGKTsla~a--iA~~l--~~~i~~l~~~~  279 (288)
                      ++...-++|.||||||||+|+++  +++.+  +-..+.++..+
T Consensus        36 i~~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~~~~~g~i~v~g~~   78 (525)
T 1tf7_A           36 LPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEE   78 (525)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSS
T ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEeC
Confidence            34444588999999999999999  55554  44566666654

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=95.03  E-value=0.0082  Score=55.53  Aligned_cols=33  Identities=27%  Similarity=0.572  Sum_probs=26.4

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCC--cEEEEe
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKF--NIYDME  276 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~--~i~~l~  276 (288)
                      ..-+++.||+|+||||++++|++.+..  -.+.++
T Consensus       175 G~~i~ivG~sGsGKSTll~~l~~~~~~~~g~I~ie  209 (361)
T 2gza_A          175 ERVIVVAGETGSGKTTLMKALMQEIPFDQRLITIE  209 (361)
T ss_dssp             TCCEEEEESSSSCHHHHHHHHHTTSCTTSCEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCCCCceEEEEC
Confidence            345889999999999999999998753  355555

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=95.00  E-value=0.0065  Score=56.15  Aligned_cols=25  Identities=24%  Similarity=0.683  Sum_probs=22.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|||||||.++||+.+...
T Consensus        29 ~~llGpnGsGKSTLLr~iaGl~~p~   53 (348)
T 3d31_A           29 FVILGPTGAGKTLFLELIAGFHVPD   53 (348)
T ss_dssp             EEEECCCTHHHHHHHHHHHTSSCCS
T ss_pred             EEEECCCCccHHHHHHHHHcCCCCC
Confidence            6789999999999999999887543

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=94.98  E-value=0.0088  Score=52.61  Aligned_cols=24  Identities=25%  Similarity=0.436  Sum_probs=21.5

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      +.|.||+|+|||||.++|++.+..
T Consensus        34 ~~l~G~nGsGKSTLl~~l~Gl~~p   57 (253)
T 2nq2_C           34 LAVLGQNGCGKSTLLDLLLGIHRP   57 (253)
T ss_dssp             EEEECCSSSSHHHHHHHHTTSSCC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCCC
Confidence            779999999999999999987653

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=94.98  E-value=0.0098  Score=52.49  Aligned_cols=25  Identities=28%  Similarity=0.618  Sum_probs=22.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.|.||+|+|||||.++|++.+...
T Consensus        44 ~~l~G~NGsGKSTLlk~l~Gl~~p~   68 (256)
T 1vpl_A           44 FGLIGPNGAGKTTTLRIISTLIKPS   68 (256)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCCC
Confidence            7799999999999999999887543

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=94.93  E-value=0.0096  Score=52.72  Aligned_cols=24  Identities=33%  Similarity=0.574  Sum_probs=21.6

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      +.|.||+|+|||||+++|++.+..
T Consensus        36 ~~liG~nGsGKSTLl~~i~Gl~~p   59 (266)
T 2yz2_A           36 LLVAGNTGSGKSTLLQIVAGLIEP   59 (266)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEECCCCCcHHHHHHHHhCCCCC
Confidence            679999999999999999987754

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=94.91  E-value=0.0094  Score=55.95  Aligned_cols=23  Identities=39%  Similarity=0.634  Sum_probs=21.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+||||||+.++||+.+.
T Consensus        50 ~~llGpsGsGKSTLLr~iaGl~~   72 (390)
T 3gd7_A           50 VGLLGRTGSGKSTLLSAFLRLLN   72 (390)
T ss_dssp             EEEEESTTSSHHHHHHHHHTCSE
T ss_pred             EEEECCCCChHHHHHHHHhCCCC
Confidence            77999999999999999998764

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=94.86  E-value=0.0096  Score=52.76  Aligned_cols=22  Identities=36%  Similarity=0.868  Sum_probs=20.7

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.|.||+|+|||||.++|++.+
T Consensus        33 ~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           33 VIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7799999999999999999987

>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=94.85  E-value=0.0076  Score=55.12  Aligned_cols=35  Identities=23%  Similarity=0.485  Sum_probs=27.5

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCC--cEEEEecC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKF--NIYDMELT  278 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~--~i~~l~~~  278 (288)
                      ...+++.||+|+||||++++|++.+..  -.+.++..
T Consensus       171 g~~v~i~G~~GsGKTTll~~l~g~~~~~~g~i~i~~~  207 (330)
T 2pt7_A          171 GKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDT  207 (330)
T ss_dssp             TCCEEEEESTTSCHHHHHHHGGGGSCTTSCEEEEESS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcCCCcEEEECCe
Confidence            345889999999999999999998753  35555543

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=94.85  E-value=0.054  Score=49.73  Aligned_cols=22  Identities=45%  Similarity=0.738  Sum_probs=20.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.|.||||+|||||..++++.+
T Consensus        77 v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           77 VGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            6799999999999999999865

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=94.85  E-value=0.027  Score=48.63  Aligned_cols=33  Identities=24%  Similarity=0.181  Sum_probs=28.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCcEEEEecC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFNIYDMELT  278 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  278 (288)
                      .+++.||+|+|||.++.+++..++.+++.+...
T Consensus       110 ~~ll~~~tG~GKT~~a~~~~~~~~~~~liv~P~  142 (237)
T 2fz4_A          110 RGCIVLPTGSGKTHVAMAAINELSTPTLIVVPT  142 (237)
T ss_dssp             EEEEEESSSTTHHHHHHHHHHHSCSCEEEEESS
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHcCCCEEEEeCC
Confidence            488999999999999999999988887777544

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=94.83  E-value=0.028  Score=52.87  Aligned_cols=23  Identities=30%  Similarity=0.577  Sum_probs=20.9

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -++++||||||||++++.||+..
T Consensus       176 r~~IvG~sG~GKTtLl~~Iar~i  198 (422)
T 3ice_A          176 RGLIVAPPKAGKTMLLQNIAQSI  198 (422)
T ss_dssp             EEEEECCSSSSHHHHHHHHHHHH
T ss_pred             EEEEecCCCCChhHHHHHHHHHH
Confidence            38999999999999999999865

>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=94.82  E-value=0.049  Score=48.87  Aligned_cols=33  Identities=24%  Similarity=0.313  Sum_probs=26.4

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEec
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMEL  277 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  277 (288)
                      +-+.+.||+|+||||++..+|..+   +..+..++.
T Consensus        99 ~~i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~~  134 (295)
T 1ls1_A           99 NLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAA  134 (295)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecC
Confidence            346788999999999999999876   556666654

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=94.79  E-value=0.015  Score=50.67  Aligned_cols=30  Identities=27%  Similarity=0.397  Sum_probs=24.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh---CCc-EEEEe
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL---KFN-IYDME  276 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l---~~~-i~~l~  276 (288)
                      +.+.||+|+||||+++.++..+   +.+ +....
T Consensus        30 i~~eG~~GsGKsT~~~~l~~~l~~~~~~~~~~~r   63 (236)
T 3lv8_A           30 IVIEGLEGAGKSTAIQVVVETLQQNGIDHITRTR   63 (236)
T ss_dssp             EEEEESTTSCHHHHHHHHHHHHHHTTCCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCCeeeeec
Confidence            6789999999999999999887   455 44443

>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=94.78  E-value=0.015  Score=56.39  Aligned_cols=39  Identities=23%  Similarity=0.208  Sum_probs=28.0

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      |++...-+++.||||+|||+|++.+|..+   |.+++.+...
T Consensus       277 ~i~~G~i~~i~G~~GsGKSTLl~~l~g~~~~~G~~vi~~~~e  318 (525)
T 1tf7_A          277 GFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAYE  318 (525)
T ss_dssp             SEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESS
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEEEe
Confidence            44444448899999999999999999765   3445445443

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=94.72  E-value=0.0066  Score=56.21  Aligned_cols=24  Identities=25%  Similarity=0.542  Sum_probs=21.6

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      +.|.||+|||||||.++||+.+..
T Consensus        34 ~~llGpnGsGKSTLLr~iaGl~~p   57 (353)
T 1oxx_K           34 FGILGPSGAGKTTFMRIIAGLDVP   57 (353)
T ss_dssp             EEEECSCHHHHHHHHHHHHTSSCC
T ss_pred             EEEECCCCCcHHHHHHHHhCCCCC
Confidence            669999999999999999988754

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=94.57  E-value=0.012  Score=52.87  Aligned_cols=23  Identities=30%  Similarity=0.525  Sum_probs=21.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||.|+|||||.++|++.+.
T Consensus        67 ~~i~G~NGsGKSTLlk~l~Gl~~   89 (290)
T 2bbs_A           67 LAVAGSTGAGKTSLLMMIMGELE   89 (290)
T ss_dssp             EEEEESTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCCcHHHHHHHHhcCCC
Confidence            77999999999999999998764

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=94.52  E-value=0.019  Score=46.16  Aligned_cols=22  Identities=45%  Similarity=0.640  Sum_probs=19.6

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .+++||.|+|||++..||.-.+
T Consensus        26 ~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            5689999999999999998655

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=94.51  E-value=0.016  Score=55.45  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=20.8

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.|.||+|+|||||+++|++.+
T Consensus       141 v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          141 VVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             EEEEESTTSSHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHhCcc
Confidence            8899999999999999999986

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.45  E-value=0.023  Score=47.72  Aligned_cols=25  Identities=24%  Similarity=0.364  Sum_probs=22.1

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .-+.+.|+||+||||++.+++..+.
T Consensus        31 ~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           31 VAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            4688999999999999999998863

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=94.44  E-value=0.023  Score=49.21  Aligned_cols=28  Identities=29%  Similarity=0.311  Sum_probs=23.7

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC----cEEE
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF----NIYD  274 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~----~i~~  274 (288)
                      +.+.|++|+||||+++.+++.++.    +++.
T Consensus        24 i~~~G~~g~GKst~~~~l~~~l~~~~g~~v~~   55 (223)
T 3ld9_A           24 ITFEGIDGSGKTTQSHLLAEYLSEIYGVNNVV   55 (223)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHHHCGGGEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhccCceeeE
Confidence            668899999999999999998755    6555

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=94.40  E-value=0.039  Score=52.07  Aligned_cols=22  Identities=32%  Similarity=0.449  Sum_probs=19.8

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.|.||+|+||||++++|++..
T Consensus        72 valvG~nGaGKSTLln~L~Gl~   93 (413)
T 1tq4_A           72 VAVTGETGSGKSSFINTLRGIG   93 (413)
T ss_dssp             EEEEECTTSSHHHHHHHHHTCC
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            6689999999999999999854

>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=94.34  E-value=0.024  Score=46.36  Aligned_cols=23  Identities=26%  Similarity=0.509  Sum_probs=20.4

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -.+++.|++|+|||+|+.++.+.
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            35899999999999999999864

>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=94.29  E-value=0.025  Score=46.03  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=20.1

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .+++.|++|+|||+++.++++.
T Consensus        23 ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           23 KLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            5889999999999999999865

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=94.27  E-value=0.055  Score=56.59  Aligned_cols=64  Identities=16%  Similarity=0.043  Sum_probs=43.3

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh-------CCcEEEEec
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL-------KFNIYDMEL  277 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l-------~~~i~~l~~  277 (288)
                      .|.....++|-++..++|.+.+..    .       -...+-+.++|++|.|||+||+.+++..       ...++.+++
T Consensus       119 ~p~~~~~~vgR~~~~~~l~~~l~~----~-------~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~  187 (1249)
T 3sfz_A          119 VPQRPVIFVTRKKLVHAIQQKLWK----L-------NGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSI  187 (1249)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHHT----T-------TTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEEC
T ss_pred             CCCCCceeccHHHHHHHHHHHHhh----c-------cCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEE
Confidence            455566788888777777665431    0       1123457899999999999999988752       223556776


Q ss_pred             CC
Q 045456          278 TS  279 (288)
Q Consensus       278 ~~  279 (288)
                      +.
T Consensus       188 ~~  189 (1249)
T 3sfz_A          188 GK  189 (1249)
T ss_dssp             CS
T ss_pred             CC
Confidence            55

>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=94.26  E-value=0.026  Score=45.41  Aligned_cols=23  Identities=26%  Similarity=0.406  Sum_probs=20.5

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      ..+++.|++|+|||+|+.++.+.
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            45899999999999999999864

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=94.23  E-value=0.02  Score=53.23  Aligned_cols=25  Identities=32%  Similarity=0.494  Sum_probs=22.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +-|.||+|+|||||+++|++.+.-.
T Consensus        57 ~~IiGpnGaGKSTLlr~i~GL~~p~   81 (366)
T 3tui_C           57 YGVIGASGAGKSTLIRCVNLLERPT   81 (366)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEcCCCchHHHHHHHHhcCCCCC
Confidence            6799999999999999999877543

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=94.19  E-value=0.022  Score=55.65  Aligned_cols=32  Identities=25%  Similarity=0.315  Sum_probs=26.2

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC---CcEEEEec
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK---FNIYDMEL  277 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~  277 (288)
                      -++|.|+||+||||+++++++.++   .+++.++.
T Consensus       374 ~I~l~G~~GsGKSTia~~La~~L~~~G~~~~~ld~  408 (546)
T 2gks_A          374 CVWLTGLPCAGKSTIAEILATMLQARGRKVTLLDG  408 (546)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECH
T ss_pred             EEEccCCCCCCHHHHHHHHHHHhhhcCCeEEEECc
Confidence            377899999999999999999875   45666654

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=94.17  E-value=0.0088  Score=49.73  Aligned_cols=23  Identities=26%  Similarity=0.338  Sum_probs=19.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -+.|.||+|+|||||++++++..
T Consensus        28 ~v~lvG~~g~GKSTLl~~l~g~~   50 (210)
T 1pui_A           28 EVAFAGRSNAGKSSALNTLTNQK   50 (210)
T ss_dssp             EEEEEECTTSSHHHHHTTTCCC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999988644

>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=94.16  E-value=0.024  Score=48.63  Aligned_cols=28  Identities=29%  Similarity=0.504  Sum_probs=23.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCcEEEE
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFNIYDM  275 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l  275 (288)
                      +.|.||.|+||||+++.|++. +-.+...
T Consensus        23 i~i~G~~GsGKSTl~~~L~~~-~g~v~~~   50 (230)
T 2vp4_A           23 VLIEGNIGSGKTTYLNHFEKY-KNDICLL   50 (230)
T ss_dssp             EEEECSTTSCHHHHHHTTGGG-TTTEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHhc-cCCeEEE
Confidence            568999999999999999988 5555544

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=94.14  E-value=0.041  Score=46.28  Aligned_cols=24  Identities=29%  Similarity=0.545  Sum_probs=21.4

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .-+++.|++|+|||+++..++..+
T Consensus        39 ~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           39 VAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHh
Confidence            457888999999999999999876

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=94.10  E-value=0.019  Score=51.53  Aligned_cols=26  Identities=38%  Similarity=0.437  Sum_probs=22.3

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      -+.|.||+|+|||||+++|++.....
T Consensus       171 iv~l~G~sG~GKSTll~~l~g~~~~~  196 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAINPGLKLR  196 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTCCCC
T ss_pred             eEEEECCCCCcHHHHHHHhccccccc
Confidence            36789999999999999999877543

>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=94.10  E-value=0.032  Score=45.83  Aligned_cols=23  Identities=30%  Similarity=0.531  Sum_probs=20.5

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -.+++.|++|+|||+|+.++.+.
T Consensus        29 ~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           29 VKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45899999999999999999864

>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=94.08  E-value=0.022  Score=46.50  Aligned_cols=23  Identities=35%  Similarity=0.430  Sum_probs=20.3

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .-+++.|++|+|||+++.++.+.
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           24 PEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45899999999999999999854

>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=94.07  E-value=0.029  Score=45.72  Aligned_cols=24  Identities=29%  Similarity=0.364  Sum_probs=20.7

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -.+++.|++|+|||+|+.++.+.-
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            358999999999999999998643

>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=94.03  E-value=0.03  Score=45.13  Aligned_cols=24  Identities=25%  Similarity=0.351  Sum_probs=20.9

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHH
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .--+++.|++|+|||+|+.++.+.
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            345899999999999999999864

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=94.01  E-value=0.0099  Score=51.61  Aligned_cols=22  Identities=41%  Similarity=0.495  Sum_probs=19.8

Q ss_pred             EEEcCCCCChHHHHHHHHHHhC
Q 045456          248 LLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       248 LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .+.||+||||||+..+|+..+.
T Consensus        31 ~i~GpnGsGKSTll~~i~g~~~   52 (227)
T 1qhl_A           31 TLSGGNGAGKSTTMAAFVTALI   52 (227)
T ss_dssp             HHHSCCSHHHHHHHHHHHHHHS
T ss_pred             EEECCCCCCHHHHHHHHhcccc
Confidence            4679999999999999999875

>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=93.99  E-value=0.047  Score=49.87  Aligned_cols=30  Identities=27%  Similarity=0.473  Sum_probs=23.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh---CCcEEEE
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL---KFNIYDM  275 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l  275 (288)
                      -+.+.||||+||||++.+++..+   +..+..+
T Consensus        58 ~i~i~G~~g~GKSTl~~~l~~~~~~~~~~v~v~   90 (341)
T 2p67_A           58 RLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVI   90 (341)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence            36789999999999999999875   4444433

>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=93.99  E-value=0.028  Score=46.21  Aligned_cols=21  Identities=29%  Similarity=0.569  Sum_probs=19.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~  266 (288)
                      -+++.|+||+|||+++.++++
T Consensus        25 ki~~vG~~~vGKSsli~~l~~   45 (190)
T 1m2o_B           25 KLLFLGLDNAGKTTLLHMLKN   45 (190)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            488999999999999999987

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=93.99  E-value=0.031  Score=45.53  Aligned_cols=25  Identities=36%  Similarity=0.464  Sum_probs=21.8

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .--+++.|++|+|||+|+.++.+.-
T Consensus        16 ~~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           16 LFKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            4469999999999999999998754

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=93.98  E-value=0.014  Score=53.00  Aligned_cols=26  Identities=27%  Similarity=0.631  Sum_probs=22.7

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      -+.|.||+|+|||||+++|++.+...
T Consensus        82 ~vaivG~sGsGKSTLl~ll~gl~~p~  107 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFRFYDIS  107 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCchHHHHHHHHHcCCCCC
Confidence            37799999999999999999987543

>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=93.94  E-value=0.079  Score=51.39  Aligned_cols=43  Identities=21%  Similarity=0.246  Sum_probs=31.6

Q ss_pred             cChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHH
Q 045456          214 MDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       214 ~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~  266 (288)
                      |-++.+++|.+.+..-          +....+.+.++|++|.|||+||+.+++
T Consensus       132 GR~~~~~~l~~~L~~~----------~~~~~~vv~I~G~gGvGKTtLA~~v~~  174 (549)
T 2a5y_B          132 IREYHVDRVIKKLDEM----------CDLDSFFLFLHGRAGSGKSVIASQALS  174 (549)
T ss_dssp             CCHHHHHHHHHHHHHH----------TTSSSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHhcc----------cCCCceEEEEEcCCCCCHHHHHHHHHH
Confidence            7777777777765321          111235688999999999999999997

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=93.90  E-value=0.023  Score=52.69  Aligned_cols=24  Identities=33%  Similarity=0.470  Sum_probs=21.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||||+|||||+.+|+..+.
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             EEEEECCCCccHHHHHHHHhcccc
Confidence            477999999999999999998765

>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=93.88  E-value=0.034  Score=45.53  Aligned_cols=22  Identities=27%  Similarity=0.471  Sum_probs=19.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -+++.|++|+|||+|+.++.+.
T Consensus        23 ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           23 NLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCcHHHHHHHHHhC
Confidence            4899999999999999998764

>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=93.88  E-value=0.035  Score=45.47  Aligned_cols=22  Identities=23%  Similarity=0.237  Sum_probs=19.3

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -+++.|++|+|||+|+..+.+.
T Consensus        22 ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           22 KVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999887764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=93.87  E-value=0.025  Score=45.85  Aligned_cols=23  Identities=35%  Similarity=0.437  Sum_probs=20.4

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .-+++.|++|+|||+++.++.+.
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           24 GEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999999865

>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=93.87  E-value=0.04  Score=45.67  Aligned_cols=21  Identities=19%  Similarity=0.509  Sum_probs=19.0

Q ss_pred             eeEEEcCCCCChHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~  266 (288)
                      -+++.|+||+|||+++.++.+
T Consensus        27 ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           27 KLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             EEEEEEETTSSHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            488999999999999999874

>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=93.85  E-value=0.032  Score=45.76  Aligned_cols=22  Identities=32%  Similarity=0.523  Sum_probs=19.9

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .+++.|++|+|||+|+.++.+.
T Consensus        25 ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           25 KVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            4899999999999999999864

>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=93.85  E-value=0.033  Score=45.54  Aligned_cols=23  Identities=26%  Similarity=0.420  Sum_probs=20.8

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .+++.|++|+|||+|+.++.+.-
T Consensus        25 ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           25 KLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            48999999999999999998765

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=93.84  E-value=0.04  Score=50.16  Aligned_cols=27  Identities=26%  Similarity=0.351  Sum_probs=22.9

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      .+|++|.||+|+|||++|.++... |..
T Consensus       144 g~~vl~~G~sG~GKSt~a~~l~~~-g~~  170 (314)
T 1ko7_A          144 GVGVLITGDSGIGKSETALELIKR-GHR  170 (314)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT-TCE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHhc-CCc
Confidence            468999999999999999999874 443

>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=93.82  E-value=0.036  Score=45.19  Aligned_cols=23  Identities=17%  Similarity=0.249  Sum_probs=20.1

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      ..+++.|++|+|||+|+.++.+.
T Consensus        21 ~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           21 FKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999999753

>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=93.79  E-value=0.036  Score=45.30  Aligned_cols=22  Identities=23%  Similarity=0.351  Sum_probs=19.8

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .+++.|++|+|||+|+.++.+.
T Consensus        24 ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           24 ELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4889999999999999999854

>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=93.77  E-value=0.036  Score=45.32  Aligned_cols=22  Identities=32%  Similarity=0.693  Sum_probs=19.9

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -+++.|++|+|||+|+.++.+.
T Consensus        23 ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           23 KYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            5899999999999999999864

>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=93.77  E-value=0.038  Score=45.55  Aligned_cols=23  Identities=26%  Similarity=0.392  Sum_probs=20.3

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -.+++.|++|+|||+|+.++.+.
T Consensus        29 ~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           29 YKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            45899999999999999999854

>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=93.70  E-value=0.037  Score=45.26  Aligned_cols=22  Identities=23%  Similarity=0.389  Sum_probs=20.1

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .+++.|++|+|||+|+.++.+.
T Consensus        25 ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           25 KIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            4899999999999999999874

>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=93.69  E-value=0.037  Score=45.75  Aligned_cols=23  Identities=35%  Similarity=0.531  Sum_probs=20.2

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      --+++.|+||+|||+|+.++.+.
T Consensus        21 ~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           21 MKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35899999999999999999854

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=93.67  E-value=0.036  Score=52.59  Aligned_cols=21  Identities=38%  Similarity=0.574  Sum_probs=19.5

Q ss_pred             eEEEcCCCCChHHHHHHHHHH
Q 045456          247 YLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~  267 (288)
                      +.|.||+|+|||||+++|++.
T Consensus        45 vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCc
Confidence            678999999999999999976

>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=93.61  E-value=0.035  Score=47.56  Aligned_cols=24  Identities=25%  Similarity=0.296  Sum_probs=20.8

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .-++|.|++|+||||++.++.+..
T Consensus        30 ~~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           30 LRIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTSC
T ss_pred             eEEEEECCCCCCHHHHHHHHcCCC
Confidence            358999999999999999998643

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=93.60  E-value=0.036  Score=45.76  Aligned_cols=23  Identities=26%  Similarity=0.349  Sum_probs=20.4

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      ..+++.|++|+|||+|+.++.+.
T Consensus        25 ~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           25 RKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            34899999999999999999864

>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=93.57  E-value=0.03  Score=45.37  Aligned_cols=24  Identities=17%  Similarity=0.390  Sum_probs=20.7

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHH
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .-.+++.|+||+|||+++.++.+.
T Consensus        18 ~~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           18 ELRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999998753

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=93.55  E-value=0.052  Score=52.32  Aligned_cols=25  Identities=32%  Similarity=0.312  Sum_probs=22.1

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .-+.|.||+|+||||++++|++.+.
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl~~   54 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTALI   54 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCCC
Confidence            4567999999999999999999874

>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=93.51  E-value=0.093  Score=48.52  Aligned_cols=35  Identities=14%  Similarity=0.203  Sum_probs=28.2

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      ...+++.||+|+|||++++.++..+   |..++.++..
T Consensus        35 ~~~~~i~G~~G~GKs~~~~~~~~~~~~~~~~~~~~D~~   72 (392)
T 4ag6_A           35 NSNWTILAKPGAGKSFTAKMLLLREYMQGSRVIIIDPE   72 (392)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEESS
T ss_pred             cCceEEEcCCCCCHHHHHHHHHHHHHHCCCEEEEEeCC
Confidence            3468999999999999999998764   6677777653

>1knx_A Probable HPR(Ser) kinase/phosphatase; HPR kinase, HPR kinase/phosphatase, HPRK/P, P-loop, walker A BOX, catabolite repression; 2.50A {Mycoplasma pneumoniae} SCOP: c.98.2.1 c.91.1.2

Probab=93.51  E-value=0.047  Score=49.64  Aligned_cols=29  Identities=31%  Similarity=0.346  Sum_probs=23.3

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEE
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIY  273 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~  273 (288)
                      .+|+||.||+|+|||++|.++.. -|..++
T Consensus       147 g~gvli~G~sG~GKStlal~l~~-~G~~lv  175 (312)
T 1knx_A          147 GVGVLLTGRSGIGKSECALDLIN-KNHLFV  175 (312)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHT-TTCEEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH-cCCEEE
Confidence            56899999999999999988864 455443

>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=93.46  E-value=0.039  Score=46.16  Aligned_cols=22  Identities=23%  Similarity=0.413  Sum_probs=20.1

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -+++.|++|+|||+|+.++++.
T Consensus        30 ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           30 KIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999999874

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=93.43  E-value=0.039  Score=49.62  Aligned_cols=23  Identities=35%  Similarity=0.563  Sum_probs=20.1

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|+ .+.
T Consensus       167 i~~l~G~sG~GKSTLln~l~-~~~  189 (302)
T 2yv5_A          167 ICILAGPSGVGKSSILSRLT-GEE  189 (302)
T ss_dssp             EEEEECSTTSSHHHHHHHHH-SCC
T ss_pred             EEEEECCCCCCHHHHHHHHH-Hhh
Confidence            36789999999999999999 654

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=93.42  E-value=0.045  Score=46.20  Aligned_cols=24  Identities=42%  Similarity=0.607  Sum_probs=20.9

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+++||.|+|||++..||.-.++-
T Consensus        26 ~~I~G~NgsGKStil~ai~~~l~g   49 (203)
T 3qks_A           26 NLIIGQNGSGKSSLLDAILVGLYW   49 (203)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhcC
Confidence            578999999999999999876654

>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=93.36  E-value=0.047  Score=43.90  Aligned_cols=23  Identities=22%  Similarity=0.469  Sum_probs=20.1

Q ss_pred             cceeEEEcCCCCChHHHHHHHHH
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~  266 (288)
                      ...+++.|++|+|||+++.++.+
T Consensus        18 ~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           18 ELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhc
Confidence            34589999999999999999973

>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP: c.37.1.19

Probab=93.36  E-value=0.069  Score=44.78  Aligned_cols=62  Identities=15%  Similarity=0.128  Sum_probs=33.5

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCc---ccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKV---WKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~---~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .+..+|+++...+++.+.+.+.   -+..+..++...++   -.+.+++.+|+|+|||..+...+-..
T Consensus        11 ~~~~~f~~~~l~~~l~~~l~~~---g~~~~~~~Q~~~i~~~~~~~~~li~~~TGsGKT~~~~~~~~~~   75 (220)
T 1t6n_A           11 IHSSGFRDFLLKPELLRAIVDC---GFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ   75 (220)
T ss_dssp             ---CCSTTSCCCHHHHHHHHHT---TCCCCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccCCCHhhcCCCHHHHHHHHHC---CCCCCCHHHHHHHHHHhCCCCEEEECCCCCchhhhhhHHHHHh
Confidence            3445788888777776666441   01111111110000   12469999999999998765555443

>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein, ATPase, RNA binding protein; 3.00A {Methanocaldococcus jannaschii} SCOP: c.37.1.19 c.37.1.19

Probab=93.36  E-value=0.25  Score=43.96  Aligned_cols=59  Identities=12%  Similarity=0.058  Sum_probs=32.5

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCc----ccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKV----WKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~----~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .+|+++...+...+.+.+.   -+..+.-+++..++    -.+.+++.+|+|+|||..+...+-.+
T Consensus         6 ~~f~~~~l~~~~~~~l~~~---g~~~~~~~Q~~~i~~~~~~~~~~l~~~~TGsGKT~~~~~~~~~~   68 (367)
T 1hv8_A            6 MNFNELNLSDNILNAIRNK---GFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIEL   68 (367)
T ss_dssp             CCGGGSSCCHHHHHHHHHH---TCCSCCHHHHHHHHHHHHTCSEEEEECCSSSSHHHHHHHHHHHH
T ss_pred             CchhhcCCCHHHHHHHHHc---CCCCCCHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHHH
Confidence            4678887777666655431   00011111111111    12578999999999999866554443

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=93.36  E-value=0.04  Score=53.72  Aligned_cols=24  Identities=38%  Similarity=0.508  Sum_probs=21.3

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.|.||+|+|||||+++|++.+.
T Consensus        49 ~~~LvG~NGaGKSTLlk~l~Gl~~   72 (538)
T 1yqt_A           49 VVGIVGPNGTGKSTAVKILAGQLI   72 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            377999999999999999998763

>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=93.30  E-value=0.044  Score=45.79  Aligned_cols=23  Identities=26%  Similarity=0.444  Sum_probs=20.2

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -.+++.|++|+|||+|+.++.+.
T Consensus        27 ~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           27 FKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            35899999999999999998864

>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=93.26  E-value=0.04  Score=44.83  Aligned_cols=24  Identities=29%  Similarity=0.480  Sum_probs=21.1

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHH
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      ..-+++.|+||+|||+++.++++.
T Consensus        16 ~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           16 EVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999999865

>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=93.25  E-value=0.04  Score=44.77  Aligned_cols=23  Identities=13%  Similarity=0.384  Sum_probs=20.7

Q ss_pred             cceeEEEcCCCCChHHHHHHHHH
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~  266 (288)
                      .-.+++.|++|+|||+++.++.+
T Consensus        16 ~~~i~v~G~~~~GKssl~~~l~~   38 (187)
T 1zj6_A           16 EHKVIIVGLDNAGKTTILYQFSM   38 (187)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHhc
Confidence            45799999999999999999984

>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=93.22  E-value=0.047  Score=44.56  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=20.6

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -.+++.|++|+|||+++.++.+.
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35899999999999999999865

>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family; helicase, MCM homolog, DNA replication, ATP-binding, DNA-binding; 1.90A {Methanopyrus kandleri AV19}

Probab=93.19  E-value=0.049  Score=52.45  Aligned_cols=27  Identities=22%  Similarity=0.290  Sum_probs=22.6

Q ss_pred             eeEEEcCCCCChHHHHHHH-HHHhCCcEE
Q 045456          246 GYLLFGPPGTGKSSLIAAM-ANYLKFNIY  273 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~ai-A~~l~~~i~  273 (288)
                      .+||.|+||| ||.+++++ ++.+..-+|
T Consensus       241 hVLL~G~PGt-KS~Lar~i~~~i~pR~~f  268 (506)
T 3f8t_A          241 HVLLAGYPVV-CSEILHHVLDHLAPRGVY  268 (506)
T ss_dssp             CEEEESCHHH-HHHHHHHHHHHTCSSEEE
T ss_pred             eEEEECCCCh-HHHHHHHHHHHhCCCeEE
Confidence            4999999999 99999999 776655444

>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=93.14  E-value=0.053  Score=44.62  Aligned_cols=21  Identities=19%  Similarity=0.400  Sum_probs=19.0

Q ss_pred             eeEEEcCCCCChHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~  266 (288)
                      -+++.|+||+|||+|+.++.+
T Consensus        31 ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           31 RILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             EEEEEESTTSSHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            489999999999999999864

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=93.12  E-value=0.05  Score=52.21  Aligned_cols=23  Identities=35%  Similarity=0.572  Sum_probs=20.3

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -++|+||||+|||+|+..++...
T Consensus       153 ~~~i~G~sGvGKTtL~~~l~~~~  175 (473)
T 1sky_E          153 KIGLFGGAGVGKTVLIQELIHNI  175 (473)
T ss_dssp             EEEEECCSSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCccHHHHHHHhhh
Confidence            38899999999999999888764

>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=93.11  E-value=0.049  Score=45.24  Aligned_cols=23  Identities=17%  Similarity=0.404  Sum_probs=20.5

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      ..+++.|++|+|||+|+.++.+.
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHhcC
Confidence            35899999999999999999864

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=93.11  E-value=0.044  Score=45.04  Aligned_cols=22  Identities=27%  Similarity=0.462  Sum_probs=19.2

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .+++.|++|+|||+|+.++.+.
T Consensus        22 ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           22 KCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999998743

>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=93.10  E-value=0.074  Score=49.21  Aligned_cols=22  Identities=23%  Similarity=0.381  Sum_probs=19.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.|.|+||+|||||..++++..
T Consensus       182 V~lvG~~naGKSTLln~L~~~~  203 (364)
T 2qtf_A          182 IGIVGYTNSGKTSLFNSLTGLT  203 (364)
T ss_dssp             EEEECBTTSSHHHHHHHHHCC-
T ss_pred             EEEECCCCCCHHHHHHHHHCCC
Confidence            7799999999999999998643

>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family, gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 1qva_A

Probab=93.10  E-value=0.071  Score=44.74  Aligned_cols=60  Identities=15%  Similarity=0.180  Sum_probs=32.9

Q ss_pred             CCccccccChhhhHHHHHHH-HHHhh-cHHHHHHhCCcccceeEEEcCCCCChHHH-HHHHHHHh
Q 045456          207 ATFDKIAMDPSMKQASIDDL-DRFVK-RRNFYRRVGKVWKRGYLLFGPPGTGKSSL-IAAMANYL  268 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l-~~~~~-~~~~~~~~g~~~~rg~LL~GPpGtGKTsl-a~aiA~~l  268 (288)
                      .+|+++...+...+.+.+.= ..+.. +.+.+..+  --.+.+++.+|+|+|||.. +.++...+
T Consensus        14 ~~f~~l~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~--~~~~~~lv~~pTGsGKT~~~~~~~l~~l   76 (224)
T 1qde_A           14 YKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPI--IEGHDVLAQAQSGTGKTGTFSIAALQRI   76 (224)
T ss_dssp             CCGGGGTCCHHHHHHHHHHTCCSCCHHHHHHHHHH--HTTCCEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CChhhcCCCHHHHHHHHHCCCCCCcHHHHHHHHHH--hcCCCEEEECCCCCcHHHHHHHHHHHHH
Confidence            57999988777666554310 00000 11111111  1135699999999999987 34444443

>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=93.07  E-value=0.045  Score=45.61  Aligned_cols=22  Identities=23%  Similarity=0.495  Sum_probs=19.7

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .+++.|++|+|||+|+.++.+.
T Consensus        27 ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           27 KLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            5899999999999999999853

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A

Probab=93.07  E-value=0.038  Score=45.72  Aligned_cols=24  Identities=25%  Similarity=0.303  Sum_probs=17.9

Q ss_pred             ceeEEEcCCCCChHHH-HHHHHHHh
Q 045456          245 RGYLLFGPPGTGKSSL-IAAMANYL  268 (288)
Q Consensus       245 rg~LL~GPpGtGKTsl-a~aiA~~l  268 (288)
                      +.+++.+|+|+|||.. +.++...+
T Consensus        39 ~~~li~~~TGsGKT~~~~~~~~~~l   63 (207)
T 2gxq_A           39 KDLIGQARTGTGKTLAFALPIAERL   63 (207)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             CCEEEECCCCChHHHHHHHHHHHHH
Confidence            5699999999999986 34444443

>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=93.05  E-value=0.041  Score=45.51  Aligned_cols=23  Identities=35%  Similarity=0.612  Sum_probs=19.6

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -.+++.|++|+|||+|+.++.+.
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           26 FKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHC-
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            35899999999999999998743

>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=93.05  E-value=0.038  Score=44.75  Aligned_cols=22  Identities=14%  Similarity=0.353  Sum_probs=19.7

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .+++.|++|+|||+|+.++.+.
T Consensus        23 ~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           23 KVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             EEEEEEETTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999999853

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=92.99  E-value=0.11  Score=48.92  Aligned_cols=27  Identities=26%  Similarity=0.581  Sum_probs=22.3

Q ss_pred             cccce--eEEEcCCCCChHHHHHHHHHHh
Q 045456          242 VWKRG--YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +..+|  .+++||||||||+++..||+..
T Consensus       171 PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i  199 (427)
T 3l0o_A          171 PIGKGQRGMIVAPPKAGKTTILKEIANGI  199 (427)
T ss_dssp             CCBTTCEEEEEECTTCCHHHHHHHHHHHH
T ss_pred             cccCCceEEEecCCCCChhHHHHHHHHHH
Confidence            33444  8999999999999999999864

>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=92.96  E-value=0.053  Score=44.83  Aligned_cols=22  Identities=18%  Similarity=0.397  Sum_probs=20.0

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .+++.|++|+|||+|+.++.+.
T Consensus        27 ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           27 KLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999999864

>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=92.95  E-value=0.054  Score=44.90  Aligned_cols=22  Identities=18%  Similarity=0.374  Sum_probs=19.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -+++.|++|+|||+|+.++.+.
T Consensus        31 ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           31 KLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhhC
Confidence            4899999999999999999753

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=92.84  E-value=0.037  Score=49.71  Aligned_cols=22  Identities=32%  Similarity=0.505  Sum_probs=19.1

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .+.|.||+|+|||||+++|++.
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4689999999999999998865

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=92.83  E-value=0.05  Score=53.34  Aligned_cols=23  Identities=26%  Similarity=0.553  Sum_probs=21.3

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.+.||+|+||||++++|++.+.
T Consensus       372 ~~ivG~sGsGKSTll~~l~g~~~  394 (582)
T 3b5x_A          372 VALVGRSGSGKSTIANLFTRFYD  394 (582)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCC
Confidence            77999999999999999998874

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=92.80  E-value=0.058  Score=43.98  Aligned_cols=24  Identities=21%  Similarity=0.354  Sum_probs=20.9

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHH
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      ..-+++.|++|+|||+|+.++.+.
T Consensus        17 ~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           17 KLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            456999999999999999998753

>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=92.78  E-value=0.048  Score=45.68  Aligned_cols=21  Identities=38%  Similarity=0.635  Sum_probs=19.2

Q ss_pred             eeEEEcCCCCChHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~  266 (288)
                      .+++.|++|+|||+|+.++.+
T Consensus        36 ki~vvG~~~vGKSsli~~l~~   56 (214)
T 2j1l_A           36 KVVLVGDGGCGKTSLLMVFAD   56 (214)
T ss_dssp             EEEEEECTTSSHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHc
Confidence            588999999999999999975

>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=92.77  E-value=0.046  Score=45.22  Aligned_cols=21  Identities=33%  Similarity=0.605  Sum_probs=18.9

Q ss_pred             eeEEEcCCCCChHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~  266 (288)
                      -+++.|+||+|||+|+.++++
T Consensus        25 ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           25 KVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            488999999999999999863

>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=92.77  E-value=0.046  Score=46.31  Aligned_cols=23  Identities=30%  Similarity=0.554  Sum_probs=20.0

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        30 ~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           30 KTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            35899999999999999998753

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=92.69  E-value=0.059  Score=44.19  Aligned_cols=22  Identities=27%  Similarity=0.579  Sum_probs=19.1

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .+++.|++|+|||+|+.++.+.
T Consensus        28 ki~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           28 QVIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEEECSTTSSHHHHHHHHCC-
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999998743

>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=92.59  E-value=0.063  Score=44.58  Aligned_cols=23  Identities=17%  Similarity=0.327  Sum_probs=20.0

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -.+++.|++|+|||+++.++.+.
T Consensus        31 ~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           31 IKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHHhC
Confidence            35899999999999999998853

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}

Probab=92.50  E-value=0.061  Score=44.55  Aligned_cols=24  Identities=21%  Similarity=0.412  Sum_probs=20.5

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.+++.+|+|+|||.++...+..+
T Consensus        49 ~~~li~~~tGsGKT~~~~~~~~~~   72 (216)
T 3b6e_A           49 KNIIICLPTGSGKTRVAVYIAKDH   72 (216)
T ss_dssp             CCEEEECSCHHHHHHHHHHHHHHH
T ss_pred             CCEEEEcCCCCCHHHHHHHHHHHH
Confidence            468999999999999988877654

>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=92.49  E-value=0.071  Score=44.74  Aligned_cols=22  Identities=23%  Similarity=0.433  Sum_probs=19.8

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -+++.|++|+|||+|+.++.+.
T Consensus        29 ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           29 KLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            4899999999999999999864

>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=92.48  E-value=0.13  Score=43.63  Aligned_cols=34  Identities=24%  Similarity=0.326  Sum_probs=27.7

Q ss_pred             ce-eEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          245 RG-YLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       245 rg-~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      +| +++|+++|.|||+.|-++|-..   |..++.+..-
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~   65 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFI   65 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEee
Confidence            45 6789999999999999888654   8888888653

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=92.46  E-value=0.05  Score=53.38  Aligned_cols=25  Identities=24%  Similarity=0.582  Sum_probs=22.4

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.+.||+|+||||++++|++.+...
T Consensus       372 ~~ivG~sGsGKSTLl~~l~g~~~p~  396 (582)
T 3b60_A          372 VALVGRSGSGKSTIASLITRFYDID  396 (582)
T ss_dssp             EEEEECTTSSHHHHHHHHTTTTCCS
T ss_pred             EEEECCCCCCHHHHHHHHhhccCCC
Confidence            7899999999999999999987643

>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=92.44  E-value=0.051  Score=44.26  Aligned_cols=23  Identities=22%  Similarity=0.335  Sum_probs=20.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .+++.|++|+|||+|+.++.+..
T Consensus        23 ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           23 HVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             EEEEEECTTSSHHHHHHHTSCGG
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            48999999999999999998654

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=92.41  E-value=0.052  Score=51.32  Aligned_cols=22  Identities=32%  Similarity=0.462  Sum_probs=19.9

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.|.||+|+|||||+.++++..
T Consensus        34 I~lvG~sGaGKSTLln~L~g~~   55 (418)
T 2qag_C           34 LMVVGESGLGKSTLINSLFLTD   55 (418)
T ss_dssp             EEEECCTTSSHHHHHHHHTTCC
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            5899999999999999999754

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=92.35  E-value=0.12  Score=47.25  Aligned_cols=23  Identities=30%  Similarity=0.533  Sum_probs=20.2

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .-+.+.|+||+||||++.++++.
T Consensus       168 ~~v~lvG~~gvGKSTLin~L~~~  190 (357)
T 2e87_A          168 PTVVIAGHPNVGKSTLLKALTTA  190 (357)
T ss_dssp             CEEEEECSTTSSHHHHHHHHCSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            34889999999999999999864

>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=92.33  E-value=0.061  Score=44.26  Aligned_cols=23  Identities=30%  Similarity=0.351  Sum_probs=20.1

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -.+++.|++|+|||+|+..+.+.
T Consensus        21 ~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           21 PRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            35999999999999999988764

>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=92.29  E-value=0.16  Score=48.56  Aligned_cols=21  Identities=38%  Similarity=0.577  Sum_probs=19.7

Q ss_pred             eEEEcCCCCChHHHHHHHHHH
Q 045456          247 YLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~  267 (288)
                      +.+.|+||+|||||..++++.
T Consensus       227 V~ivG~~nvGKSSLln~L~~~  247 (462)
T 3geh_A          227 VAIVGRPNVGKSSLLNAWSQS  247 (462)
T ss_dssp             EEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHhCC
Confidence            889999999999999999875

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=92.28  E-value=0.11  Score=51.31  Aligned_cols=22  Identities=27%  Similarity=0.481  Sum_probs=20.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.+.||+|+||||+.++|++.+
T Consensus        48 iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           48 IAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             EECCCCTTSCHHHHHHHHHSCC
T ss_pred             EEEECCCCChHHHHHHHHhCCC
Confidence            7899999999999999999864

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=92.16  E-value=0.21  Score=52.65  Aligned_cols=56  Identities=16%  Similarity=0.121  Sum_probs=37.4

Q ss_pred             ccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHH------hCCcEEEEecCCC
Q 045456          213 AMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANY------LKFNIYDMELTSV  280 (288)
Q Consensus       213 ~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~------l~~~i~~l~~~~~  280 (288)
                      +|-++..++|.+.+..    .        ...+-+.++||+|.|||+||+.+++.      ....++.++++..
T Consensus       131 VGRe~eLeeL~elL~~----~--------d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~  192 (1221)
T 1vt4_I          131 VSRLQPYLKLRQALLE----L--------RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNC  192 (1221)
T ss_dssp             CCCHHHHHHHHHHHHH----C--------CSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCS
T ss_pred             CCcHHHHHHHHHHHhc----c--------CCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCC
Confidence            5556666666554431    0        11356889999999999999999853      3445777777654

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=92.14  E-value=0.083  Score=48.76  Aligned_cols=22  Identities=45%  Similarity=0.640  Sum_probs=19.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .+++||.|+||||+..||+-.+
T Consensus        26 ~~i~G~NGaGKTTll~ai~~al   47 (365)
T 3qf7_A           26 TVVEGPNGAGKSSLFEAISFAL   47 (365)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999998543

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=92.12  E-value=0.033  Score=45.78  Aligned_cols=23  Identities=26%  Similarity=0.351  Sum_probs=4.6

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -.+++.|++|+|||+|+.++.+.
T Consensus        21 ~~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           21 CKVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEEC-----------------
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35899999999999999998765

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=92.11  E-value=0.058  Score=53.13  Aligned_cols=27  Identities=22%  Similarity=0.644  Sum_probs=23.3

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      .-+.+.||+|+||||++++|++.+...
T Consensus       382 ~~~~ivG~sGsGKSTll~~l~g~~~p~  408 (598)
T 3qf4_B          382 QKVALVGPTGSGKTTIVNLLMRFYDVD  408 (598)
T ss_dssp             CEEEEECCTTSSTTHHHHHHTTSSCCS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCcCCC
Confidence            347899999999999999999987644

>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=92.07  E-value=0.25  Score=45.19  Aligned_cols=37  Identities=22%  Similarity=0.274  Sum_probs=29.0

Q ss_pred             cccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          242 VWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       242 ~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      +.++-++..|.+|+||||++.++|..+   |..+..+++.
T Consensus        24 ~~~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlvD~D   63 (349)
T 3ug7_A           24 DGTKYIMFGGKGGVGKTTMSAATGVYLAEKGLKVVIVSTD   63 (349)
T ss_dssp             CSCEEEEEECSSSTTHHHHHHHHHHHHHHSSCCEEEEECC
T ss_pred             CCCEEEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEEeCC
Confidence            334445667999999999999998775   8888888865

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=92.04  E-value=0.067  Score=52.12  Aligned_cols=23  Identities=26%  Similarity=0.534  Sum_probs=20.9

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +-|.||.|+|||||+++|++.+.
T Consensus       315 ~~i~G~NGsGKSTLlk~l~Gl~~  337 (538)
T 1yqt_A          315 IGIVGPNGIGKTTFVKMLAGVEE  337 (538)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            67999999999999999998764

>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=92.03  E-value=0.073  Score=46.03  Aligned_cols=24  Identities=29%  Similarity=0.339  Sum_probs=20.7

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      ..++|.|+||+||||++.++.+.-
T Consensus        23 ~~I~lvG~~g~GKStl~n~l~~~~   46 (260)
T 2xtp_A           23 LRIILVGKTGTGKSAAGNSILRKQ   46 (260)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCC
Confidence            458999999999999999998643

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=92.00  E-value=0.057  Score=52.64  Aligned_cols=23  Identities=22%  Similarity=0.509  Sum_probs=20.8

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +-|.||.|||||||+++|++.+.
T Consensus       297 ~~i~G~nGsGKSTLl~~l~Gl~~  319 (538)
T 3ozx_A          297 IGILGPNGIGKTTFARILVGEIT  319 (538)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            66899999999999999998764

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=91.95  E-value=0.059  Score=52.56  Aligned_cols=23  Identities=22%  Similarity=0.449  Sum_probs=20.6

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +-|.||.|+||||++++|++.+.
T Consensus        28 ~gLiGpNGaGKSTLlkiL~Gl~~   50 (538)
T 3ozx_A           28 LGVLGKNGVGKTTVLKILAGEII   50 (538)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCCcHHHHHHHHhcCCC
Confidence            56999999999999999998763

>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome segregation, cell adhesion, kleisin, MIT cell cycle; HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.12

Probab=91.94  E-value=0.092  Score=49.31  Aligned_cols=25  Identities=32%  Similarity=0.517  Sum_probs=22.2

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      -..+.||.|+|||++..||+..++.
T Consensus        28 ~~~i~G~nG~GKstll~ai~~~~~~   52 (430)
T 1w1w_A           28 FTSIIGPNGSGKSNMMDAISFVLGV   52 (430)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHHhhhcc
Confidence            4779999999999999999987764

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=91.91  E-value=0.097  Score=44.72  Aligned_cols=21  Identities=19%  Similarity=0.415  Sum_probs=16.9

Q ss_pred             ceeEEEcCCCCChHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMA  265 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA  265 (288)
                      +.+++.||+|||||++...+.
T Consensus        77 ~~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           77 SVVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             SEEEEECCTTSSHHHHHHHHH
T ss_pred             CEEEEEeCCCCCcHHhHHHHH
Confidence            458899999999998665554

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=91.88  E-value=0.054  Score=43.99  Aligned_cols=21  Identities=24%  Similarity=0.433  Sum_probs=18.9

Q ss_pred             ceeEEEcCCCCChHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMA  265 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA  265 (288)
                      -.+++.|++|+|||+++.++.
T Consensus        23 ~~i~v~G~~~~GKssli~~l~   43 (189)
T 2x77_A           23 IRVLMLGLDNAGKTSILYRLH   43 (189)
T ss_dssp             EEEEEEEETTSSHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            359999999999999999985

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=91.83  E-value=0.02  Score=51.90  Aligned_cols=25  Identities=36%  Similarity=0.533  Sum_probs=19.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      -+.|.||||+|||||+.+|+..+..
T Consensus       175 ~~~lvG~sG~GKSTLln~L~g~~~~  199 (307)
T 1t9h_A          175 TTVFAGQSGVGKSSLLNAISPELGL  199 (307)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC----
T ss_pred             EEEEECCCCCCHHHHHHHhcccccc
Confidence            3779999999999999999977643

>3qkt_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATP binding, DNA bindi MRE11, replication; HET: DNA ANP; 1.90A {Pyrococcus furiosus} PDB: 3qku_A* 1ii8_A 3qks_B* 3qkr_B* 1ii8_B

Probab=91.82  E-value=0.081  Score=48.15  Aligned_cols=22  Identities=45%  Similarity=0.640  Sum_probs=19.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .+++||.|+|||++..||.--+
T Consensus        26 ~~i~G~NGsGKS~lleAi~~~l   47 (339)
T 3qkt_A           26 NLIIGQNGSGKSSLLDAILVGL   47 (339)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999986544

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=91.81  E-value=0.16  Score=49.90  Aligned_cols=34  Identities=21%  Similarity=0.349  Sum_probs=27.5

Q ss_pred             cccce--eEEEcCCCCChHHHHHHHHHHhCCcEEEE
Q 045456          242 VWKRG--YLLFGPPGTGKSSLIAAMANYLKFNIYDM  275 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsla~aiA~~l~~~i~~l  275 (288)
                      +..||  ++++||+|||||.++..||+..+.+++.+
T Consensus       228 PigrGqr~~Ifgg~g~GKT~L~~~ia~~~~~~v~V~  263 (600)
T 3vr4_A          228 PVTKGGAAAVPGPFGAGKTVVQHQIAKWSDVDLVVY  263 (600)
T ss_dssp             CCBTTCEEEEECCTTSCHHHHHHHHHHHSSCSEEEE
T ss_pred             CccCCCEEeeecCCCccHHHHHHHHHhccCCCEEEE
Confidence            33444  88999999999999999999887765543

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=91.79  E-value=0.13  Score=49.63  Aligned_cols=33  Identities=27%  Similarity=0.380  Sum_probs=27.0

Q ss_pred             cccce--eEEEcCCCCChHHH-HHHHHHHhCCcEEE
Q 045456          242 VWKRG--YLLFGPPGTGKSSL-IAAMANYLKFNIYD  274 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsl-a~aiA~~l~~~i~~  274 (288)
                      |..||  .+++|++|||||++ ...|++..+.+++.
T Consensus       158 PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~~~dv~~  193 (502)
T 2qe7_A          158 PIGRGQRELIIGDRQTGKTTIAIDTIINQKGQDVIC  193 (502)
T ss_dssp             CCBTTCBCEEEECSSSCHHHHHHHHHHGGGSCSEEE
T ss_pred             ccccCCEEEEECCCCCCchHHHHHHHHHhhcCCcEE
Confidence            44455  89999999999999 57999999888543

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19

Probab=91.76  E-value=0.27  Score=40.42  Aligned_cols=18  Identities=39%  Similarity=0.392  Sum_probs=15.2

Q ss_pred             ceeEEEcCCCCChHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIA  262 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~  262 (288)
                      +.+++.+|+|+|||..+.
T Consensus        41 ~~~lv~apTGsGKT~~~~   58 (206)
T 1vec_A           41 RDILARAKNGTGKSGAYL   58 (206)
T ss_dssp             CCEEEECCSSSTTHHHHH
T ss_pred             CCEEEECCCCCchHHHHH
Confidence            579999999999997544

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=91.73  E-value=0.22  Score=43.48  Aligned_cols=23  Identities=30%  Similarity=0.444  Sum_probs=20.3

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -.+++.|++|+||||++.++.+.
T Consensus        40 ~~I~vvG~~g~GKSSLin~l~~~   62 (270)
T 1h65_A           40 LTILVMGKGGVGKSSTVNSIIGE   62 (270)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            35889999999999999999864

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=91.69  E-value=0.068  Score=45.41  Aligned_cols=54  Identities=9%  Similarity=0.068  Sum_probs=29.9

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCC---cccceeEEEcCCCCChHHHHH
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGK---VWKRGYLLFGPPGTGKSSLIA  262 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~---~~~rg~LL~GPpGtGKTsla~  262 (288)
                      ..+|+++...+...+.+.+.   -...+.-++...+   --.+.+++.+|+|+|||..+.
T Consensus        24 ~~~f~~~~l~~~l~~~l~~~---~~~~~~~~Q~~~i~~~~~~~~~li~a~TGsGKT~~~~   80 (236)
T 2pl3_A           24 ITRFSDFPLSKKTLKGLQEA---QYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFL   80 (236)
T ss_dssp             CSBGGGSCCCHHHHHHHHHT---TCCBCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHH
T ss_pred             cCCHhhcCCCHHHHHHHHHC---CCCCCCHHHHHHHHHHhCCCCEEEEeCCCCcHHHHHH
Confidence            34788888777666655431   0011111111000   013569999999999998643

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=91.62  E-value=0.079  Score=52.48  Aligned_cols=23  Identities=35%  Similarity=0.443  Sum_probs=20.8

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +-|.||+|+||||+.++|++.+.
T Consensus       106 ~~LvGpNGaGKSTLLkiL~Gll~  128 (608)
T 3j16_B          106 LGLVGTNGIGKSTALKILAGKQK  128 (608)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCChHHHHHHHHhcCCC
Confidence            66999999999999999998764

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=91.58  E-value=0.076  Score=52.55  Aligned_cols=23  Identities=26%  Similarity=0.534  Sum_probs=20.9

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||.|+|||||+++|++.+.
T Consensus       385 ~~i~G~NGsGKSTLlk~l~Gl~~  407 (607)
T 3bk7_A          385 IGIVGPNGIGKTTFVKMLAGVEE  407 (607)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCCC
Confidence            67999999999999999998764

>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=91.56  E-value=0.16  Score=47.48  Aligned_cols=34  Identities=29%  Similarity=0.301  Sum_probs=26.7

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEec
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMEL  277 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  277 (288)
                      ..++++.||+|+|||+++..+...+   |..++.++.
T Consensus        53 ~~h~~i~G~tGsGKs~~~~~li~~~~~~g~~viv~Dp   89 (437)
T 1e9r_A           53 PRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDP   89 (437)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEE
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeC
Confidence            4579999999999999987666543   677777765

>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=91.51  E-value=0.1  Score=44.17  Aligned_cols=21  Identities=38%  Similarity=0.591  Sum_probs=19.0

Q ss_pred             eeEEEcCCCCChHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~  266 (288)
                      -++|.|+||+|||+|+..+.+
T Consensus        39 kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           39 RVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            488999999999999999874

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=91.45  E-value=0.082  Score=52.33  Aligned_cols=23  Identities=35%  Similarity=0.567  Sum_probs=20.9

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||+|+|||||+++|++.+.
T Consensus       120 ~~LiG~NGsGKSTLlkiL~Gll~  142 (607)
T 3bk7_A          120 VGIVGPNGTGKTTAVKILAGQLI  142 (607)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCChHHHHHHHHhCCCC
Confidence            77999999999999999998763

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=91.29  E-value=0.048  Score=53.45  Aligned_cols=25  Identities=28%  Similarity=0.523  Sum_probs=22.3

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +.+.||+|+||||++++|++.+...
T Consensus       370 ~~ivG~sGsGKSTll~~l~g~~~p~  394 (578)
T 4a82_A          370 VAFVGMSGGGKSTLINLIPRFYDVT  394 (578)
T ss_dssp             EEEECSTTSSHHHHHTTTTTSSCCS
T ss_pred             EEEECCCCChHHHHHHHHhcCCCCC
Confidence            7799999999999999999987643

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=91.28  E-value=0.092  Score=50.02  Aligned_cols=23  Identities=35%  Similarity=0.550  Sum_probs=19.2

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      +-.++.||||||||+++..+++.
T Consensus       162 ~v~~I~G~aGsGKTt~I~~~~~~  184 (446)
T 3vkw_A          162 KVVLVDGVPGCGKTKEILSRVNF  184 (446)
T ss_dssp             EEEEEEECTTSCHHHHHHHHCCT
T ss_pred             cEEEEEcCCCCCHHHHHHHHhcc
Confidence            34678999999999999887753

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=91.27  E-value=0.1  Score=51.74  Aligned_cols=23  Identities=43%  Similarity=0.729  Sum_probs=21.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      +.|.||.|+|||||+++|++.+.
T Consensus       381 v~iiG~NGsGKSTLlk~l~Gl~~  403 (608)
T 3j16_B          381 LVMMGENGTGKTTLIKLLAGALK  403 (608)
T ss_dssp             EEEESCTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCCcHHHHHHHHhcCCC
Confidence            67999999999999999998763

>2o5v_A DNA replication and repair protein RECF; ABC ATPase, walker A motif, P-loop, signature motif, replication/recombination complex; HET: DNA; 1.61A {Deinococcus radiodurans}

Probab=91.24  E-value=0.11  Score=48.13  Aligned_cols=25  Identities=28%  Similarity=0.498  Sum_probs=20.5

Q ss_pred             ccce-eEEEcCCCCChHHHHHHHHHH
Q 045456          243 WKRG-YLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       243 ~~rg-~LL~GPpGtGKTsla~aiA~~  267 (288)
                      ...| ..|+||.|+|||++..||+..
T Consensus        24 ~~~g~~~i~G~nG~GKttll~ai~~~   49 (359)
T 2o5v_A           24 FPEGVTGIYGENGAGKTNLLEAAYLA   49 (359)
T ss_dssp             CCSEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EcCCeEEEECCCCCChhHHHHHHHHh
Confidence            3445 568999999999999999863

>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX, structural genomics, helic binding, HOST-virus interaction, hydrolase; 1.85A {Homo sapiens} PDB: 2g9n_A*

Probab=91.19  E-value=0.058  Score=46.10  Aligned_cols=54  Identities=15%  Similarity=0.214  Sum_probs=30.4

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCC---cccceeEEEcCCCCChHHHHH
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGK---VWKRGYLLFGPPGTGKSSLIA  262 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~---~~~rg~LL~GPpGtGKTsla~  262 (288)
                      ..+|+++...+.+.+.+.+. .  +..+..++...+   --.+.+++.+|+|+|||..+.
T Consensus        29 ~~~f~~l~l~~~l~~~l~~~-g--~~~~~~~Q~~ai~~i~~~~~~li~apTGsGKT~~~~   85 (237)
T 3bor_A           29 VDNFDDMNLKESLLRGIYAY-G--FEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFA   85 (237)
T ss_dssp             CCSGGGSCCCHHHHHHHHHH-T--CCSCCHHHHHHHHHHHTTCCEEECCCSSHHHHHHHH
T ss_pred             cCChhhcCCCHHHHHHHHHC-C--CCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHH
Confidence            35799998777666655331 0  111111111000   013468999999999997643

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=91.17  E-value=0.17  Score=44.43  Aligned_cols=22  Identities=23%  Similarity=0.359  Sum_probs=19.9

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -+.+.|+||+||||++.++.+.
T Consensus        28 ~i~vvG~~~~GKSSLln~l~g~   49 (299)
T 2aka_B           28 QIAVVGGQSAGKSSVLENFVGR   49 (299)
T ss_dssp             EEEEEEBTTSCHHHHHHHHHTS
T ss_pred             eEEEEeCCCCCHHHHHHHHHCC
Confidence            4889999999999999999865

>3lfu_A DNA helicase II; SF1 helicase, ATP-binding, DNA damage, DNA REP replication, DNA-binding, hydrolase, nucleotide-B SOS response; HET: DNA; 1.80A {Escherichia coli} PDB: 2is6_A* 2is2_A* 2is1_A* 2is4_A*

Probab=91.17  E-value=0.12  Score=50.61  Aligned_cols=35  Identities=20%  Similarity=0.509  Sum_probs=23.0

Q ss_pred             cceeEEEcCCCCChHHHHHH-HHHHh---C---CcEEEEecC
Q 045456          244 KRGYLLFGPPGTGKSSLIAA-MANYL---K---FNIYDMELT  278 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~a-iA~~l---~---~~i~~l~~~  278 (288)
                      ...+++.||||||||+++.. ++..+   +   ..++.+..+
T Consensus        22 ~~~~lV~a~aGsGKT~~l~~ri~~l~~~~~~~~~~iL~ltft   63 (647)
T 3lfu_A           22 RSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFT   63 (647)
T ss_dssp             SSCEEEEECTTSCHHHHHHHHHHHHHHTSCCCGGGEEEEESS
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHhCCCChhhEEEEecc
Confidence            34588999999999997544 44433   2   246666544

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=91.16  E-value=0.24  Score=50.26  Aligned_cols=60  Identities=17%  Similarity=0.221  Sum_probs=34.2

Q ss_pred             CCccccccChhhhHHHHHHHHHHh--hcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFV--KRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~--~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .+|+++...+...+.+.+.-..+.  ....+...+  .-.+.+++.||+|+|||+++..++...
T Consensus        72 ~~f~~~~l~~~~~~~l~~r~~lP~~~q~~~i~~~l--~~~~~vii~gpTGSGKTtllp~ll~~~  133 (773)
T 2xau_A           72 NPFTGREFTPKYVDILKIRRELPVHAQRDEFLKLY--QNNQIMVFVGETGSGKTTQIPQFVLFD  133 (773)
T ss_dssp             CTTTCSBCCHHHHHHHHHHTTSGGGGGHHHHHHHH--HHCSEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCccccCCCHHHHHHHHHhhcCChHHHHHHHHHHH--hCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            368888777766555443222121  111222111  112358899999999999777775543

>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=91.12  E-value=0.1  Score=49.24  Aligned_cols=23  Identities=35%  Similarity=0.494  Sum_probs=20.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -+.|.|+||+|||||+.++++..
T Consensus       182 kvaivG~~gvGKSTLln~l~g~~  204 (439)
T 1mky_A          182 KVAIVGRPNVGKSTLFNAILNKE  204 (439)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTST
T ss_pred             eEEEECCCCCCHHHHHHHHhCCc
Confidence            47899999999999999998764

>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 3j0j_A* 1um2_C

Probab=91.04  E-value=0.17  Score=49.52  Aligned_cols=34  Identities=24%  Similarity=0.301  Sum_probs=27.5

Q ss_pred             cccce--eEEEcCCCCChHHHHHHHHHHhCCcEEEE
Q 045456          242 VWKRG--YLLFGPPGTGKSSLIAAMANYLKFNIYDM  275 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsla~aiA~~l~~~i~~l  275 (288)
                      +..||  ++++||+|||||.++..||+..+.+++.+
T Consensus       217 PigrGqr~~Ifg~~g~GKT~l~~~ia~~~~~~v~V~  252 (578)
T 3gqb_A          217 PVAMGGTAAIPGPFGSGKSVTQQSLAKWSNADVVVY  252 (578)
T ss_dssp             CEETTCEEEECCCTTSCHHHHHHHHHHHSSCSEEEE
T ss_pred             cccCCCEEeeeCCCCccHHHHHHHHHhccCCCEEEE
Confidence            34444  88999999999999999999887765543

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=91.04  E-value=0.23  Score=42.01  Aligned_cols=32  Identities=19%  Similarity=0.396  Sum_probs=25.5

Q ss_pred             eeEEEcCCCCChH-HHHHHHHHHh--CCcEEEEec
Q 045456          246 GYLLFGPPGTGKS-SLIAAMANYL--KFNIYDMEL  277 (288)
Q Consensus       246 g~LL~GPpGtGKT-sla~aiA~~l--~~~i~~l~~  277 (288)
                      =+++|||.|+||| .|.+++.++.  +..++.+..
T Consensus        22 l~fiyG~MgsGKTt~Ll~~i~n~~~~~~kvl~~kp   56 (195)
T 1w4r_A           22 IQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKY   56 (195)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEcc
Confidence            3678999999999 8889888764  667777763

>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=91.03  E-value=0.12  Score=49.52  Aligned_cols=21  Identities=29%  Similarity=0.570  Sum_probs=18.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHH
Q 045456          247 YLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~  267 (288)
                      +.+.|+||+|||||..++++.
T Consensus       236 V~ivG~~nvGKSSLln~L~~~  256 (476)
T 3gee_A          236 TVIAGKPNAGKSTLLNTLLGQ  256 (476)
T ss_dssp             EEEECCTTSSHHHHHHHCC--
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            889999999999999998765

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=91.01  E-value=0.12  Score=49.97  Aligned_cols=33  Identities=30%  Similarity=0.443  Sum_probs=26.7

Q ss_pred             cccce--eEEEcCCCCChHHH-HHHHHHHhCCcEEE
Q 045456          242 VWKRG--YLLFGPPGTGKSSL-IAAMANYLKFNIYD  274 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsl-a~aiA~~l~~~i~~  274 (288)
                      |..||  .+++|++|||||++ ...|++..+.+++.
T Consensus       171 PigrGQR~~I~g~~g~GKT~Lal~~I~~~~~~dv~~  206 (515)
T 2r9v_A          171 PIGRGQRELIIGDRQTGKTAIAIDTIINQKGQGVYC  206 (515)
T ss_dssp             CEETTCBEEEEEETTSSHHHHHHHHHHTTTTTTEEE
T ss_pred             ccccCCEEEEEcCCCCCccHHHHHHHHHhhcCCcEE
Confidence            34445  89999999999999 57999998888543

>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase, mRNA-export, nuclear pore, hydrolase-RNA complex; HET: ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A* 3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A 3pev_A* 3peu_A*

Probab=91.01  E-value=0.2  Score=45.14  Aligned_cols=58  Identities=14%  Similarity=0.181  Sum_probs=31.3

Q ss_pred             CCccccccChhhhHHHHHHH-HHHh-hcHHHHHHhCCcccceeEEEcCCCCChHHHHHHH
Q 045456          207 ATFDKIAMDPSMKQASIDDL-DRFV-KRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAM  264 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l-~~~~-~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~ai  264 (288)
                      .+|+++...++..+.+.+.= ..+. -+.+.+..+-...++.+++.+|+|+|||..+...
T Consensus         5 ~~f~~~~l~~~l~~~l~~~~~~~~~~~Q~~~i~~~~~~~~~~~lv~a~TGsGKT~~~~~~   64 (395)
T 3pey_A            5 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT   64 (395)
T ss_dssp             CSSTTSCCCHHHHHHHHHTTCCSCCHHHHHHHHHHHCSSCCCEEEECCTTSCHHHHHHHH
T ss_pred             cCHhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHH
Confidence            47788877776666554310 0000 0111112111112367999999999999865433

>1e69_A Chromosome segregation SMC protein; structural maintenance of chromosomes, coiled coil; 3.1A {Thermotoga maritima} SCOP: c.37.1.12

Probab=90.95  E-value=0.11  Score=46.90  Aligned_cols=23  Identities=35%  Similarity=0.599  Sum_probs=20.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      ..|+||.|+|||+++.||.-.+|
T Consensus        27 ~~i~G~NGsGKS~ll~ai~~llg   49 (322)
T 1e69_A           27 TAIVGPNGSGKSNIIDAIKWVFG   49 (322)
T ss_dssp             EEEECCTTTCSTHHHHHHHHTSC
T ss_pred             EEEECCCCCcHHHHHHHHHHHhC
Confidence            56899999999999999996653

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=90.87  E-value=0.043  Score=50.93  Aligned_cols=28  Identities=29%  Similarity=0.415  Sum_probs=23.1

Q ss_pred             cccce-eEEEcCCCCChHHHHHHHHHHhC
Q 045456          242 VWKRG-YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       242 ~~~rg-~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      ....| ..|+||.|+|||++.++|+..++
T Consensus        57 ~~~~G~~~lvG~NGaGKStLl~aI~~l~~   85 (415)
T 4aby_A           57 ELGGGFCAFTGETGAGKSIIVDALGLLLG   85 (415)
T ss_dssp             ECCSSEEEEEESHHHHHHHHTHHHHHHTT
T ss_pred             ecCCCcEEEECCCCCCHHHHHHHHHHHhC
Confidence            34444 56899999999999999988876

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=90.77  E-value=0.31  Score=43.30  Aligned_cols=23  Identities=39%  Similarity=0.553  Sum_probs=20.0

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -+++.|.||+||||++.++.+.-
T Consensus       122 ~v~~vG~~nvGKSsliN~l~~~~  144 (282)
T 1puj_A          122 RALIIGIPNVGKSTLINRLAKKN  144 (282)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSC
T ss_pred             eEEEEecCCCchHHHHHHHhcCc
Confidence            48899999999999999998643

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=90.70  E-value=0.069  Score=52.49  Aligned_cols=26  Identities=23%  Similarity=0.429  Sum_probs=22.8

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      -+.+.||+|+||||++++|++.+...
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~~~~  396 (587)
T 3qf4_A          371 LVAVLGETGSGKSTLMNLIPRLIDPE  396 (587)
T ss_dssp             EEEEECSSSSSHHHHHHTTTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCccCC
Confidence            37799999999999999999987643

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=90.53  E-value=0.13  Score=50.46  Aligned_cols=34  Identities=21%  Similarity=0.331  Sum_probs=27.4

Q ss_pred             cccce--eEEEcCCCCChHHHHHHHHHHhCCcEEEE
Q 045456          242 VWKRG--YLLFGPPGTGKSSLIAAMANYLKFNIYDM  275 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsla~aiA~~l~~~i~~l  275 (288)
                      +..+|  .++.||+|||||.++..||+..+.+++.+
T Consensus       223 PigkGqr~~I~g~~g~GKT~L~~~ia~~~~~~~~V~  258 (588)
T 3mfy_A          223 PQAKGGTAAIPGPAGSGKTVTQHQLAKWSDAQVVIY  258 (588)
T ss_dssp             CEETTCEEEECSCCSHHHHHHHHHHHHHSSCSEEEE
T ss_pred             CcccCCeEEeecCCCCCHHHHHHHHHhccCCCEEEE
Confidence            33444  89999999999999999999877765543

>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=89.94  E-value=0.049  Score=44.98  Aligned_cols=21  Identities=19%  Similarity=0.419  Sum_probs=18.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~  266 (288)
                      .+++.|+||+|||+|+.++.+
T Consensus        32 ki~v~G~~~~GKSsli~~l~~   52 (204)
T 3th5_A           32 KCVVVGDGAVGKTCLLISYTT   52 (204)
Confidence            488999999999999988764

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=90.42  E-value=0.13  Score=49.77  Aligned_cols=32  Identities=28%  Similarity=0.372  Sum_probs=25.9

Q ss_pred             cccce--eEEEcCCCCChHHH-HHHHHHHhCCcEE
Q 045456          242 VWKRG--YLLFGPPGTGKSSL-IAAMANYLKFNIY  273 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsl-a~aiA~~l~~~i~  273 (288)
                      |..||  .+++|++|||||++ ...|++..+.+++
T Consensus       159 PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~~~dv~  193 (507)
T 1fx0_A          159 PVGRGQRELIIGDRQTGKTAVATDTILNQQGQNVI  193 (507)
T ss_dssp             CCBTTCBCBEEESSSSSHHHHHHHHHHTCCTTTCE
T ss_pred             ccccCCEEEEecCCCCCccHHHHHHHHHhhcCCcE
Confidence            34445  89999999999999 5799998887744

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=90.38  E-value=0.14  Score=48.04  Aligned_cols=20  Identities=30%  Similarity=0.517  Sum_probs=19.0

Q ss_pred             eEEEcCCCCChHHHHHHHHH
Q 045456          247 YLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~  266 (288)
                      +.|.||||+|||||..+|++
T Consensus        23 vgiVG~pnaGKSTL~n~Ltg   42 (392)
T 1ni3_A           23 TGIVGMPNVGKSTFFRAITK   42 (392)
T ss_dssp             EEEEECSSSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHC
Confidence            77899999999999999998

>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 1xtj_A* 1xtk_A

Probab=90.27  E-value=0.22  Score=45.03  Aligned_cols=58  Identities=14%  Similarity=0.181  Sum_probs=31.7

Q ss_pred             CCccccccChhhhHHHHHHH-HHHhh-cHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHH
Q 045456          207 ATFDKIAMDPSMKQASIDDL-DRFVK-RRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l-~~~~~-~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~  266 (288)
                      .+|+++...+...+.+.+.= ..+.. +.+.+..+-  ..+.+++.+|+|+|||..+...+-
T Consensus         8 ~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~--~~~~~lv~a~TGsGKT~~~~~~~~   67 (391)
T 1xti_A            8 SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAI--LGMDVLCQAKSGMGKTAVFVLATL   67 (391)
T ss_dssp             -CGGGGCCCHHHHHHHHHHSCCSCCHHHHHHHHHHT--TTCCEEEECSSCSSHHHHHHHHHH
T ss_pred             CChhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHh--cCCcEEEECCCCCcHHHHHHHHHH
Confidence            46888887777666554410 00000 111111111  135699999999999987644443

>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=90.25  E-value=0.35  Score=42.58  Aligned_cols=35  Identities=20%  Similarity=0.338  Sum_probs=28.3

Q ss_pred             cceeEEEcC-CCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          244 KRGYLLFGP-PGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       244 ~rg~LL~GP-pGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      .+-+++.|+ ||+|||+++..+|..+   |..+..|++.
T Consensus        82 ~kvI~vts~kgG~GKTt~a~nLA~~lA~~G~rVLLID~D  120 (271)
T 3bfv_A           82 VQSIVITSEAPGAGKSTIAANLAVAYAQAGYKTLIVDGD  120 (271)
T ss_dssp             CCEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CeEEEEECCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCC
Confidence            456778877 8999999988888765   7888888875

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=90.19  E-value=0.38  Score=41.73  Aligned_cols=24  Identities=29%  Similarity=0.415  Sum_probs=20.9

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -.+++.|++|+||||++.++.+.-
T Consensus        37 ~~I~lvG~~g~GKSSLin~l~~~~   60 (262)
T 3def_A           37 MTVLVLGKGGVGKSSTVNSLIGEQ   60 (262)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            458999999999999999998643

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=90.09  E-value=0.15  Score=50.85  Aligned_cols=56  Identities=13%  Similarity=0.263  Sum_probs=32.2

Q ss_pred             CCCccccccChhhhHHHHHH-HHHHhh-cHHHHHHhCCcccceeEEEcCCCCChHHHHH
Q 045456          206 PATFDKIAMDPSMKQASIDD-LDRFVK-RRNFYRRVGKVWKRGYLLFGPPGTGKSSLIA  262 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~-l~~~~~-~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~  262 (288)
                      +.+|+++..++..++.+.+. +..+.. +.+.+.. ++.-.+.+++.||+|+|||+.+.
T Consensus         7 ~~~~~~l~l~~~~~~~l~~~g~~~l~~~Q~~~i~~-~~~~~~~~lv~apTGsGKT~~~~   64 (715)
T 2va8_A            7 WMPIEDLKLPSNVIEIIKKRGIKKLNPPQTEAVKK-GLLEGNRLLLTSPTGSGKTLIAE   64 (715)
T ss_dssp             CCBGGGSSSCHHHHHHHHTTSCCBCCHHHHHHHHT-TTTTTCCEEEECCTTSCHHHHHH
T ss_pred             cCcHHHcCCCHHHHHHHHhCCCCCCCHHHHHHHHH-HhcCCCcEEEEcCCCCcHHHHHH
Confidence            35788888777666554331 000000 1222222 12235679999999999999873

>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding, RNA binding protein; 2.10A {Saccharomyces cerevisiae} SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A

Probab=90.07  E-value=0.51  Score=42.81  Aligned_cols=59  Identities=14%  Similarity=0.192  Sum_probs=31.1

Q ss_pred             CCCCccccccChhhhHHHHHH-HHHHhh-cHHHHHHhCCcccceeEEEcCCCCChHHHHHHHH
Q 045456          205 HPATFDKIAMDPSMKQASIDD-LDRFVK-RRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMA  265 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~-l~~~~~-~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA  265 (288)
                      ...+|+++...+++.+.+.+. +..+.. +.+.+..+  --.+.+++.+|+|+|||..+...+
T Consensus        19 ~~~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~i--~~~~~~li~a~TGsGKT~~~~~~~   79 (400)
T 1s2m_A           19 KGNTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVA--ITGRDILARAKNGTGKTAAFVIPT   79 (400)
T ss_dssp             --CCGGGGCCCHHHHHHHHHTTCCSCCHHHHHHHHHH--HHTCCEEEECCTTSCHHHHHHHHH
T ss_pred             ccCChhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHH--hcCCCEEEECCCCcHHHHHHHHHH
Confidence            345789988877666665431 000000 01111111  013568999999999998654433

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=89.99  E-value=0.058  Score=45.04  Aligned_cols=23  Identities=26%  Similarity=0.359  Sum_probs=20.4

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .-+++.|++|+|||+|+.++.+.
T Consensus        30 ~~i~v~G~~~~GKSslin~l~~~   52 (223)
T 4dhe_A           30 PEIAFAGRSNAGKSTAINVLCNQ   52 (223)
T ss_dssp             CEEEEEESCHHHHHHHHHHHTTC
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCC
Confidence            35889999999999999999865

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=89.99  E-value=0.52  Score=42.06  Aligned_cols=36  Identities=14%  Similarity=0.299  Sum_probs=28.5

Q ss_pred             cceeEEEcC-CCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          244 KRGYLLFGP-PGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       244 ~rg~LL~GP-pGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      .+-+++.|+ ||+|||+++..+|..+   |..+..|++.-
T Consensus       104 ~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLID~D~  143 (299)
T 3cio_A          104 NNILMITGATPDSGKTFVSSTLAAVIAQSDQKVLFIDADL  143 (299)
T ss_dssp             CCEEEEEESSSSSCHHHHHHHHHHHHHHTTCCEEEEECCT
T ss_pred             CeEEEEECCCCCCChHHHHHHHHHHHHhCCCcEEEEECCC
Confidence            456888887 8999999988888665   78888887653

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=89.93  E-value=0.15  Score=53.07  Aligned_cols=20  Identities=55%  Similarity=0.921  Sum_probs=18.9

Q ss_pred             eEEEcCCCCChHHHHHHHHH
Q 045456          247 YLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~  266 (288)
                      +.|.||.|+|||||+++|++
T Consensus       464 v~LiGpNGsGKSTLLk~Lag  483 (986)
T 2iw3_A          464 YGICGPNGCGKSTLMRAIAN  483 (986)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            78999999999999999995

>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=89.81  E-value=0.32  Score=42.07  Aligned_cols=34  Identities=18%  Similarity=0.207  Sum_probs=26.2

Q ss_pred             ceeEEE-cCCCCChHHHHHHHHHHh--CCcEEEEecC
Q 045456          245 RGYLLF-GPPGTGKSSLIAAMANYL--KFNIYDMELT  278 (288)
Q Consensus       245 rg~LL~-GPpGtGKTsla~aiA~~l--~~~i~~l~~~  278 (288)
                      +-+.++ +-.|+|||+++..+|..+  |..+..+++.
T Consensus        28 ~vI~v~s~kGGvGKTT~a~~LA~~la~g~~VlliD~D   64 (267)
T 3k9g_A           28 KIITIASIKGGVGKSTSAIILATLLSKNNKVLLIDMD   64 (267)
T ss_dssp             EEEEECCSSSSSCHHHHHHHHHHHHTTTSCEEEEEEC
T ss_pred             eEEEEEeCCCCchHHHHHHHHHHHHHCCCCEEEEECC
Confidence            345554 569999999999888877  6778777765

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=89.76  E-value=0.23  Score=47.63  Aligned_cols=29  Identities=17%  Similarity=0.300  Sum_probs=24.2

Q ss_pred             cccce--eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          242 VWKRG--YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      +..||  ++++|++|+|||+|+..||+....
T Consensus       148 pigrGQr~~Ifgg~G~GKt~Ll~~Ia~~~~~  178 (469)
T 2c61_A          148 TLVRGQKLPIFSASGLPHNEIALQIARQASV  178 (469)
T ss_dssp             CCBTTCBCCEEECTTSCHHHHHHHHHHHCBC
T ss_pred             ccccCCEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            33444  778899999999999999998865

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=89.75  E-value=0.15  Score=44.77  Aligned_cols=23  Identities=35%  Similarity=0.554  Sum_probs=20.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -+++.|+||+||||++.++++..
T Consensus       101 ~v~~vG~~~vGKSslin~l~~~~  123 (262)
T 3cnl_A          101 RVLIVGVPNTGKSTIINKLKGKR  123 (262)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTTC
T ss_pred             heEEeCCCCCCHHHHHHHHhccc
Confidence            58899999999999999998654

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}

Probab=89.67  E-value=0.42  Score=46.41  Aligned_cols=24  Identities=25%  Similarity=0.295  Sum_probs=20.5

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.+|+.+|+|+|||..+.+++..+
T Consensus       199 ~~~ll~~~TGsGKT~~~~~~~~~l  222 (590)
T 3h1t_A          199 KRSLITMATGTGKTVVAFQISWKL  222 (590)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CceEEEecCCCChHHHHHHHHHHH
Confidence            568999999999999988887664

>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD; ATP-binding, hydrolase, nucleotide-binding, RNA binding protein, structural genomics; 1.90A {Sulfolobus tokodaii}

Probab=89.54  E-value=0.34  Score=42.62  Aligned_cols=33  Identities=15%  Similarity=0.138  Sum_probs=25.6

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCcEEEEec
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFNIYDMEL  277 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  277 (288)
                      +.+++.+|+|+|||..+...+-+.+..++.+..
T Consensus        32 ~~~lv~~~TGsGKT~~~~~~~~~~~~~~liv~P   64 (337)
T 2z0m_A           32 KNVVVRAKTGSGKTAAYAIPILELGMKSLVVTP   64 (337)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHTCCEEEECS
T ss_pred             CCEEEEcCCCCcHHHHHHHHHHhhcCCEEEEeC
Confidence            469999999999999877777666766665543

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=89.50  E-value=0.13  Score=47.30  Aligned_cols=22  Identities=32%  Similarity=0.505  Sum_probs=19.1

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .+++.|++|+|||||+.+|.+.
T Consensus        39 ~I~vvG~~g~GKSTLln~L~~~   60 (361)
T 2qag_A           39 TLMVVGESGLGKSTLINSLFLT   60 (361)
T ss_dssp             CEEECCCTTSCHHHHHHHHTTC
T ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Confidence            4789999999999999998643

>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=89.40  E-value=0.5  Score=41.71  Aligned_cols=22  Identities=18%  Similarity=0.379  Sum_probs=19.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .+++.|+||+|||+++..+.+.
T Consensus       157 ~i~i~G~~~~GKssli~~~~~~  178 (332)
T 2wkq_A          157 KCVVVGDGAVGKTCLLISYTTN  178 (332)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCChHHHHHHHHhC
Confidence            4899999999999999888753

>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural genomics, structural genomics consortium, SGC, hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*

Probab=89.22  E-value=0.22  Score=42.19  Aligned_cols=60  Identities=13%  Similarity=0.202  Sum_probs=32.0

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCC---cccceeEEEcCCCCChHHHH-HHHHHH
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGK---VWKRGYLLFGPPGTGKSSLI-AAMANY  267 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~---~~~rg~LL~GPpGtGKTsla-~aiA~~  267 (288)
                      ...+|+++...+...+.+.+. .  +..+.-++...+   --.+.+++.+|+|+|||..+ ..+...
T Consensus        22 ~~~~f~~l~l~~~l~~~l~~~-g--~~~~~~~Q~~~i~~~~~~~~~l~~a~TGsGKT~~~~l~~l~~   85 (230)
T 2oxc_A           22 EPADFESLLLSRPVLEGLRAA-G--FERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDS   85 (230)
T ss_dssp             --CCGGGGTCCHHHHHHHHHT-T--CCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCHhhcCCCHHHHHHHHHC-C--CCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHH
Confidence            345799988777666655431 0  111111111111   01356999999999999863 333343

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=89.13  E-value=0.78  Score=38.18  Aligned_cols=18  Identities=22%  Similarity=0.239  Sum_probs=15.2

Q ss_pred             ceeEEEcCCCCChHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIA  262 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~  262 (288)
                      +.+++.+|+|+|||..+.
T Consensus        42 ~~~lv~a~TGsGKT~~~~   59 (219)
T 1q0u_A           42 ESMVGQSQTGTGKTHAYL   59 (219)
T ss_dssp             CCEEEECCSSHHHHHHHH
T ss_pred             CCEEEECCCCChHHHHHH
Confidence            568999999999998643

>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=89.12  E-value=0.18  Score=44.68  Aligned_cols=23  Identities=22%  Similarity=0.384  Sum_probs=20.2

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      -+.+.|+||+||||++.++.+.-
T Consensus        26 ~I~vvG~~~~GKSTlln~l~g~~   48 (315)
T 1jwy_B           26 QIVVVGSQSSGKSSVLENIVGRD   48 (315)
T ss_dssp             EEEEEECSSSSHHHHHHHHHTSC
T ss_pred             eEEEEcCCCCCHHHHHHHHHCCC
Confidence            48899999999999999998653

>3auy_A DNA double-strand break repair RAD50 ATPase; DNA repair, ABC transporter ATPase domain-like; HET: DNA ADP; 2.70A {Methanocaldococcus jannaschii} PDB: 3aux_A* 3av0_B*

Probab=88.98  E-value=0.18  Score=46.32  Aligned_cols=23  Identities=35%  Similarity=0.608  Sum_probs=19.8

Q ss_pred             cce-eEEEcCCCCChHHHHHHHHH
Q 045456          244 KRG-YLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       244 ~rg-~LL~GPpGtGKTsla~aiA~  266 (288)
                      ..| .+|+||.|.|||++..||.-
T Consensus        24 ~~gl~vi~G~NGaGKT~ileAI~~   47 (371)
T 3auy_A           24 EKGIVAIIGENGSGKSSIFEAVFF   47 (371)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHH
Confidence            345 56899999999999999986

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=88.93  E-value=0.11  Score=48.99  Aligned_cols=21  Identities=52%  Similarity=0.627  Sum_probs=19.6

Q ss_pred             eEEEcCCCCChHHHHHHHHHH
Q 045456          247 YLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~  267 (288)
                      +.|.||||+|||||+++|++.
T Consensus       160 VgLVG~~gAGKSTLL~~Lsg~  180 (416)
T 1udx_A          160 VGLVGYPNAGKSSLLAAMTRA  180 (416)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCcHHHHHHHHHcC
Confidence            789999999999999999876

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=88.93  E-value=0.23  Score=47.95  Aligned_cols=32  Identities=38%  Similarity=0.442  Sum_probs=25.5

Q ss_pred             cccce--eEEEcCCCCChHHH-HHHHHHHhCCcEE
Q 045456          242 VWKRG--YLLFGPPGTGKSSL-IAAMANYLKFNIY  273 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsl-a~aiA~~l~~~i~  273 (288)
                      +..||  .+++|++|||||++ ...|++.-+.+++
T Consensus       158 PigrGQR~~Ifg~~g~GKT~l~l~~I~n~~~~dv~  192 (513)
T 3oaa_A          158 PIGRGQRELIIGDRQTGKTALAIDAIINQRDSGIK  192 (513)
T ss_dssp             CCBTTCBCEEEESSSSSHHHHHHHHHHTTSSSSCE
T ss_pred             ccccCCEEEeecCCCCCcchHHHHHHHhhccCCce
Confidence            34445  89999999999999 5789988777754

>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural genomics, structural GEN consortium, SGC, ATP-binding, hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}

Probab=88.90  E-value=0.17  Score=43.73  Aligned_cols=54  Identities=15%  Similarity=0.135  Sum_probs=29.4

Q ss_pred             CCccccccChhhhHHHHHHH-HHHh-hcHHHHHHhCCcccceeEEEcCCCCChHHHHH
Q 045456          207 ATFDKIAMDPSMKQASIDDL-DRFV-KRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIA  262 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l-~~~~-~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~  262 (288)
                      .+|+++...+...+.+.+.= ..+. -+.+.+..+  --.+.+++.+|+|+|||..+.
T Consensus        43 ~~f~~l~l~~~l~~~l~~~g~~~~~~~Q~~~i~~i--~~~~~~lv~a~TGsGKT~~~~   98 (249)
T 3ber_A           43 KTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLA--LQGRDIIGLAETGSGKTGAFA   98 (249)
T ss_dssp             CCTGGGTCCHHHHHHHHHTTCCSCCHHHHHHHHHH--HTTCCEEEECCTTSCHHHHHH
T ss_pred             CCHHHcCCCHHHHHHHHHcCCCCCCHHHHHHHHHH--hCCCCEEEEcCCCCCchhHhH
Confidence            47888887776665553310 0000 001111111  013579999999999998643

>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=88.85  E-value=0.19  Score=45.90  Aligned_cols=22  Identities=23%  Similarity=0.425  Sum_probs=20.0

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -+.+.|++|+||||++.++.+.
T Consensus        36 ~I~vvG~~~sGKSSLln~l~g~   57 (360)
T 3t34_A           36 AIAVVGGQSSGKSSVLESIVGK   57 (360)
T ss_dssp             EEEEECBTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            5889999999999999999973

>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A*

Probab=88.84  E-value=0.45  Score=44.62  Aligned_cols=33  Identities=24%  Similarity=0.181  Sum_probs=28.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCcEEEEecC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFNIYDMELT  278 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  278 (288)
                      ..++.+|+|+|||..+.+++..++.+++.+-..
T Consensus       110 ~~ll~~~TGsGKT~~~l~~i~~~~~~~Lvl~P~  142 (472)
T 2fwr_A          110 RGCIVLPTGSGKTHVAMAAINELSTPTLIVVPT  142 (472)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCSCEEEEESS
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHcCCCEEEEECC
Confidence            489999999999999998888888888877654

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=88.81  E-value=0.22  Score=48.17  Aligned_cols=28  Identities=36%  Similarity=0.515  Sum_probs=22.3

Q ss_pred             cccce--eEEEcCCCCChHHH-HHHHHHHhC
Q 045456          242 VWKRG--YLLFGPPGTGKSSL-IAAMANYLK  269 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsl-a~aiA~~l~  269 (288)
                      |..||  .+++|++|||||++ +..|++..+
T Consensus       158 PigrGQR~~I~g~~g~GKT~Lal~~I~~q~~  188 (510)
T 2ck3_A          158 PIGRGQRELIIGDRQTGKTSIAIDTIINQKR  188 (510)
T ss_dssp             CCBTTCBCEEEESTTSSHHHHHHHHHHHTHH
T ss_pred             ccccCCEEEEecCCCCCchHHHHHHHHHHHh
Confidence            34455  89999999999999 567887765

>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=88.70  E-value=0.49  Score=43.10  Aligned_cols=35  Identities=20%  Similarity=0.237  Sum_probs=29.1

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      ++-+++.|.+|+|||+++.++|..+   |..+..++..
T Consensus        16 ~~i~~~sgkGGvGKTt~a~~lA~~la~~g~~vllid~D   53 (334)
T 3iqw_A           16 LRWIFVGGKGGVGKTTTSCSLAIQLAKVRRSVLLLSTD   53 (334)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHTTSSSCEEEEECC
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHhCCCcEEEEECC
Confidence            4557788999999999999999776   6778888775

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=88.68  E-value=0.26  Score=50.31  Aligned_cols=23  Identities=30%  Similarity=0.387  Sum_probs=20.3

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      +-+.|.||.|+||||+.++||..
T Consensus       608 ~i~~ItGpNGsGKSTlLr~iagl  630 (800)
T 1wb9_A          608 RMLIITGPNMGGKSTYMRQTALI  630 (800)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCChHHHHHHHHHH
Confidence            34789999999999999999975

>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA binding protein; HET: DNA; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.23

Probab=88.66  E-value=0.5  Score=41.23  Aligned_cols=31  Identities=26%  Similarity=0.263  Sum_probs=22.2

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh---C-CcEEEEe
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL---K-FNIYDME  276 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l---~-~~i~~l~  276 (288)
                      ..++.+|+|+|||..+.+++..+   + .+++.+-
T Consensus       130 ~~ll~~~tGsGKT~~~~~~~~~~~~~~~~~~lil~  164 (282)
T 1rif_A          130 RRILNLPTSAGRSLIQALLARYYLENYEGKILIIV  164 (282)
T ss_dssp             EEEECCCTTSCHHHHHHHHHHHHHHHCSSEEEEEC
T ss_pred             CeEEEcCCCCCcHHHHHHHHHHHHHcCCCeEEEEE
Confidence            35779999999999987777653   2 2555553

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=88.60  E-value=0.22  Score=50.54  Aligned_cols=24  Identities=29%  Similarity=0.339  Sum_probs=20.8

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +-+.|.||+|+||||+.+.||...
T Consensus       577 ~i~~I~GpNGsGKSTlLr~iagl~  600 (765)
T 1ewq_A          577 ELVLITGPNMAGKSTFLRQTALIA  600 (765)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCChHHHHHHHHhhh
Confidence            347899999999999999999753

>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=88.31  E-value=0.52  Score=41.85  Aligned_cols=36  Identities=14%  Similarity=0.241  Sum_probs=28.2

Q ss_pred             cceeEEEcC-CCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          244 KRGYLLFGP-PGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       244 ~rg~LL~GP-pGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      .+-+++.|+ ||+|||+++..+|..+   |..+..|++.-
T Consensus        92 ~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLID~D~  131 (286)
T 3la6_A           92 NNVLMMTGVSPSIGMTFVCANLAAVISQTNKRVLLIDCDM  131 (286)
T ss_dssp             CCEEEEEESSSSSSHHHHHHHHHHHHHTTTCCEEEEECCT
T ss_pred             CeEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEeccC
Confidence            456777766 9999999998888776   77888887653

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=88.12  E-value=0.35  Score=46.20  Aligned_cols=29  Identities=24%  Similarity=0.313  Sum_probs=24.0

Q ss_pred             cccce--eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          242 VWKRG--YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      +..||  ++++|++|+|||+|+..||+....
T Consensus       147 pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~~~  177 (465)
T 3vr4_D          147 TLVRGQKLPVFSGSGLPHKELAAQIARQATV  177 (465)
T ss_dssp             CCBTTCBCCEEECTTSCHHHHHHHHHHHCBC
T ss_pred             ccccCCEEEEeCCCCcChHHHHHHHHHHHHh
Confidence            33444  888999999999999999998754

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=88.04  E-value=0.063  Score=44.18  Aligned_cols=21  Identities=43%  Similarity=0.700  Sum_probs=18.4

Q ss_pred             eeEEEcCCCCChHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~  266 (288)
                      .+++.|++|+|||+|+.++.+
T Consensus        35 ki~vvG~~~~GKSsli~~l~~   55 (199)
T 3l0i_B           35 KLLLIGDSGVGKSCLLLRFAD   55 (199)
T ss_dssp             EEEEECCTTSCCTTTTTSSBC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            588999999999999988763

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=87.95  E-value=0.44  Score=44.64  Aligned_cols=22  Identities=27%  Similarity=0.465  Sum_probs=19.3

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -+.|.|+||+|||||..++++.
T Consensus        24 kvgIVG~pnvGKSTL~n~Ltg~   45 (396)
T 2ohf_A           24 KIGIVGLPNVGKSTFFNVLTNS   45 (396)
T ss_dssp             CEEEECCSSSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            3789999999999999999865

>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA dependent ATPase, mRNA export, nucleocytoplasmic transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens} PDB: 3ews_A* 3g0h_A* 3fhc_B

Probab=87.94  E-value=1  Score=40.75  Aligned_cols=56  Identities=18%  Similarity=0.252  Sum_probs=31.2

Q ss_pred             CCCccccccChhhhHHHHHH-HHHHhh-cHHHHHHhCCcccceeEEEcCCCCChHHHH
Q 045456          206 PATFDKIAMDPSMKQASIDD-LDRFVK-RRNFYRRVGKVWKRGYLLFGPPGTGKSSLI  261 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~-l~~~~~-~~~~~~~~g~~~~rg~LL~GPpGtGKTsla  261 (288)
                      ..+|+++...+...+.+.+. +..+.. +.+.+..+-....+.+++.+|+|+|||..+
T Consensus        24 ~~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~~~lv~apTGsGKT~~~   81 (412)
T 3fht_A           24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAF   81 (412)
T ss_dssp             SSCTGGGTCCHHHHHHHHHTTCCSCCHHHHHHHHHHHSSSCCCEEEECCTTSCHHHHH
T ss_pred             cCCHhhCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCCCeEEEECCCCchHHHHH
Confidence            35788988887766665431 000000 111111111112367999999999999874

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=87.85  E-value=0.63  Score=42.07  Aligned_cols=34  Identities=15%  Similarity=0.234  Sum_probs=27.1

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      +-++..|.+|+|||+++.++|..+   |..+..+++.
T Consensus        20 ~i~v~sgkGGvGKTTva~~LA~~lA~~G~rVllvD~D   56 (329)
T 2woo_A           20 KWIFVGGKGGVGKTTTSCSLAIQMSKVRSSVLLISTD   56 (329)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHHHTSSSCEEEEECC
T ss_pred             EEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEEEEECC
Confidence            345567999999999999998766   7788877764

>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*

Probab=87.82  E-value=0.22  Score=49.83  Aligned_cols=68  Identities=16%  Similarity=0.255  Sum_probs=35.6

Q ss_pred             CccccccChhhhHHHHHH-HHHHhh-cHHHHHHhCCcccceeEEEcCCCCChHHHH-HHHHHHh---CCcEEEEe
Q 045456          208 TFDKIAMDPSMKQASIDD-LDRFVK-RRNFYRRVGKVWKRGYLLFGPPGTGKSSLI-AAMANYL---KFNIYDME  276 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~-l~~~~~-~~~~~~~~g~~~~rg~LL~GPpGtGKTsla-~aiA~~l---~~~i~~l~  276 (288)
                      +|+++..++..++.+.+. +..+.. +.+.+.. ++.-.+.+++.||+|+|||..+ .++...+   +..++.+.
T Consensus         2 ~f~~l~l~~~~~~~l~~~g~~~l~~~Q~~~i~~-~~~~~~~~lv~apTGsGKT~~~~l~il~~~~~~~~~~l~i~   75 (720)
T 2zj8_A            2 RVDELRVDERIKSTLKERGIESFYPPQAEALKS-GILEGKNALISIPTASGKTLIAEIAMVHRILTQGGKAVYIV   75 (720)
T ss_dssp             BGGGCCSCHHHHHHHHHTTCCBCCHHHHHHHTT-TGGGTCEEEEECCGGGCHHHHHHHHHHHHHHHHCSEEEEEC
T ss_pred             cHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHH-HhcCCCcEEEEcCCccHHHHHHHHHHHHHHHhCCCEEEEEc
Confidence            477777776665544331 000000 1122221 1222467999999999999876 3443222   44555544

>1ytm_A Phosphoenolpyruvate carboxykinase [ATP], phosphoenolpyruvate; domain closure, nucleotide binding; HET: ATP; 2.20A {Anaerobiospirillum succiniciproducens} PDB: 1yvy_A

Probab=87.61  E-value=0.25  Score=47.98  Aligned_cols=47  Identities=21%  Similarity=0.330  Sum_probs=29.3

Q ss_pred             hhhHHHHHHHHHHhhcHHHHH-----HhCCcccceeEEEcCCCCChHHHHHH
Q 045456          217 SMKQASIDDLDRFVKRRNFYR-----RVGKVWKRGYLLFGPPGTGKSSLIAA  263 (288)
Q Consensus       217 ~~k~~i~~~l~~~~~~~~~~~-----~~g~~~~rg~LL~GPpGtGKTsla~a  263 (288)
                      +.|+-+...+...+....++.     ++|..-+...+++|++|||||+|+..
T Consensus       203 emKK~~ftl~n~~~~~~G~L~~H~sanv~~~g~~~~~ffGlSGtGKTTLs~d  254 (532)
T 1ytm_A          203 EMKKGMFSMMNFYLPLQGIAAMHCSANTDLEGKNTAIFFGLSGTGKTTLSTD  254 (532)
T ss_dssp             HHHHHHHHHHHHHTGGGTCEEEEEEEEEETTSCSEEEEECCTTSSHHHHHCC
T ss_pred             hhhHhHHHHHHHHHHHCCcEeecCeeeeCCCCCeEEEEEecCCCCHHHHhhC
Confidence            677777776654443333221     12221125689999999999998854

>2olr_A Phosphoenolpyruvate carboxykinase; carbon dioxide, lyase; HET: ATP; 1.60A {Escherichia coli K12} SCOP: c.91.1.1 c.109.1.1 PDB: 1k3c_A* 1k3d_A* 1aq2_A* 2olq_A* 1os1_A* 2pxz_X* 1ayl_A* 2py7_X* 1oen_A 1ylh_A* 1ygg_A*

Probab=87.45  E-value=0.25  Score=48.01  Aligned_cols=46  Identities=24%  Similarity=0.390  Sum_probs=28.4

Q ss_pred             hhhHHHHHHHHHHhhcHHHHH-----HhCCcccceeEEEcCCCCChHHHHHH
Q 045456          217 SMKQASIDDLDRFVKRRNFYR-----RVGKVWKRGYLLFGPPGTGKSSLIAA  263 (288)
Q Consensus       217 ~~k~~i~~~l~~~~~~~~~~~-----~~g~~~~rg~LL~GPpGtGKTsla~a  263 (288)
                      +.|+-+.......+....++.     ..|. -....+|+|++|||||+|+..
T Consensus       210 emKK~~ftl~n~~l~~~G~L~mH~sanvg~-~g~~~lffGlSGtGKTTLs~d  260 (540)
T 2olr_A          210 EMKKGMFSMMNYLLPLKGIASMHCSANVGE-KGDVAVFFGLSGTGKTTLSTD  260 (540)
T ss_dssp             HHHHHHHHHHHHHTGGGTCEEECEEEEECT-TSCEEEEECSTTSSHHHHHCC
T ss_pred             HhhhhHHHHhHHHHHHCCcEeecceeeeCC-CCCEEEEEccCCCCHHHHhcC
Confidence            677777665554443322221     1221 124599999999999998854

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=87.32  E-value=0.35  Score=46.19  Aligned_cols=29  Identities=21%  Similarity=0.308  Sum_probs=24.2

Q ss_pred             cccce--eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          242 VWKRG--YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      +..||  ++++|++|+|||+++..||+....
T Consensus       143 pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~~a  173 (464)
T 3gqb_B          143 TLVRGQKLPIFSGSGLPANEIAAQIARQATV  173 (464)
T ss_dssp             CCBTTCBCCEEEETTSCHHHHHHHHHHHCBC
T ss_pred             ccccCCEEEEecCCCCCchHHHHHHHHHHHh
Confidence            34445  888999999999999999998765

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=87.31  E-value=0.54  Score=45.31  Aligned_cols=27  Identities=41%  Similarity=0.727  Sum_probs=22.1

Q ss_pred             cccce--eEEEcCCCCChHHHHHHHHHHh
Q 045456          242 VWKRG--YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +..||  ++++|++|+|||.|+.-|++..
T Consensus       161 pigkGqr~gIfgg~GvGKT~L~~~l~~~~  189 (498)
T 1fx0_B          161 PYRRGGKIGLFGGAGVGKTVLIMELINNI  189 (498)
T ss_dssp             CCCTTCCEEEEECSSSSHHHHHHHHHHHT
T ss_pred             ccccCCeEEeecCCCCCchHHHHHHHHHH
Confidence            33445  8999999999999998888764

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=87.19  E-value=0.22  Score=53.59  Aligned_cols=27  Identities=30%  Similarity=0.534  Sum_probs=23.4

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      .-+.+.||+|+||||++++|.+++...
T Consensus       445 ~~vaivG~sGsGKSTll~ll~~~~~~~  471 (1321)
T 4f4c_A          445 QTVALVGSSGCGKSTIISLLLRYYDVL  471 (1321)
T ss_dssp             CEEEEEECSSSCHHHHHHHHTTSSCCS
T ss_pred             cEEEEEecCCCcHHHHHHHhccccccc
Confidence            337899999999999999999988654

>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation, rRNA processing, mRNA splicing, mRNA transport; HET: ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B 2zu6_A

Probab=87.10  E-value=0.5  Score=43.11  Aligned_cols=56  Identities=14%  Similarity=0.245  Sum_probs=31.4

Q ss_pred             CCccccccChhhhHHHHHHH-HHHh-hcHHHHHHhCCcccceeEEEcCCCCChHHHHHHH
Q 045456          207 ATFDKIAMDPSMKQASIDDL-DRFV-KRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAM  264 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l-~~~~-~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~ai  264 (288)
                      .+|+++...+.+.+.+.+.= ..+. -+.+.+..+  --.+.+++.+|+|+|||..+...
T Consensus        37 ~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~ai~~i--~~~~~~lv~a~TGsGKT~~~~~~   94 (410)
T 2j0s_A           37 PTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQI--IKGRDVIAQSQSGTGKTATFSIS   94 (410)
T ss_dssp             CSGGGGCCCHHHHHHHHHHTCCSCCHHHHHHHHHH--HTTCCEEEECCTTSSHHHHHHHH
T ss_pred             CCHhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHH--hCCCCEEEECCCCCCchHHHHHH
Confidence            47999988777666654310 0000 011111111  01356999999999999765433

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=87.03  E-value=0.51  Score=45.27  Aligned_cols=22  Identities=41%  Similarity=0.631  Sum_probs=20.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      ++++|++|+|||+|+.-||+..
T Consensus       156 ~~Ifgg~G~GKT~L~~~i~~~~  177 (482)
T 2ck3_D          156 IGLFGGAGVGKTVLIMELINNV  177 (482)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHT
T ss_pred             eeeecCCCCChHHHHHHHHHhh
Confidence            8999999999999998888764

>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics, structural genomics consort ATP-binding, hydrolase, nucleotide-binding, RNA-B; 2.80A {Homo sapiens}

Probab=86.89  E-value=0.69  Score=40.05  Aligned_cols=18  Identities=28%  Similarity=0.394  Sum_probs=15.2

Q ss_pred             ceeEEEcCCCCChHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIA  262 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~  262 (288)
                      +.+++.+|+|+|||..+.
T Consensus        92 ~~~lv~a~TGsGKT~~~~  109 (262)
T 3ly5_A           92 RDLLAAAKTGSGKTLAFL  109 (262)
T ss_dssp             CCCEECCCTTSCHHHHHH
T ss_pred             CcEEEEccCCCCchHHHH
Confidence            568999999999998643

>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA, N project on protein structural and functional analyses; 2.40A {Dugesia japonica} SCOP: c.37.1.19

Probab=86.87  E-value=0.75  Score=39.24  Aligned_cols=18  Identities=22%  Similarity=0.453  Sum_probs=15.0

Q ss_pred             ceeEEEcCCCCChHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIA  262 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~  262 (288)
                      +.+++.+|+|+|||..+.
T Consensus        61 ~~~l~~a~TGsGKT~~~~   78 (253)
T 1wrb_A           61 RDIMACAQTGSGKTAAFL   78 (253)
T ss_dssp             CCEEEECCTTSSHHHHHH
T ss_pred             CCEEEECCCCChHHHHHH
Confidence            569999999999998543

>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=86.86  E-value=0.79  Score=39.25  Aligned_cols=31  Identities=16%  Similarity=0.070  Sum_probs=24.5

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh---CCcEEEEec
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL---KFNIYDMEL  277 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~  277 (288)
                      ++++||.|+|||+.+..+|..+   |..++.+..
T Consensus        31 ~vitG~MgsGKTT~lL~~a~r~~~~g~kVli~k~   64 (214)
T 2j9r_A           31 EVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKP   64 (214)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEe
Confidence            4479999999999888777654   778887763

>1j3b_A ATP-dependent phosphoenolpyruvate carboxykinase; adenosine triphosphate, T thermophilus; 2.00A {Thermus thermophilus} SCOP: c.91.1.1 c.109.1.1 PDB: 1xkv_A* 2pc9_A*

Probab=86.84  E-value=0.23  Score=48.25  Aligned_cols=46  Identities=26%  Similarity=0.460  Sum_probs=28.3

Q ss_pred             hhhHHHHHHHHHHhhcHHHHHH-----hCCcccceeEEEcCCCCChHHHHHH
Q 045456          217 SMKQASIDDLDRFVKRRNFYRR-----VGKVWKRGYLLFGPPGTGKSSLIAA  263 (288)
Q Consensus       217 ~~k~~i~~~l~~~~~~~~~~~~-----~g~~~~rg~LL~GPpGtGKTsla~a  263 (288)
                      +.|+-+.......+....++..     .|. -.+..++.||+|||||+|+..
T Consensus       194 e~KK~~l~i~~~~~~~~G~L~~H~sa~~~~-~g~~~~ffGlSGtGKTtLs~~  244 (529)
T 1j3b_A          194 EIKKSIFTVMNYLMPKRGVFPMHASANVGK-EGDVAVFFGLSGTGKTTLSTD  244 (529)
T ss_dssp             HHHHHHHHHHHHHGGGGTCEEEECEEEECT-TCCEEEEEECTTSCHHHHTCB
T ss_pred             chHHHHHHHHHHHHHHCCeEeccceeeeCC-CCcEEEEEccccCChhhHhhc
Confidence            4677776655544443333321     111 124588999999999998865

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=86.83  E-value=0.14  Score=53.40  Aligned_cols=24  Identities=38%  Similarity=0.582  Sum_probs=21.5

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      +.|.||.|+|||||+++|++.+..
T Consensus       702 vaIiGpNGSGKSTLLklLaGll~P  725 (986)
T 2iw3_A          702 IAVIGPNGAGKSTLINVLTGELLP  725 (986)
T ss_dssp             EEECSCCCHHHHHHHHHHTTSSCC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCCC
Confidence            678999999999999999988753

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=86.79  E-value=0.26  Score=51.06  Aligned_cols=22  Identities=41%  Similarity=0.484  Sum_probs=19.2

Q ss_pred             ceeEEEcCCCCChHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~  266 (288)
                      +-+.|.||.|+||||+.+.+|.
T Consensus       674 ~i~~ItGPNGaGKSTlLr~i~~  695 (918)
T 3thx_B          674 RVMIITGPNMGGKSSYIKQVAL  695 (918)
T ss_dssp             CEEEEESCCCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCchHHHHHHHHH
Confidence            3478999999999999999874

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=86.77  E-value=0.25  Score=45.09  Aligned_cols=22  Identities=23%  Similarity=0.359  Sum_probs=19.5

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -+.+.|.||+||||++.++.+.
T Consensus        33 ~I~vvG~~~~GKSSLln~L~g~   54 (353)
T 2x2e_A           33 QIAVVGGQSAGKSSVLENFVGR   54 (353)
T ss_dssp             EEEEECBTTSSHHHHHHTTTTS
T ss_pred             eEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999999753

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=86.76  E-value=0.48  Score=45.70  Aligned_cols=22  Identities=27%  Similarity=0.330  Sum_probs=19.2

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -++|.|+||+|||||+.++.+.
T Consensus        43 kV~lvG~~~vGKSSLl~~l~~~   64 (535)
T 3dpu_A           43 KVHLIGDGMAGKTSLLKQLIGE   64 (535)
T ss_dssp             EEEEESSSCSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3889999999999999999864

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=86.70  E-value=0.33  Score=50.36  Aligned_cols=21  Identities=29%  Similarity=0.312  Sum_probs=18.6

Q ss_pred             ceeEEEcCCCCChHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMA  265 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA  265 (288)
                      +-++|.||.|+||||+.+.+|
T Consensus       663 ~i~~ItGpNGsGKSTlLr~ia  683 (934)
T 3thx_A          663 MFHIITGPNMGGKSTYIRQTG  683 (934)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            348899999999999999985

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=86.63  E-value=0.56  Score=45.42  Aligned_cols=35  Identities=20%  Similarity=0.245  Sum_probs=26.6

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh-------CCcEEEEecCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL-------KFNIYDMELTS  279 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l-------~~~i~~l~~~~  279 (288)
                      ..+|+.|++|+|||+++++|...+       ...++.++...
T Consensus       168 pHlLIaG~TGSGKSt~L~~li~sLl~~~~p~~v~l~liDpK~  209 (512)
T 2ius_A          168 PHLLVAGTTGSGASVGVNAMILSMLYKAQPEDVRFIMIDPKM  209 (512)
T ss_dssp             CSEEEECCTTSSHHHHHHHHHHHHHTTCCTTTEEEEEECCSS
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHhCCCceEEEEEECCch
Confidence            359999999999999999987643       23577776543

>1ii2_A Phosphoenolpyruvate carboxykinase; phosphate binding loop, lyase; 2.00A {Trypanosoma cruzi} SCOP: c.91.1.1 c.109.1.1

Probab=86.50  E-value=0.31  Score=47.31  Aligned_cols=45  Identities=31%  Similarity=0.423  Sum_probs=27.2

Q ss_pred             hhhHHHHHHHHHHhhcHHHHH-----HhCCcccceeEEEcCCCCChHHHHH
Q 045456          217 SMKQASIDDLDRFVKRRNFYR-----RVGKVWKRGYLLFGPPGTGKSSLIA  262 (288)
Q Consensus       217 ~~k~~i~~~l~~~~~~~~~~~-----~~g~~~~rg~LL~GPpGtGKTsla~  262 (288)
                      +.|+-+...+...+....++.     ..|. -....+++|++|||||+|+.
T Consensus       182 emKK~~ftl~n~~~~~~g~L~~H~san~g~-~g~~~~ffGlSGtGKTTLs~  231 (524)
T 1ii2_A          182 EMKKGILTVMFELMPQMNHLCMHASANVGK-QGDVTVFFGLSGTGKTTLSA  231 (524)
T ss_dssp             HHHHHHHHHHHHHHHHTTCEEESEEEEECT-TCCEEEEECCTTSSHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHCCcEeecceeeeCC-CCCEEEEEccCCcchhhhhh
Confidence            677777665554443222221     1121 12458999999999999875

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=86.22  E-value=0.24  Score=53.13  Aligned_cols=26  Identities=27%  Similarity=0.321  Sum_probs=22.8

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      -+-|.||+|+||||++++|++.+...
T Consensus       418 ~~~ivG~sGsGKSTl~~ll~g~~~~~  443 (1284)
T 3g5u_A          418 TVALVGNSGCGKSTTVQLMQRLYDPL  443 (1284)
T ss_dssp             EEEEECCSSSSHHHHHHHTTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            37899999999999999999887643

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=86.10  E-value=0.74  Score=40.35  Aligned_cols=35  Identities=17%  Similarity=0.304  Sum_probs=26.7

Q ss_pred             ceeEEEc---CCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          245 RGYLLFG---PPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       245 rg~LL~G---PpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      +-+.+.+   -.|+|||+++..+|..+   |..+..|++.-
T Consensus        35 ~~i~v~~~s~KGGvGKTT~a~nLA~~la~~G~rVlliD~D~   75 (298)
T 2oze_A           35 EAIVILNNYFKGGVGKSKLSTMFAYLTDKLNLKVLMIDKDL   75 (298)
T ss_dssp             SCEEEEECCSSSSSSHHHHHHHHHHHHHHTTCCEEEEEECT
T ss_pred             cEEEEEeccCCCCchHHHHHHHHHHHHHhCCCeEEEEeCCC
Confidence            4466664   89999999999888766   77877777653

>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=86.06  E-value=0.84  Score=41.88  Aligned_cols=34  Identities=18%  Similarity=0.191  Sum_probs=27.6

Q ss_pred             ceeEEEc-CCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          245 RGYLLFG-PPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       245 rg~LL~G-PpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      +-+.++| -.|+|||+++..+|..+   |..+..+++.
T Consensus       144 kvIav~s~KGGvGKTT~a~nLA~~La~~g~rVlliD~D  181 (373)
T 3fkq_A          144 SVVIFTSPCGGVGTSTVAAACAIAHANMGKKVFYLNIE  181 (373)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHHTCCEEEEECC
T ss_pred             eEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEECC
Confidence            3466664 79999999998888765   8899999977

>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding, hydrolase, nucleotide- RNA-binding, methylation, mRNA processing, mRNA S nucleus; HET: ADP; 2.60A {Homo sapiens} PDB: 4a4d_A

Probab=86.02  E-value=1.5  Score=37.21  Aligned_cols=17  Identities=18%  Similarity=0.200  Sum_probs=14.8

Q ss_pred             ceeEEEcCCCCChHHHH
Q 045456          245 RGYLLFGPPGTGKSSLI  261 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla  261 (288)
                      +.+++.+|+|+|||...
T Consensus        67 ~~~l~~apTGsGKT~~~   83 (242)
T 3fe2_A           67 LDMVGVAQTGSGKTLSY   83 (242)
T ss_dssp             CCEEEEECTTSCHHHHH
T ss_pred             CCEEEECCCcCHHHHHH
Confidence            56999999999999864

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=85.96  E-value=0.38  Score=44.40  Aligned_cols=23  Identities=30%  Similarity=0.437  Sum_probs=19.7

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .-+||.|++|+||||+++.|.-.
T Consensus        34 ~killlG~~~SGKST~~kq~~i~   56 (362)
T 1zcb_A           34 VKILLLGAGESGKSTFLKQMRII   56 (362)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHH
Confidence            35899999999999999998533

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=85.93  E-value=0.89  Score=41.85  Aligned_cols=23  Identities=22%  Similarity=0.326  Sum_probs=21.1

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      +.+.+.|+||+||||++.+|.+.
T Consensus       163 ~~i~~vG~~nvGKStliN~L~~~  185 (369)
T 3ec1_A          163 GDVYVVGCTNVGKSTFINRIIEE  185 (369)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEcCCCCchHHHHHHHHhh
Confidence            46889999999999999999987

>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=85.88  E-value=1.3  Score=38.16  Aligned_cols=35  Identities=20%  Similarity=0.204  Sum_probs=26.8

Q ss_pred             ceeEEE-cCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          245 RGYLLF-GPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       245 rg~LL~-GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      +-+.+. +-.|+|||+++..+|..+   |..+..+++.-
T Consensus        19 ~vI~v~s~kGGvGKTT~a~nLA~~la~~G~~VlliD~D~   57 (262)
T 2ph1_A           19 SRIAVMSGKGGVGKSTVTALLAVHYARQGKKVGILDADF   57 (262)
T ss_dssp             CEEEEECSSSCTTHHHHHHHHHHHHHHTTCCEEEEECCS
T ss_pred             eEEEEEcCCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCC
Confidence            345554 668999999998888776   78888887653

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii}

Probab=85.71  E-value=0.78  Score=40.41  Aligned_cols=40  Identities=3%  Similarity=-0.164  Sum_probs=28.6

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTS  279 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~  279 (288)
                      |++..+.+|+.|.||+|||+++...+.+-   |-+.+.+...+
T Consensus        17 Gl~~gs~~li~g~p~~~~~~l~~qfl~~g~~~Ge~~~~~~~~e   59 (260)
T 3bs4_A           17 IKKHSLILIHEEDASSRGKDILFYILSRKLKSDNLVGMFSISY   59 (260)
T ss_dssp             BCTTCEEEEEECSGGGCHHHHHHHHHHHHHHTTCEEEEEECSS
T ss_pred             CCCCCcEEEEEeCCCccHHHHHHHHHHHHHHCCCcEEEEEEeC
Confidence            55555568889999999999876664432   66777777654

>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Homo sapiens}

Probab=85.62  E-value=1.1  Score=40.75  Aligned_cols=57  Identities=16%  Similarity=0.232  Sum_probs=31.7

Q ss_pred             CCccccccChhhhHHHHHHHHHHhh----cHHHHHHhCCcccceeEEEcCCCCChHHHH-HHHHHH
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVK----RRNFYRRVGKVWKRGYLLFGPPGTGKSSLI-AAMANY  267 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~----~~~~~~~~g~~~~rg~LL~GPpGtGKTsla-~aiA~~  267 (288)
                      .+|+++...+...+.+.+.  .+..    +.+.+..+  ...+.+++.+|+|+|||..+ .++...
T Consensus        40 ~~f~~~~l~~~~~~~l~~~--~~~~~~~~Q~~~i~~~--~~~~~~lv~a~TGsGKT~~~~~~~~~~  101 (414)
T 3eiq_A           40 DSFDDMNLSESLLRGIYAY--GFEKPSAIQQRAILPC--IKGYDVIAQAQSGTGKTATFAISILQQ  101 (414)
T ss_dssp             CCGGGGCCCHHHHHHHHHT--TCCSCCHHHHHHHHHH--HTTCCEEECCCSCSSSHHHHHHHHHHH
T ss_pred             cCHhhCCCCHHHHHHHHHc--CCCCCCHHHHHHhHHH--hCCCCEEEECCCCCcccHHHHHHHHHH
Confidence            4788888877766655431  0000    01111111  01345899999999999874 333333

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=85.33  E-value=0.9  Score=41.59  Aligned_cols=35  Identities=14%  Similarity=0.109  Sum_probs=28.0

Q ss_pred             cceeEEEcCCCCChHHHHHHHHH-----HhCCcEEEEecC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMAN-----YLKFNIYDMELT  278 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~-----~l~~~i~~l~~~  278 (288)
                      .+-+++.|.+|+|||+++.++|.     ..|..+..++..
T Consensus        18 ~~i~~~~gkGGvGKTt~a~~lA~~la~~~~g~~vllid~D   57 (348)
T 3io3_A           18 LKWIFVGGKGGVGKTTTSSSVAVQLALAQPNEQFLLISTD   57 (348)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHHHCTTSCEEEEECC
T ss_pred             cEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEECC
Confidence            45577789999999999988885     456788888875

>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 2.51A {Homo sapiens}

Probab=85.13  E-value=1.3  Score=39.28  Aligned_cols=61  Identities=18%  Similarity=0.263  Sum_probs=34.1

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhh----cHHHHHHhCCcccceeEEEcCCCCChHHHHH-HHHHHh
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVK----RRNFYRRVGKVWKRGYLLFGPPGTGKSSLIA-AMANYL  268 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~----~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~-aiA~~l  268 (288)
                      -.+|+++...+.+.+.+.+.  .|..    +.+.+..+-...++.+++.+|+|+|||.... .+...+
T Consensus        91 ~~~f~~l~l~~~l~~~l~~~--g~~~pt~iQ~~ai~~il~~~~~~~l~~a~TGsGKT~a~~lp~l~~l  156 (300)
T 3fmo_B           91 VKSFEELRLKPQLLQGVYAM--GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQV  156 (300)
T ss_dssp             CCCSGGGTCCHHHHHHHHHT--TCCSCCHHHHHHHHHHTSSSCCCEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             cCCHhhcCCCHHHHHHHHHc--CCCCCCHHHHHHHHHHHcCCCCeEEEECCCCCCccHHHHHHHHHhh
Confidence            35899998887766655431  0000    1111222211124679999999999997632 444443

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=85.07  E-value=0.35  Score=43.76  Aligned_cols=21  Identities=19%  Similarity=0.400  Sum_probs=18.7

Q ss_pred             eeEEEcCCCCChHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~  266 (288)
                      -+++.|+||+|||+|+.++.+
T Consensus       167 kI~ivG~~~vGKSsLl~~l~~  187 (329)
T 3o47_A          167 RILMVGLDAAGKTTILYKLKL  187 (329)
T ss_dssp             EEEEEESTTSSHHHHHHHTCS
T ss_pred             eEEEECCCCccHHHHHHHHhC
Confidence            388999999999999998864

>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 3.19A {Homo sapiens}

Probab=85.05  E-value=1.9  Score=40.43  Aligned_cols=61  Identities=18%  Similarity=0.268  Sum_probs=33.8

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhh----cHHHHHHhCCcccceeEEEcCCCCChHHH-HHHHHHHh
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVK----RRNFYRRVGKVWKRGYLLFGPPGTGKSSL-IAAMANYL  268 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~----~~~~~~~~g~~~~rg~LL~GPpGtGKTsl-a~aiA~~l  268 (288)
                      ..+|+++...+...+.+.+.  .|-.    +.+.+..+-...++.+++.+|+|+|||.. +.++...+
T Consensus        91 ~~~f~~~~l~~~l~~~l~~~--g~~~p~~~Q~~ai~~il~~~~~~~l~~a~TGsGKT~~~~l~il~~l  156 (479)
T 3fmp_B           91 VKSFEELRLKPQLLQGVYAM--GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQV  156 (479)
T ss_dssp             CCCSGGGTCCHHHHHHHHHT--TCCSCCHHHHHHHHHHTSBSCCEEEEECCSSSSHHHHHHHHHHTTC
T ss_pred             cCCHHHcCCCHHHHHHHHHc--CCCCCCHHHHHHHHHHHcCCCCcEEEEcCCCCchhHHHHHHHHHHH
Confidence            35788888887766555330  0000    11112221111246799999999999986 34444433

>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=84.93  E-value=1.2  Score=43.50  Aligned_cols=32  Identities=31%  Similarity=0.474  Sum_probs=26.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      +++.|.+|+|||+++.++|..+   |..+..++..
T Consensus       330 ~~~~~~~g~Gktt~a~~lA~~l~~~g~~vllvD~D  364 (589)
T 1ihu_A          330 IMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSD  364 (589)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESC
T ss_pred             EEEecCCCCChhhHHHHHHHHHHHCCCcEEEEeCC
Confidence            5567999999999999988776   7788777665

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=84.79  E-value=0.29  Score=48.75  Aligned_cols=19  Identities=32%  Similarity=0.550  Sum_probs=16.4

Q ss_pred             eEEEcCCCCChHHHHHHHH
Q 045456          247 YLLFGPPGTGKSSLIAAMA  265 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA  265 (288)
                      +.|.||+|+||||++++|.
T Consensus       351 vaIiGpnGsGKSTLl~~i~  369 (670)
T 3ux8_A          351 VAVTGVSGSGKSTLVNEVL  369 (670)
T ss_dssp             EEEECSTTSSHHHHHTTTH
T ss_pred             EEEEeeCCCCHHHHHHHHH
Confidence            6799999999999997653

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=84.59  E-value=0.35  Score=46.43  Aligned_cols=22  Identities=32%  Similarity=0.600  Sum_probs=20.1

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -+.|.|+||+|||||..++++.
T Consensus       245 kV~ivG~pnvGKSSLln~L~~~  266 (482)
T 1xzp_A          245 RMVIVGKPNVGKSTLLNRLLNE  266 (482)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEEECcCCCcHHHHHHHHHCC
Confidence            3789999999999999999986

>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC, structural GE consortium, hydrolase; HET: AMP; 2.20A {Homo sapiens}

Probab=84.46  E-value=0.5  Score=43.07  Aligned_cols=50  Identities=16%  Similarity=0.290  Sum_probs=28.4

Q ss_pred             CCccccccChhhhHHHHHHHHHHhh----cHHHHHHhCCcccceeEEEcCCCCChHHH
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVK----RRNFYRRVGKVWKRGYLLFGPPGTGKSSL  260 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~----~~~~~~~~g~~~~rg~LL~GPpGtGKTsl  260 (288)
                      .+|+++...+...+.+...  .|..    +.+.+..+  ...+.+++.+|+|+|||..
T Consensus        15 ~~f~~~~l~~~l~~~l~~~--~~~~~~~~Q~~~i~~i--~~~~~~lv~a~TGsGKT~~   68 (417)
T 2i4i_A           15 ESFSDVEMGEIIMGNIELT--RYTRPTPVQKHAIPII--KEKRDLMACAQTGSGKTAA   68 (417)
T ss_dssp             SSGGGSCCCHHHHHHHHHH--TCCSCCHHHHHHHHHH--HTTCCEEEECCTTSCHHHH
T ss_pred             CCHhhCCCCHHHHHHHHHC--CCCCCCHHHHHHHHHH--ccCCCEEEEcCCCCHHHHH
Confidence            4699988777666555331  0000    11111111  1135689999999999974

>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=84.30  E-value=0.48  Score=44.75  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=19.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -++|.|+||+|||||..++.+.
T Consensus        25 ~V~lvG~~nvGKSTL~n~l~~~   46 (456)
T 4dcu_A           25 VVAIVGRPNVGKSTIFNRIAGE   46 (456)
T ss_dssp             EEEEECSSSSSHHHHHHHHEEE
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            5899999999999999998753

>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19

Probab=84.08  E-value=0.97  Score=41.33  Aligned_cols=32  Identities=22%  Similarity=0.332  Sum_probs=25.2

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh----CCcEEEEec
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL----KFNIYDMEL  277 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~  277 (288)
                      ++++..|+|+|||..+.+++..+    +..++.+-.
T Consensus        25 ~~ll~~~tG~GKT~~~~~~~~~~~~~~~~~~liv~P   60 (494)
T 1wp9_A           25 NCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAP   60 (494)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECS
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHhcCCCeEEEEEC
Confidence            78999999999999888877665    556666544

>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein, translation; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 2vso_A* 2vsx_A*

Probab=83.96  E-value=0.28  Score=44.23  Aligned_cols=53  Identities=15%  Similarity=0.216  Sum_probs=29.6

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCc---ccceeEEEcCCCCChHHHH
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKV---WKRGYLLFGPPGTGKSSLI  261 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~---~~rg~LL~GPpGtGKTsla  261 (288)
                      ..+|+++..++.+.+.+... .  ...+..++...++   -.+.+++.+|+|+|||..+
T Consensus        20 ~~~f~~~~l~~~l~~~l~~~-g--~~~~~~~Q~~~i~~i~~~~~~lv~~~TGsGKT~~~   75 (394)
T 1fuu_A           20 VYKFDDMELDENLLRGVFGY-G--FEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTF   75 (394)
T ss_dssp             CCSSGGGCCCHHHHHHHHHH-T--CCSCCHHHHHHHHHHHHTCCEEECCCSSHHHHHHH
T ss_pred             cCChhhcCCCHHHHHHHHHc-C--CCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHH
Confidence            35788888777766655431 0  0011111110000   1346899999999999863

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=83.89  E-value=0.5  Score=40.84  Aligned_cols=21  Identities=29%  Similarity=0.419  Sum_probs=19.4

Q ss_pred             eeEEEcCC---------CCChHHHHHHHHH
Q 045456          246 GYLLFGPP---------GTGKSSLIAAMAN  266 (288)
Q Consensus       246 g~LL~GPp---------GtGKTsla~aiA~  266 (288)
                      -+++.|.|         |+|||+|+.++.+
T Consensus        21 ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~   50 (255)
T 3c5h_A           21 NISVVGLSGTEKEKGQCGIGKSCLCNRFVR   50 (255)
T ss_dssp             EEEEEESCCCTTTTTTCCCSHHHHHHHHHC
T ss_pred             EEEEECCCccccccCCCCcCHHHHHHHHHh
Confidence            48899999         9999999999986

>1of1_A Thymidine kinase; transferase, antiviral drug, enzyme- prodrug gene, DNA synthesis, ATP-binding; HET: SCT; 1.95A {Herpes simplex virus} SCOP: c.37.1.1

Probab=83.81  E-value=0.45  Score=44.23  Aligned_cols=25  Identities=20%  Similarity=0.309  Sum_probs=18.9

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      |.|-|+=|+||||+++.+++.++..
T Consensus        52 It~EG~dGsGKTT~~~~Lae~L~~~   76 (376)
T 1of1_A           52 VYIDGPHGMGKTTTTQLLVALGSRD   76 (376)
T ss_dssp             EEECSSTTSSHHHHHHHHHC----C
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhhC
Confidence            5578999999999999999988643

>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic hypermutat protein-DNA complex, DNA mispair, cancer; HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B* 2o8e_B* 2o8f_B*

Probab=83.08  E-value=0.67  Score=48.58  Aligned_cols=21  Identities=33%  Similarity=0.420  Sum_probs=18.6

Q ss_pred             ceeEEEcCCCCChHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMA  265 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA  265 (288)
                      +-++|.||.|+||||+.+.|+
T Consensus       790 ~i~~ItGpNgsGKSTlLr~iG  810 (1022)
T 2o8b_B          790 YCVLVTGPNMGGKSTLMRQAG  810 (1022)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCChHHHHHHHH
Confidence            458899999999999999983

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=83.05  E-value=0.54  Score=44.13  Aligned_cols=24  Identities=42%  Similarity=0.560  Sum_probs=20.7

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .-+.+.|.||+|||||+.++.+.-
T Consensus       176 ~ki~lvG~~nvGKSSLin~l~~~~  199 (436)
T 2hjg_A          176 IQFCLIGRPNVGKSSLVNAMLGEE  199 (436)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTST
T ss_pred             cEEEEEcCCCCCHHHHHHHHhCCC
Confidence            458899999999999999998653

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=82.98  E-value=0.35  Score=52.06  Aligned_cols=36  Identities=22%  Similarity=0.416  Sum_probs=26.7

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCc--EEEEecCCC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFN--IYDMELTSV  280 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~--i~~l~~~~~  280 (288)
                      .-+-++||+|+||||++.++.+.+...  -+.+++-++
T Consensus      1106 e~vaIVG~SGsGKSTL~~lL~rl~~p~~G~I~iDG~di 1143 (1321)
T 4f4c_A         1106 QTLALVGPSGCGKSTVVALLERFYDTLGGEIFIDGSEI 1143 (1321)
T ss_dssp             CEEEEECSTTSSTTSHHHHHTTSSCCSSSEEEETTEET
T ss_pred             CEEEEECCCCChHHHHHHHHhcCccCCCCEEEECCEEh
Confidence            337899999999999999999877532  344444444

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=82.98  E-value=0.83  Score=48.98  Aligned_cols=25  Identities=24%  Similarity=0.482  Sum_probs=22.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +-+.||+|+||||++++|++.+...
T Consensus      1062 v~ivG~sGsGKSTl~~~l~g~~~p~ 1086 (1284)
T 3g5u_A         1062 LALVGSSGCGKSTVVQLLERFYDPM 1086 (1284)
T ss_dssp             EEEECSSSTTHHHHHHHHTTSSCCS
T ss_pred             EEEECCCCCCHHHHHHHHhcCcCCC
Confidence            6799999999999999999887654

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=82.88  E-value=1.2  Score=40.88  Aligned_cols=24  Identities=25%  Similarity=0.415  Sum_probs=21.5

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.+.+.|.||+||||++.+|.+..
T Consensus       161 ~~i~~vG~~nvGKStliN~L~~~~  184 (368)
T 3h2y_A          161 KDVYVVGCTNVGKSTFINRMIKEF  184 (368)
T ss_dssp             SCEEEEEBTTSSHHHHHHHHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHhhh
Confidence            468899999999999999999874

>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase, T4-bacteriophage, recombination, hydrolase; 2.70A {Enterobacteria phage T4}

Probab=82.87  E-value=0.78  Score=43.39  Aligned_cols=33  Identities=27%  Similarity=0.284  Sum_probs=23.8

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHh---CC-cEEEEec
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYL---KF-NIYDMEL  277 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l---~~-~i~~l~~  277 (288)
                      +..++.||+|+|||..+..++..+   +. .++.+-.
T Consensus       129 ~~~ll~~~tGsGKT~~~~~~~~~~~~~~~~~vlvl~P  165 (510)
T 2oca_A          129 RRRILNLPTSAGRSLIQALLARYYLENYEGKILIIVP  165 (510)
T ss_dssp             SEEEEECCSTTTHHHHHHHHHHHHHHHCSSEEEEEES
T ss_pred             CCcEEEeCCCCCHHHHHHHHHHHHHhCCCCeEEEEEC
Confidence            468999999999999987766552   32 5555543

>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=82.66  E-value=1.1  Score=41.35  Aligned_cols=32  Identities=16%  Similarity=0.252  Sum_probs=25.7

Q ss_pred             eEEE-cCCCCChHHHHHHHHHHh---------CCcEEEEecC
Q 045456          247 YLLF-GPPGTGKSSLIAAMANYL---------KFNIYDMELT  278 (288)
Q Consensus       247 ~LL~-GPpGtGKTsla~aiA~~l---------~~~i~~l~~~  278 (288)
                      +.++ |-.|+||||++..+|..+         |..+..|++.
T Consensus       111 Iav~s~KGGvGKTT~a~nLA~~La~~~~~~~~g~rVlliD~D  152 (398)
T 3ez2_A          111 IFISNLKGGVSKTVSTVSLAHAMRAHPHLLMEDLRILVIDLD  152 (398)
T ss_dssp             EEECCSSSSSSHHHHHHHHHHHHHHCTTTGGGCCCEEEEEEC
T ss_pred             EEEEeCCCCccHHHHHHHHHHHHHhcchhhcCCCeEEEEeCC
Confidence            4444 779999999998888765         7888888875

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=81.70  E-value=0.48  Score=42.62  Aligned_cols=26  Identities=19%  Similarity=0.171  Sum_probs=23.0

Q ss_pred             ccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          243 WKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       243 ~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      ....||||||+|+||++.+.++++.+
T Consensus        17 ~~~~yl~~G~e~~~~~~~~~~l~~~~   42 (343)
T 1jr3_D           17 LRAAYLLLGNDPLLLQESQDAVRQVA   42 (343)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCcHHHHHHHHHHHHHHH
Confidence            35589999999999999999999876

>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX, structural genomics, structural genomi consortium, SGC, ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}

Probab=81.28  E-value=0.99  Score=37.75  Aligned_cols=18  Identities=22%  Similarity=0.318  Sum_probs=15.1

Q ss_pred             ceeEEEcCCCCChHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIA  262 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~  262 (288)
                      +.+++.+|+|+|||..+.
T Consensus        58 ~~~l~~apTGsGKT~~~~   75 (228)
T 3iuy_A           58 IDLIVVAQTGTGKTLSYL   75 (228)
T ss_dssp             CCEEEECCTTSCHHHHHH
T ss_pred             CCEEEECCCCChHHHHHH
Confidence            568999999999997543

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=80.78  E-value=0.66  Score=46.10  Aligned_cols=15  Identities=53%  Similarity=0.727  Sum_probs=13.9

Q ss_pred             eEEEcCCCCChHHHH
Q 045456          247 YLLFGPPGTGKSSLI  261 (288)
Q Consensus       247 ~LL~GPpGtGKTsla  261 (288)
                      +-|.||+|+|||||+
T Consensus        47 ~~liGpNGaGKSTLl   61 (670)
T 3ux8_A           47 VVLTGLSGSGKSSLA   61 (670)
T ss_dssp             EEEECSTTSSHHHHH
T ss_pred             EEEECCCCCCHHHHh
Confidence            679999999999996

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=80.34  E-value=2.3  Score=42.57  Aligned_cols=22  Identities=27%  Similarity=0.442  Sum_probs=20.0

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .+.+.|+||+||||++.++.+.
T Consensus        71 ~V~VvG~~naGKSSLlNaLlg~   92 (695)
T 2j69_A           71 RLLVLGDMKRGKSTFLNALIGE   92 (695)
T ss_dssp             EEEEECCTTSCHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999999864

---

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	288
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	9e-09
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	1e-08
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	2e-08
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	3e-08
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	4e-07
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	5e-06
d2fnaa2	283	c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfo	4e-05
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	7e-05
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	2e-04
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	3e-04
d1lw7a2	192	c.37.1.1 (A:220-411) Transcriptional regulator Nad	0.001
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	0.001
d1g8pa_	333	c.37.1.20 (A:) ATPase subunit of magnesium chelata	0.003
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	0.003
d1g41a_	443	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	0.004

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 258

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]

 Score = 52.7 bits (125), Expect = 9e-09
 Identities = 16/76 (21%), Positives = 33/76 (43%)

Query: 208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANY 267
            +D +           + ++  ++    ++ +G    RG LL+GPPGTGK+ +  A+AN 
Sbjct: 2   GYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE 61

Query: 268 LKFNIYDMELTSVYCN 283
                + +    +   
Sbjct: 62  TGAFFFLINGPEIMSK 77

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]} Length = 256

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]

 Score = 52.1 bits (125), Expect = 1e-08
 Identities = 19/77 (24%), Positives = 40/77 (51%), Gaps = 4/77 (5%)

Query: 208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANY 267
           TF  +A     K+  + +L  +++  + ++++G    +G L+ GPPGTGK+ L  A+A  
Sbjct: 10  TFADVAGCDEAKEE-VAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE 68

Query: 268 LKFNIYDM---ELTSVY 281
            K   + +   +   ++
Sbjct: 69  AKVPFFTISGSDFVEMF 85

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]} Length = 247

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]

 Score = 51.4 bits (123), Expect = 2e-08
 Identities = 19/73 (26%), Positives = 33/73 (45%), Gaps = 1/73 (1%)

Query: 208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANY 267
           TF  +A     K+  + ++  F+K  + +  +G    +G LL GPPG GK+ L  A+A  
Sbjct: 7   TFKDVAGAEEAKEE-LKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE 65

Query: 268 LKFNIYDMELTSV 280
            +        +  
Sbjct: 66  ARVPFITASGSDF 78

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 265

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]

 Score = 51.4 bits (122), Expect = 3e-08
 Identities = 18/73 (24%), Positives = 36/73 (49%)

Query: 208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANY 267
           T++ I     +K+   + +   V+  + + + G    +G L +GPPG GK+ L  A+AN 
Sbjct: 5   TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANE 64

Query: 268 LKFNIYDMELTSV 280
            + N   ++   +
Sbjct: 65  CQANFISIKGPEL 77

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]} Length = 362

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

 Score = 48.5 bits (115), Expect = 4e-07
 Identities = 17/85 (20%), Positives = 29/85 (34%), Gaps = 7/85 (8%)

Query: 211 KIAMDPSMKQASIDDLDRFVKRRNF-------YRRVGKVWKRGYLLFGPPGTGKSSLIAA 263
             + D     A +  L   + + +                KR +L  GP  +GK++L AA
Sbjct: 114 TGSADIEEWMAGVAWLHCLLPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAA 173

Query: 264 MANYLKFNIYDMELTSVYCNSELRR 288
           +         ++ L     N EL  
Sbjct: 174 LLELCGGKALNVNLPLDRLNFELGV 198

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 253

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]

 Score = 44.4 bits (103), Expect = 5e-06
 Identities = 16/86 (18%), Positives = 33/86 (38%), Gaps = 4/86 (4%)

Query: 206 PATFDKIAMDPSMKQASIDDLDRFVKRRN----FYRRVGKVWKRGYLLFGPPGTGKSSLI 261
           P    ++  +        + L  +   +        + G    R  +L+GPPG GK++  
Sbjct: 10  PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAA 69

Query: 262 AAMANYLKFNIYDMELTSVYCNSELR 287
             +A  L ++I +   + V   + L 
Sbjct: 70  HLVAQELGYDILEQNASDVRSKTLLN 95

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]} Length = 283

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]

 Score = 42.0 bits (97), Expect = 4e-05
 Identities = 14/64 (21%), Positives = 24/64 (37%)

Query: 223 IDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC 282
            D+   F  R     ++  +     L+ G   TGKSS+I    N L      ++L     
Sbjct: 8   KDNRKDFFDREKEIEKLKGLRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEE 67

Query: 283 NSEL 286
            + +
Sbjct: 68  RNYI 71

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 309

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]

 Score = 41.4 bits (96), Expect = 7e-05
 Identities = 14/59 (23%), Positives = 23/59 (38%), Gaps = 7/59 (11%)

Query: 233 RNFYRRVG-------KVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNS 284
           RN +RR+        +V  +  L+ GP G GK+ +   +A         +E T      
Sbjct: 31  RNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVG 89

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 246

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]

 Score = 39.5 bits (91), Expect = 2e-04
 Identities = 14/53 (26%), Positives = 24/53 (45%), Gaps = 3/53 (5%)

Query: 223 IDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDM 275
           +DD +  V+     +   +      LL GPP +GK++L A +A    F    +
Sbjct: 22  LDDGELLVQ---QTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKI 71

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} Length = 287

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]

 Score = 39.4 bits (90), Expect = 3e-04
 Identities = 11/61 (18%), Positives = 15/61 (24%)

Query: 223 IDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC 282
            + L R    R             Y   G  G GK++L       +        LT    
Sbjct: 25  AEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQA 84

Query: 283 N 283
            
Sbjct: 85  Y 85

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]} Length = 192

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]

 Score = 37.0 bits (84), Expect = 0.001
 Identities = 9/45 (20%), Positives = 14/45 (31%), Gaps = 8/45 (17%)

Query: 232 RRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDME 276
           R  F + V         + G   +GKS L+  +A           
Sbjct: 3   RPFFAKTV--------AILGGESSGKSVLVNKLAAVFNTTSAWEY 39

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]} Length = 239

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]

 Score = 37.2 bits (85), Expect = 0.001
 Identities = 20/68 (29%), Positives = 31/68 (45%), Gaps = 8/68 (11%)

Query: 206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMA 265
           P T D+      +KQ     L  +++      +  K      LLFGPPG GK++L   +A
Sbjct: 5   PKTLDEYIGQERLKQK----LRVYLE----AAKARKEPLEHLLLFGPPGLGKTTLAHVIA 56

Query: 266 NYLKFNIY 273
           + L  N+ 
Sbjct: 57  HELGVNLR 64

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]} Length = 333

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

 Score = 36.1 bits (82), Expect = 0.003
 Identities = 12/23 (52%), Positives = 16/23 (69%)

Query: 246 GYLLFGPPGTGKSSLIAAMANYL 268
           G L+FG  GTGKS+ + A+A  L
Sbjct: 30  GVLVFGDRGTGKSTAVRALAALL 52

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]} Length = 273

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]

 Score = 36.1 bits (82), Expect = 0.003
 Identities = 13/54 (24%), Positives = 24/54 (44%), Gaps = 5/54 (9%)

Query: 215 DPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL 268
           D   +    D+L+  ++ +             +LL G PG+GK+SL +A+    
Sbjct: 8   DKQFENRLNDNLEELIQGKK-----AVESPTAFLLGGQPGSGKTSLRSAIFEET 56

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 443

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]

 Score = 36.3 bits (83), Expect = 0.004
 Identities = 18/73 (24%), Positives = 29/73 (39%), Gaps = 19/73 (26%)

Query: 226 LDRFV------KR------RNFYRRV-------GKVWKRGYLLFGPPGTGKSSLIAAMAN 266
           LD+ +      KR      RN +RR+        +V  +  L+ GP G GK+ +   +A 
Sbjct: 12  LDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK 71

Query: 267 YLKFNIYDMELTS 279
                   +E T 
Sbjct: 72  LANAPFIKVEATK 84

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	288
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.7
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.67
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.67
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.64
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.53
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.52
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.48
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.29
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.18
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.17
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.14
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	99.14
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.06
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.02
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.99
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.99
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.98
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	98.94
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	98.74
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.73
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.63
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	98.59
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.39
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	98.25
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.2
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.14
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.98
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.84
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.83
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.75
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	97.71
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.67
d1tuea_	205	Replication protein E1 helicase domain {Human papi	97.54
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	97.48
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.38
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.25
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	97.2
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	97.15
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	97.09
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	97.07
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.96
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.82
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	96.82
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	96.61
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	96.61
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	96.49
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	96.47
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	96.4
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.23
d2awna2	232	Maltose transport protein MalK, N-terminal domain	95.81
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	95.81
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	95.8
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	95.78
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	95.71
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.7
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.68
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.64
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	95.63
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.63
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	95.52
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	95.46
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	95.37
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.35
d1g2912	240	Maltose transport protein MalK, N-terminal domain	95.27
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.2
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	95.19
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	95.19
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.19
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	95.1
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	95.1
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	94.99
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	94.94
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	94.92
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.85
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	94.81
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	94.73
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	94.71
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	94.67
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	94.54
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.43
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	94.42
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.26
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	94.24
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	94.17
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	94.05
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.97
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	93.84
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	93.51
d1xpua3	289	Transcription termination factor Rho, ATPase domai	93.51
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	93.5
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	93.49
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	93.39
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.36
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	93.32
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	93.28
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	93.07
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	92.89
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	92.73
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	92.48
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	92.31
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	92.29
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	90.78
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	90.39
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	90.11
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	89.68
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	89.5
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	89.23
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	89.12
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	88.69
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	88.18
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	86.72
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	86.61
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	86.21
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	86.16
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	85.77
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	85.35
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	85.09
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	84.35
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	84.15
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	84.13
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	84.0
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	83.66
d1bg2a_	323	Kinesin {Human (Homo sapiens) [TaxId: 9606]}	82.52
d1goja_	354	Kinesin {Neurospora crassa [TaxId: 5141]}	82.02
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	81.23
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	80.68
d1c4oa1	408	Nucleotide excision repair enzyme UvrB {Thermus th	80.48
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	80.44
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	80.43
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	80.23

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.70  E-value=6.2e-18  Score=149.38  Aligned_cols=77  Identities=21%  Similarity=0.348  Sum_probs=73.1

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      .+|+||+|.+++|++|.+.+..++.+++.|++.|+++++|+|||||||||||++++++|++++.+++.++.+++.+.
T Consensus         1 ~~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~   77 (258)
T d1e32a2           1 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK   77 (258)
T ss_dssp             CCGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTS
T ss_pred             CChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhccc
Confidence            37999999999999999999999999999999999999999999999999999999999999999999998876654

>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=99.67  E-value=3.3e-17  Score=144.77  Aligned_cols=79  Identities=23%  Similarity=0.406  Sum_probs=68.2

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      ..+.||+|++|.+++|++|.+.+. ++.+++.|+++|..+++|+|||||||||||++|++||++++.|++.++.+++.+.
T Consensus         6 ~~~~t~~Di~Gl~~~k~~l~e~v~-~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~~~   84 (256)
T d1lv7a_           6 QIKTTFADVAGCDEAKEEVAELVE-YLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEM   84 (256)
T ss_dssp             SSCCCGGGSCSCHHHHHHTHHHHH-HHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTS
T ss_pred             CCCCCHHHHhchHHHHHHHHHHHH-HHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhhhc
Confidence            345799999999999999988765 6889999999999999999999999999999999999999999999999998764

>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=99.67  E-value=2.6e-17  Score=144.68  Aligned_cols=77  Identities=25%  Similarity=0.376  Sum_probs=70.5

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      |+.+|+||+|.+++|++|.+.+ .++.+++.|.++|..+++|+|||||||||||++|++||++++.+++.++.+++.+
T Consensus         4 p~~~~~di~G~~~~k~~l~~~i-~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~   80 (247)
T d1ixza_           4 PKVTFKDVAGAEEAKEELKEIV-EFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVE   80 (247)
T ss_dssp             CSCCGGGCCSCHHHHHHHHHHH-HHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHH
T ss_pred             CCCcHHHHccHHHHHHHHHHHH-HHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhhh
Confidence            4569999999999999997755 5688999999999999999999999999999999999999999999999887654

>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=99.64  E-value=4e-17  Score=144.76  Aligned_cols=77  Identities=23%  Similarity=0.366  Sum_probs=72.7

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      ..+|+||+|.+++|++|.+.+..++.+++.|.+.|+++++|+|||||||||||++++++|++++.+++.++.+++.+
T Consensus         3 ~~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~   79 (265)
T d1r7ra3           3 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLT   79 (265)
T ss_dssp             CCSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHT
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhh
Confidence            45999999999999999999999999999999999999999999999999999999999999999999999876543

>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=99.53  E-value=2.1e-15  Score=130.74  Aligned_cols=88  Identities=20%  Similarity=0.347  Sum_probs=72.2

Q ss_pred             CCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHH----HHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcE
Q 045456          197 AWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRN----FYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNI  272 (288)
Q Consensus       197 ~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~----~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i  272 (288)
                      .|  ++++.|.+|++|+|+++.+++|.+.+..+.....    .....+..+.+++|||||||||||++|+++|++++.++
T Consensus         3 lW--~eky~P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~~   80 (253)
T d1sxja2           3 LW--TVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDI   80 (253)
T ss_dssp             CH--HHHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEE
T ss_pred             cc--ccCcCCCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhhh
Confidence            46  4679999999999999999999998877654322    12234556677899999999999999999999999999


Q ss_pred             EEEecCCCCCcccc
Q 045456          273 YDMELTSVYCNSEL  286 (288)
Q Consensus       273 ~~l~~~~~~~~~~l  286 (288)
                      +.++.+++.+...+
T Consensus        81 ~~~~~~~~~~~~~~   94 (253)
T d1sxja2          81 LEQNASDVRSKTLL   94 (253)
T ss_dssp             EEECTTSCCCHHHH
T ss_pred             hccccccchhhHHH
Confidence            99999998876544

>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=99.52  E-value=9.6e-15  Score=125.76  Aligned_cols=76  Identities=25%  Similarity=0.302  Sum_probs=63.8

Q ss_pred             CCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          203 LDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       203 ~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      +-+|.+|++++|++++++.|...++....+       + ....++|||||||||||++|+++|++++.+++.++.++...
T Consensus         2 ~~RP~~~~divGqe~~~~~l~~~i~~~~~~-------~-~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~~   73 (238)
T d1in4a2           2 FLRPKSLDEFIGQENVKKKLSLALEAAKMR-------G-EVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVK   73 (238)
T ss_dssp             TTSCSSGGGCCSCHHHHHHHHHHHHHHHHH-------T-CCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCS
T ss_pred             CCCCCcHHHcCChHHHHHHHHHHHHHHHhc-------C-CCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCccccc
Confidence            357899999999999999998887754332       2 23458999999999999999999999999999999988877


Q ss_pred             cccc
Q 045456          283 NSEL  286 (288)
Q Consensus       283 ~~~l  286 (288)
                      ..++
T Consensus        74 ~~~~   77 (238)
T d1in4a2          74 QGDM   77 (238)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6554

>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=99.48  E-value=2.9e-14  Score=122.90  Aligned_cols=71  Identities=28%  Similarity=0.303  Sum_probs=60.7

Q ss_pred             CCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          205 HPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       205 ~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      +|.+|+|++|++++++++...++....        +...+.++|||||||||||++|+++|+++++++..++.+.....
T Consensus         4 RP~~~ddivGq~~~~~~L~~~i~~~~~--------~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~~~~   74 (239)
T d1ixsb2           4 RPKTLDEYIGQERLKQKLRVYLEAAKA--------RKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP   74 (239)
T ss_dssp             CCCSGGGSCSCHHHHHHHHHHHHHHTT--------SSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTCCSH
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHHh--------cCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCccccc
Confidence            689999999999999999887765432        22345789999999999999999999999999999999887654

>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=99.29  E-value=9.5e-13  Score=118.51  Aligned_cols=73  Identities=21%  Similarity=0.249  Sum_probs=57.7

Q ss_pred             cccChhhhHHHHHHHHHHhhcHHHHHHhC-CcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCcc
Q 045456          212 IAMDPSMKQASIDDLDRFVKRRNFYRRVG-KVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNS  284 (288)
Q Consensus       212 l~~~~~~k~~i~~~l~~~~~~~~~~~~~g-~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~  284 (288)
                      |+|++++|+.|...+..++++........ ..+++|+||+||||||||++|++||++++.+++.++.+++...+
T Consensus        16 ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~~~~   89 (309)
T d1ofha_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVG   89 (309)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCC
T ss_pred             ccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccchhcccccccccce
Confidence            68999999999988866554332221111 12468999999999999999999999999999999999987654

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.18  E-value=5.2e-12  Score=107.91  Aligned_cols=73  Identities=22%  Similarity=0.359  Sum_probs=58.7

Q ss_pred             CCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC-----Cc
Q 045456          197 AWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK-----FN  271 (288)
Q Consensus       197 ~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~-----~~  271 (288)
                      .|  ++.+.|.+|+||+|++++++.|...++.           +.  ...+||+||||||||++|+++|++++     .+
T Consensus        13 ~w--~~ky~P~~~~diig~~~~~~~l~~~i~~-----------~~--~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~   77 (231)
T d1iqpa2          13 PW--VEKYRPQRLDDIVGQEHIVKRLKHYVKT-----------GS--MPHLLFAGPPGVGKTTAALALARELFGENWRHN   77 (231)
T ss_dssp             CH--HHHTCCCSTTTCCSCHHHHHHHHHHHHH-----------TC--CCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHH
T ss_pred             hH--HHHhCCCCHHHccCcHHHHHHHHHHHHc-----------CC--CCeEEEECCCCCcHHHHHHHHHHHHHhcccCCC
Confidence            57  5789999999999999988888776542           11  23699999999999999999999874     57


Q ss_pred             EEEEecCCCCCcc
Q 045456          272 IYDMELTSVYCNS  284 (288)
Q Consensus       272 i~~l~~~~~~~~~  284 (288)
                      ++.++.++..+..
T Consensus        78 ~~e~n~s~~~~~~   90 (231)
T d1iqpa2          78 FLELNASDERGIN   90 (231)
T ss_dssp             EEEEETTCHHHHH
T ss_pred             eeEEecCcccchh
Confidence            8888887755443

>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=99.17  E-value=2e-11  Score=106.41  Aligned_cols=69  Identities=22%  Similarity=0.238  Sum_probs=54.1

Q ss_pred             cccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          210 DKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       210 ~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                      +-+++..+..+.+.+.+..++....   .....+++|+|||||||||||++|++||++++.|++.++.++..
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~---~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~   77 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTK---NSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKM   77 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHH---HCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGC
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHh---ccCCCCCeEEEEECcCCCCHHHHHHHHhhccccccccccccccc
Confidence            3456666677778888887776432   22334578999999999999999999999999999999987654

>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=99.14  E-value=1.1e-11  Score=105.49  Aligned_cols=75  Identities=15%  Similarity=0.238  Sum_probs=59.5

Q ss_pred             CCCccCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC-----c
Q 045456          197 AWGSTNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF-----N  271 (288)
Q Consensus       197 ~w~~~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~-----~  271 (288)
                      .|  +++++|.+|+|++|++++++.+...+..           +.  ...+||+||||||||++|+++|++++.     +
T Consensus         4 pw--~eKyrP~~~~d~ig~~~~~~~L~~~~~~-----------~~--~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~   68 (224)
T d1sxjb2           4 PW--VEKYRPQVLSDIVGNKETIDRLQQIAKD-----------GN--MPHMIISGMPGIGKTTSVHCLAHELLGRSYADG   68 (224)
T ss_dssp             CH--HHHTCCSSGGGCCSCTHHHHHHHHHHHS-----------CC--CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHH
T ss_pred             ch--HhHhCCCCHHHhcCCHHHHHHHHHHHHc-----------CC--CCeEEEECCCCCCchhhHHHHHHHHhccccccc
Confidence            47  4689999999999999888877765531           21  235999999999999999999999874     5


Q ss_pred             EEEEecCCCCCcccc
Q 045456          272 IYDMELTSVYCNSEL  286 (288)
Q Consensus       272 i~~l~~~~~~~~~~l  286 (288)
                      ++.++.++..+...+
T Consensus        69 ~~~~n~~~~~~~~~i   83 (224)
T d1sxjb2          69 VLELNASDDRGIDVV   83 (224)
T ss_dssp             EEEECTTSCCSHHHH
T ss_pred             cccccccccCCceeh
Confidence            888988887765443

>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=99.14  E-value=8.5e-12  Score=107.99  Aligned_cols=60  Identities=22%  Similarity=0.330  Sum_probs=46.9

Q ss_pred             hhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCC
Q 045456          217 SMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVY  281 (288)
Q Consensus       217 ~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~  281 (288)
                      +.++.+.+.++.+....     .+...|+|+||+||||||||++|++||++++.+++.++.+++.
T Consensus        10 ~~~~~~~~~~~~~~~~~-----~~~~~P~~ilL~GpPGtGKT~la~~la~~~~~~~~~i~~d~~~   69 (273)
T d1gvnb_          10 QFENRLNDNLEELIQGK-----KAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTFK   69 (273)
T ss_dssp             HHHHHHHHHHHHHHTTC-----CCCSSCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHHH
T ss_pred             HHHHHHHHHHHHHHhcc-----cCCCCCEEEEEECCCCCCHHHHHHHHHHHhhcceEEEecHHHH
Confidence            44555555565554432     2556789999999999999999999999999999999886653

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=99.06  E-value=6.3e-11  Score=108.75  Aligned_cols=63  Identities=30%  Similarity=0.314  Sum_probs=50.6

Q ss_pred             hhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCcccc
Q 045456          216 PSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSEL  286 (288)
Q Consensus       216 ~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~l  286 (288)
                      +.+++.+.+.+..++        .|+|.++++|||||||||||++|.++|+++|.+++.+++++..+...+
T Consensus       134 ~~~~~~i~~~l~~~~--------~~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~~i~in~s~~rs~~~l  196 (362)
T d1svma_         134 PKMDSVVYDFLKCMV--------YNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFEL  196 (362)
T ss_dssp             TTHHHHHHHHHHHHH--------HCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTTTHHHHH
T ss_pred             cchHHHHHHHHHHHH--------hCCCCcCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEECcchhhHHHH
Confidence            345555555444333        388889999999999999999999999999999999999988776543

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.02  E-value=9e-11  Score=99.61  Aligned_cols=69  Identities=26%  Similarity=0.395  Sum_probs=53.2

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC-----cEEEE
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF-----NIYDM  275 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~-----~i~~l  275 (288)
                      +++++|.+|+|++|++++++.|...++.           +..  ..+|||||||||||++|+++|++++.     .++.+
T Consensus         5 ~ekyrP~~~~divg~~~~~~~L~~~i~~-----------~~~--~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~   71 (227)
T d1sxjc2           5 VEKYRPETLDEVYGQNEVITTVRKFVDE-----------GKL--PHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLEL   71 (227)
T ss_dssp             HHHTCCSSGGGCCSCHHHHHHHHHHHHT-----------TCC--CCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEE
T ss_pred             hhhhCCCCHHHccCcHHHHHHHHHHHHc-----------CCC--CeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEe
Confidence            4689999999999999888887775532           221  25999999999999999999999753     35666


Q ss_pred             ecCCCCC
Q 045456          276 ELTSVYC  282 (288)
Q Consensus       276 ~~~~~~~  282 (288)
                      +.++..+
T Consensus        72 ~~~~~~~   78 (227)
T d1sxjc2          72 NASDDRG   78 (227)
T ss_dssp             CTTSCCS
T ss_pred             cccccCC
Confidence            6655443

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.99  E-value=1.1e-10  Score=99.18  Aligned_cols=70  Identities=24%  Similarity=0.375  Sum_probs=54.7

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh------CCcEEE
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL------KFNIYD  274 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l------~~~i~~  274 (288)
                      ++.++|.+|++++|.+++++.+...+.    .       +.  ...++|+||||||||++++++|+++      +...+.
T Consensus         3 ~~ky~P~~~~diig~~~~~~~l~~~i~----~-------~~--~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~   69 (237)
T d1sxjd2           3 VEKYRPKNLDEVTAQDHAVTVLKKTLK----S-------AN--LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILE   69 (237)
T ss_dssp             HHHTCCSSTTTCCSCCTTHHHHHHHTT----C-------TT--CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEE
T ss_pred             chhhCCCCHHHccCcHHHHHHHHHHHH----c-------CC--CCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhh
Confidence            467899999999999988877765443    2       11  2359999999999999999999997      567787


Q ss_pred             EecCCCCCc
Q 045456          275 MELTSVYCN  283 (288)
Q Consensus       275 l~~~~~~~~  283 (288)
                      ++.+.....
T Consensus        70 ~~~~~~~~~   78 (237)
T d1sxjd2          70 LNASDERGI   78 (237)
T ss_dssp             ECSSSCCCH
T ss_pred             eeccccccc
Confidence            877666544

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.99  E-value=3e-10  Score=97.79  Aligned_cols=57  Identities=26%  Similarity=0.363  Sum_probs=47.0

Q ss_pred             CCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          202 NLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       202 ~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      .+++|.+|+|++|+++.++.+...+..           + ..+.++|||||||||||++|+++|++++.
T Consensus         4 ~KyrP~~~~dlig~~~~~~~L~~~i~~-----------~-~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~   60 (239)
T d1njfa_           4 RKWRPQTFADVVGQEHVLTALANGLSL-----------G-RIHHAYLFSGTRGVGKTSIARLLAKGLNC   60 (239)
T ss_dssp             HHTCCSSGGGSCSCHHHHHHHHHHHHT-----------T-CCCSEEEEECSTTSSHHHHHHHHHHHHHC
T ss_pred             hhhCCCCHHHccChHHHHHHHHHHHHc-----------C-CCCeeEEEECCCCCcHHHHHHHHHHHhcC
Confidence            367899999999999888877665542           2 23567999999999999999999999864

>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=98.98  E-value=1.2e-10  Score=99.91  Aligned_cols=56  Identities=18%  Similarity=0.291  Sum_probs=44.5

Q ss_pred             cCCCCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          201 TNLDHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       201 ~~~~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +++++|.+|++++|.+++++.|...+    ..       +. ...++|||||||||||++|+++|+++
T Consensus         2 ~eky~P~~~~diig~~~~~~~L~~~~----~~-------~~-~~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2           2 VDKYRPKSLNALSHNEELTNFLKSLS----DQ-------PR-DLPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             TTTTCCCSGGGCCSCHHHHHHHHTTT----TC-------TT-CCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             CcccCCCCHHHccCcHHHHHHHHHHH----Hc-------CC-CCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            47899999999999988777665432    21       11 12369999999999999999999997

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=98.94  E-value=4.5e-10  Score=105.55  Aligned_cols=71  Identities=21%  Similarity=0.263  Sum_probs=55.8

Q ss_pred             cccChhhhHHHHHHHHHHhhcHHHHHHh-CCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCC
Q 045456          212 IAMDPSMKQASIDDLDRFVKRRNFYRRV-GKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYC  282 (288)
Q Consensus       212 l~~~~~~k~~i~~~l~~~~~~~~~~~~~-g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~  282 (288)
                      ++|+++.|+.+.-++....++-..-... ..-.|+++||.||||||||.+|+++|+.++.||+.++++.++.
T Consensus        16 VvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~VPFv~~daT~fTe   87 (443)
T d1g41a_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTE   87 (443)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC-
T ss_pred             ccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhCCCEEEeecceeee
Confidence            6899999999988887665432211111 1123679999999999999999999999999999999998765

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=98.74  E-value=8.7e-10  Score=99.29  Aligned_cols=49  Identities=16%  Similarity=0.247  Sum_probs=41.1

Q ss_pred             HHHHhCCcccceeEE-EcCCCCChHHHHHHHHHHhC--CcEEEEecCCCCCc
Q 045456          235 FYRRVGKVWKRGYLL-FGPPGTGKSSLIAAMANYLK--FNIYDMELTSVYCN  283 (288)
Q Consensus       235 ~~~~~g~~~~rg~LL-~GPpGtGKTsla~aiA~~l~--~~i~~l~~~~~~~~  283 (288)
                      .++.+|...++|++| |||||||||.+|+++|++++  .+++.++++++.+.
T Consensus       113 ~~~~~~~~~~~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~  164 (321)
T d1w44a_         113 VAEFGGHRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSG  164 (321)
T ss_dssp             EEEETTEEEESEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTT
T ss_pred             HHHHhhcccCCceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhc
Confidence            344556667788665 89999999999999999987  78999999999875

>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=98.73  E-value=1.3e-08  Score=86.80  Aligned_cols=66  Identities=15%  Similarity=0.093  Sum_probs=50.2

Q ss_pred             ccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC----CcEEEEecCCCC
Q 045456          209 FDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK----FNIYDMELTSVY  281 (288)
Q Consensus       209 ~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~----~~i~~l~~~~~~  281 (288)
                      .+++++-+.+.+.|.+.+...+.++.       ..++++||+||||||||++++++|+.+.    ..++.++.....
T Consensus        15 p~~l~~Re~ei~~l~~~l~~~l~~~~-------~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~   84 (276)
T d1fnna2          15 PKRLPHREQQLQQLDILLGNWLRNPG-------HHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYR   84 (276)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTT-------SSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCC
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhCCC-------CCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhh
Confidence            35678888888888888876665432       3467899999999999999999999984    556666655443

>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=98.63  E-value=3e-08  Score=88.76  Aligned_cols=69  Identities=13%  Similarity=0.245  Sum_probs=53.5

Q ss_pred             ccccChhhhHHHHHHHHHHhhcHHHHHHhCC-cccc-eeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCccc
Q 045456          211 KIAMDPSMKQASIDDLDRFVKRRNFYRRVGK-VWKR-GYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCNSE  285 (288)
Q Consensus       211 ~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~-~~~r-g~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~~~  285 (288)
                      .|+|++++++.|.+.+......      +.. ..+. .+||.||||||||.+|+++|..++.|++.+++++..+...
T Consensus        23 ~viGQ~~a~~~v~~~v~~~~~~------l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d~s~~~~~~~   93 (315)
T d1r6bx3          23 LVFGQDKAIEALTEAIKMARAG------LGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHT   93 (315)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHTT------CSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSC
T ss_pred             eecChHHHHHHHHHHHHHHHcc------CCCCCCCceEEEEECCCcchhHHHHHHHHhhccCCeeEeccccccchhh
Confidence            4689999999998877643211      111 1133 4889999999999999999999999999999999877543

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=98.59  E-value=4.1e-08  Score=89.67  Aligned_cols=71  Identities=25%  Similarity=0.270  Sum_probs=54.5

Q ss_pred             ccccChhhhHHHHHHHHHHhhcHHH------------------HHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcE
Q 045456          211 KIAMDPSMKQASIDDLDRFVKRRNF------------------YRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNI  272 (288)
Q Consensus       211 ~l~~~~~~k~~i~~~l~~~~~~~~~------------------~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i  272 (288)
                      -|+|++++|+.+..++....++...                  ..+.++ ++..+||.||+|||||.+|+++|..++.|+
T Consensus        18 ~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~-p~~niLfiGPTGvGKTElAk~LA~~~~~~~   96 (364)
T d1um8a_          18 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVEL-SKSNILLIGPTGSGKTLMAQTLAKHLDIPI   96 (364)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTC-CCCCEEEECCTTSSHHHHHHHHHHHTTCCE
T ss_pred             eecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccC-CCcceeeeCCCCccHHHHHHHHHhhcccce
Confidence            4789999999998888544332111                  111122 466799999999999999999999999999


Q ss_pred             EEEecCCCCC
Q 045456          273 YDMELTSVYC  282 (288)
Q Consensus       273 ~~l~~~~~~~  282 (288)
                      +.++.+....
T Consensus        97 ir~D~s~~~e  106 (364)
T d1um8a_          97 AISDATSLTE  106 (364)
T ss_dssp             EEEEGGGCC-
T ss_pred             eehhhhhccc
Confidence            9999988765

>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=98.39  E-value=1.5e-07  Score=80.38  Aligned_cols=54  Identities=15%  Similarity=0.058  Sum_probs=38.8

Q ss_pred             ccccccChhhhHHHHHHHHHHhhcHHHHHHhCCccc---ceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          209 FDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWK---RGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       209 ~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~---rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .+.+.+-+++.+.|.+.+...+.+       |....   ..++|+||||||||++++++|+++.
T Consensus        15 P~~~~~Re~e~~~l~~~l~~~~~~-------~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~   71 (287)
T d1w5sa2          15 PPELRVRRGEAEALARIYLNRLLS-------GAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVS   71 (287)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHT-------SSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHc-------CCCCCCcceEEEeECCCCCCHHHHHHHHHHHHH
Confidence            356677777888887776655543       22222   2367899999999999999999873

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=98.25  E-value=2.6e-07  Score=82.52  Aligned_cols=49  Identities=37%  Similarity=0.476  Sum_probs=38.4

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .|.+|+|++++|+.+.-.+..    .      |   ..++||.||||||||++|+++|.-|.
T Consensus         5 ~f~~I~Gq~~~kral~laa~~----~------~---~h~vLl~G~pG~GKT~lar~~~~iLp   53 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVD----P------G---IGGVLVFGDRGTGKSTAVRALAALLP   53 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHC----G------G---GCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             ChhhccCcHHHHHHHHHHHhc----c------C---CCeEEEECCCCccHHHHHHHHHHhCC
Confidence            799999999988866543321    0      1   23699999999999999999998773

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.20  E-value=8.5e-07  Score=79.12  Aligned_cols=68  Identities=19%  Similarity=0.311  Sum_probs=51.4

Q ss_pred             ccccChhhhHHHHHHHHHHhhcHHHHHHhC-Ccccc-eeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCCCcc
Q 045456          211 KIAMDPSMKQASIDDLDRFVKRRNFYRRVG-KVWKR-GYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVYCNS  284 (288)
Q Consensus       211 ~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g-~~~~r-g~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~~~~  284 (288)
                      .|+|+++.++.|...+......      +. ...+. .+||+||||||||.+|+++|..+   +.+++.++.++..+..
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~------l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~~~~   96 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAG------LKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKH   96 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGG------CSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSG
T ss_pred             eEeCHHHHHHHHHHHHHHHhcC------CCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccccccch
Confidence            4678888888888877654321      11 11233 36788999999999999999998   7899999999887654

>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=98.14  E-value=2.3e-06  Score=72.37  Aligned_cols=60  Identities=18%  Similarity=0.078  Sum_probs=46.5

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecCCCCCc
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELTSVYCN  283 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~~~~~~  283 (288)
                      ..-++++|-++..+.|.+                 ...+.++++||+|+|||++++.+++.++.++..++.......
T Consensus         9 ~~~~~f~GR~~el~~l~~-----------------~~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~~i~~~~~~~~   68 (283)
T d2fnaa2           9 DNRKDFFDREKEIEKLKG-----------------LRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEER   68 (283)
T ss_dssp             CSGGGSCCCHHHHHHHHH-----------------TCSSEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGGTTC
T ss_pred             CChhhCCChHHHHHHHHh-----------------ccCCEEEEEcCCCCcHHHHHHHHHHHCCCCeEEEEecccccc
Confidence            456788887765544432                 135679999999999999999999999999999887655444

>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=97.98  E-value=7.4e-06  Score=68.71  Aligned_cols=67  Identities=15%  Similarity=0.277  Sum_probs=42.0

Q ss_pred             CCCCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          204 DHPATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       204 ~~p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      .+..||++.+..+.- +.....++.+...+      |. ..+.++||||||||||.|+.|+|+++   +..++.++..
T Consensus         4 n~~~tFdnF~vg~~N-~~a~~~~~~~~~~~------~~-~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~   73 (213)
T d1l8qa2           4 NPKYTLENFIVGEGN-RLAYEVVKEALENL------GS-LYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSAD   73 (213)
T ss_dssp             CTTCCSSSCCCCTTT-HHHHHHHHHHHHTT------TT-SCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             CCCCChhhccCCCcH-HHHHHHHHHHHhCc------CC-CCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEechH
Confidence            345699997643322 22333344333221      21 23458999999999999999999987   4555555543

>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=97.84  E-value=1.1e-05  Score=70.25  Aligned_cols=64  Identities=22%  Similarity=0.332  Sum_probs=45.4

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHH----------hCCcEEEEec
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANY----------LKFNIYDMEL  277 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~----------l~~~i~~l~~  277 (288)
                      .++.++|-++..+++.+.|.             ...+.++||.||||+|||+++..+|..          .+..++.+++
T Consensus        16 ~ld~~igRd~Ei~~l~~iL~-------------r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~   82 (268)
T d1r6bx2          16 GIDPLIGREKELERAIQVLC-------------RRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDI   82 (268)
T ss_dssp             CSCCCCSCHHHHHHHHHHHT-------------SSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCC
T ss_pred             CCCcccChHHHHHHHHHHHh-------------cCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeee
Confidence            45667777665555554332             123568999999999999999999975          4678999999


Q ss_pred             CCCCCcc
Q 045456          278 TSVYCNS  284 (288)
Q Consensus       278 ~~~~~~~  284 (288)
                      +.+.+..
T Consensus        83 ~~liag~   89 (268)
T d1r6bx2          83 GSLLAGT   89 (268)
T ss_dssp             C---CCC
T ss_pred             chHhccC
Confidence            9887754

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.83  E-value=5.5e-06  Score=68.77  Aligned_cols=63  Identities=17%  Similarity=0.366  Sum_probs=45.2

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----------CCcEEEEec
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----------KFNIYDMEL  277 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~  277 (288)
                      .++-++|-++..+++.+.+.             ..-+.+++|.||||+|||+++..+|..+          +..++.+++
T Consensus        20 ~ld~~igRd~Ei~~l~~iL~-------------r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~   86 (195)
T d1jbka_          20 KLDPVIGRDEEIRRTIQVLQ-------------RRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDM   86 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHT-------------SSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECH
T ss_pred             CCCCCcCcHHHHHHHHHHHh-------------ccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeH
Confidence            34556666655555544322             1235689999999999999999999744          688999998


Q ss_pred             CCCCCc
Q 045456          278 TSVYCN  283 (288)
Q Consensus       278 ~~~~~~  283 (288)
                      +.+.+.
T Consensus        87 ~~LiAg   92 (195)
T d1jbka_          87 GALVAG   92 (195)
T ss_dssp             HHHHTT
T ss_pred             HHHhcc
Confidence            877654

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.75  E-value=1.4e-06  Score=70.42  Aligned_cols=27  Identities=30%  Similarity=0.438  Sum_probs=23.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCcEE
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFNIY  273 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~i~  273 (288)
                      ++|.|+||+||||+|+++|..++.+++
T Consensus        22 I~L~G~pGSGKTTiAk~La~~l~~~~~   48 (195)
T d1x6va3          22 VWLTGLSGAGKTTVSMALEEYLVCHGI   48 (195)
T ss_dssp             EEEESSCHHHHHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCC
Confidence            668999999999999999999965433

>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=97.71  E-value=1.8e-05  Score=65.84  Aligned_cols=27  Identities=33%  Similarity=0.550  Sum_probs=24.3

Q ss_pred             ccceeEEEcCCCCChHHHHHHHHHHhC
Q 045456          243 WKRGYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       243 ~~rg~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .+.++||+||||+|||++|+++|+++.
T Consensus        23 l~h~lLl~Gp~G~GKtt~a~~~a~~l~   49 (207)
T d1a5ta2          23 GHHALLIQALPGMGDDALIYALSRYLL   49 (207)
T ss_dssp             CCSEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             cCeEEEEECCCCCcHHHHHHHHHHhcc
Confidence            466799999999999999999999873

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.67  E-value=1.4e-05  Score=64.67  Aligned_cols=34  Identities=21%  Similarity=0.186  Sum_probs=28.8

Q ss_pred             cccceeEEEcCCCCChHHHHHHHHHHhCCcEEEE
Q 045456          242 VWKRGYLLFGPPGTGKSSLIAAMANYLKFNIYDM  275 (288)
Q Consensus       242 ~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l  275 (288)
                      +.+.-++|.|+|||||||+|+.++..+++.++..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~~~~~i~~   45 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVNR   45 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGGTCEEEEH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhcCCEEEch
Confidence            4456789999999999999999999988876653

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=97.54  E-value=3.7e-05  Score=63.82  Aligned_cols=33  Identities=24%  Similarity=0.408  Sum_probs=29.0

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHhCCcE
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLKFNI  272 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~~i  272 (288)
                      |+|-++.++|+|||+||||++|.+|++.++--+
T Consensus        49 ~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~G~v   81 (205)
T d1tuea_          49 GTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAV   81 (205)
T ss_dssp             TCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEE
T ss_pred             CCCCceEEEEECCCCccHHHHHHHHHHHhCCEE
Confidence            677778899999999999999999999997543

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.48  E-value=0.00012  Score=62.48  Aligned_cols=59  Identities=12%  Similarity=0.222  Sum_probs=43.5

Q ss_pred             cccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCCC
Q 045456          212 IAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSVY  281 (288)
Q Consensus       212 l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~~  281 (288)
                      .++.+...+.+.+.++.....           ...+|++|||||||+.+|++|+...   ..+++.++...+.
T Consensus         2 ~v~~S~~~~~~~~~~~~~a~~-----------~~pvlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~   63 (247)
T d1ny5a2           2 YVFESPKMKEILEKIKKISCA-----------ECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIP   63 (247)
T ss_dssp             CCCCSHHHHHHHHHHHHHTTC-----------CSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSC
T ss_pred             eEecCHHHHHHHHHHHHHhCC-----------CCCEEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhh
Confidence            466666767776666654322           3459999999999999999999765   3578888887654

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.38  E-value=9.7e-05  Score=67.24  Aligned_cols=64  Identities=22%  Similarity=0.342  Sum_probs=41.5

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh----------CCcEEEEec
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL----------KFNIYDMEL  277 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l----------~~~i~~l~~  277 (288)
                      .+|-++|-++..+++.+.|.    +         .-+.+.+|.||||+|||.++..+|...          +..++.+++
T Consensus        20 ~ld~~~gr~~ei~~~~~~L~----r---------~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~   86 (387)
T d1qvra2          20 KLDPVIGRDEEIRRVIQILL----R---------RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQM   86 (387)
T ss_dssp             CSCCCCSCHHHHHHHHHHHH----C---------SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC
T ss_pred             CCCCCcCcHHHHHHHHHHHh----c---------CCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeH
Confidence            35556776666555555433    1         235678999999999999999888643          567999999


Q ss_pred             CCCCCcc
Q 045456          278 TSVYCNS  284 (288)
Q Consensus       278 ~~~~~~~  284 (288)
                      +.+....
T Consensus        87 ~~l~ag~   93 (387)
T d1qvra2          87 GSLLAGA   93 (387)
T ss_dssp             -------
T ss_pred             hhhhccc
Confidence            9887653

>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=97.25  E-value=0.00013  Score=60.83  Aligned_cols=39  Identities=23%  Similarity=0.208  Sum_probs=31.2

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      |++...-.+++||||||||++|..+|...   +.+++.++..
T Consensus        22 Gi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is~e   63 (242)
T d1tf7a2          22 GFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAYE   63 (242)
T ss_dssp             SEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESS
T ss_pred             CCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceeecc
Confidence            56666668999999999999999998876   5666666654

>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=97.20  E-value=0.00013  Score=60.23  Aligned_cols=41  Identities=24%  Similarity=0.127  Sum_probs=30.5

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---------CCcEEEEecCCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---------KFNIYDMELTSV  280 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---------~~~i~~l~~~~~  280 (288)
                      |++..+-++|+||||||||+++..+|...         +.+++.++...-
T Consensus        30 Gi~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~   79 (251)
T d1szpa2          30 GVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGT   79 (251)
T ss_dssp             SEESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSC
T ss_pred             CCcCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecch
Confidence            56666679999999999999998887542         445666665443

>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=97.15  E-value=9e-05  Score=61.57  Aligned_cols=36  Identities=22%  Similarity=0.400  Sum_probs=30.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHh----CCcEEEEecCCCC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYL----KFNIYDMELTSVY  281 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l----~~~i~~l~~~~~~  281 (288)
                      -+.|.|+||+||||+|+++++.+    +.+++.++...+.
T Consensus        26 vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~iR   65 (208)
T d1m7ga_          26 TIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNIR   65 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcchHHH
Confidence            37899999999999999999766    7788888876654

>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=97.09  E-value=0.00014  Score=58.21  Aligned_cols=29  Identities=24%  Similarity=0.172  Sum_probs=24.5

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      |+++.+-++++||||+|||++|..+|...
T Consensus        19 Gi~~G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          19 GIETGSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcCCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            56666668999999999999999998764

>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=97.07  E-value=0.00021  Score=59.44  Aligned_cols=29  Identities=28%  Similarity=0.336  Sum_probs=24.1

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      |++..+-++++||||||||+++..+|...
T Consensus        32 Glp~G~~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          32 GIETQAITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CccCCEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            56655669999999999999999888654

>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=96.96  E-value=0.00024  Score=58.94  Aligned_cols=28  Identities=25%  Similarity=0.126  Sum_probs=24.0

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHH
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      |++..+-++++||||||||++|..+|..
T Consensus        33 Gip~G~~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          33 GIESMAITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHH
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            6666666899999999999999999864

>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=96.82  E-value=0.00059  Score=54.20  Aligned_cols=30  Identities=17%  Similarity=0.308  Sum_probs=23.8

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC---CcEEEEe
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK---FNIYDME  276 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~  276 (288)
                      +-+.||+|+||||+|+.++..++   .....++
T Consensus        25 IgI~G~~GSGKSTla~~L~~~l~~~~~~~~~~~   57 (198)
T d1rz3a_          25 LGIDGLSRSGKTTLANQLSQTLREQGISVCVFH   57 (198)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhccccccceecc
Confidence            44899999999999999998775   3454444

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=96.82  E-value=0.001  Score=60.48  Aligned_cols=56  Identities=25%  Similarity=0.306  Sum_probs=42.4

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccce-eEEEcCCCCChHHHHHHHHHHhC---CcEEEEec
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRG-YLLFGPPGTGKSSLIAAMANYLK---FNIYDMEL  277 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg-~LL~GPpGtGKTsla~aiA~~l~---~~i~~l~~  277 (288)
                      .++++|+..+.+.+.+.+.+.               .++| +|+.||+|+||||+..++.++++   .+++.++-
T Consensus       135 ~~l~~LG~~~~~~~~l~~l~~---------------~~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEd  194 (401)
T d1p9ra_         135 LDLHSLGMTAHNHDNFRRLIK---------------RPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVED  194 (401)
T ss_dssp             CCGGGSCCCHHHHHHHHHHHT---------------SSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEES
T ss_pred             hhhhhhcccHHHHHHHHHHHh---------------hhhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEecc
Confidence            479999998887776655322               2456 67899999999999999999884   45666653

>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=96.61  E-value=0.00095  Score=54.33  Aligned_cols=39  Identities=21%  Similarity=0.155  Sum_probs=28.7

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHH----HhCCcEEEEecC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMAN----YLKFNIYDMELT  278 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~----~l~~~i~~l~~~  278 (288)
                      |+++..-++++||||+|||+++..+|.    .-+..++.++..
T Consensus        22 Gi~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~e   64 (242)
T d1tf7a1          22 GLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFE   64 (242)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESS
T ss_pred             CCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCccccccc
Confidence            566666688999999999999876543    335667766654

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=96.61  E-value=0.0012  Score=56.64  Aligned_cols=31  Identities=32%  Similarity=0.487  Sum_probs=26.6

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHhCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      +.+.+..+.|+|||+||||+++.+|++.+|.
T Consensus       100 ~~~k~n~~~l~G~~~tGKS~f~~~i~~~lg~  130 (267)
T d1u0ja_         100 KFGKRNTIWLFGPATTGKTNIAEAIAHTVPF  130 (267)
T ss_dssp             CSTTCCEEEEECSTTSSHHHHHHHHHHHSSC
T ss_pred             CCCccEEEEEEcCCCCCHHHHHHHHHHHhcc
Confidence            3455667889999999999999999999975

>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=96.49  E-value=0.0012  Score=59.19  Aligned_cols=21  Identities=38%  Similarity=0.635  Sum_probs=16.8

Q ss_pred             ceeEEEcCCCCChHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMA  265 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA  265 (288)
                      +-.++.||||||||+++..+.
T Consensus       164 ~~~vI~G~pGTGKTt~i~~~l  184 (359)
T d1w36d1         164 RISVISGGPGTGKTTTVAKLL  184 (359)
T ss_dssp             SEEEEECCTTSTHHHHHHHHH
T ss_pred             CeEEEEcCCCCCceehHHHHH
Confidence            347889999999999875543

>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=96.47  E-value=0.0033  Score=53.79  Aligned_cols=47  Identities=19%  Similarity=0.186  Sum_probs=32.5

Q ss_pred             cccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          212 IAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       212 l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      +.|-+...++|.+.+...-          -...+-+.+||++|.|||++|+.+.+..
T Consensus        22 ~~gR~~~~~~i~~~L~~~~----------~~~~~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          22 CYIREYHVDRVIKKLDEMC----------DLDSFFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             SCCCHHHHHHHHHHHHHHT----------TSSSEEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             eeCcHHHHHHHHHHHHhcc----------CCCceEEEEECCCCCCHHHHHHHHHHhh
Confidence            4466666666766554311          1123357799999999999999998763

>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=96.40  E-value=0.00076  Score=55.18  Aligned_cols=29  Identities=21%  Similarity=0.194  Sum_probs=24.2

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      |++...-+++.||||+|||+++..+|..+
T Consensus        30 Gl~~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          30 GLESQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CccCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            46555568999999999999999999755

>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=96.23  E-value=0.0022  Score=54.95  Aligned_cols=41  Identities=17%  Similarity=0.200  Sum_probs=30.5

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSV  280 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  280 (288)
                      |++..+-..|+||||||||++|-.+|...   |..++.++...-
T Consensus        50 Gi~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~   93 (263)
T d1u94a1          50 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHA   93 (263)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCC
T ss_pred             CccCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccc
Confidence            55555558899999999999987776554   566777776543

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.81  E-value=0.004  Score=52.29  Aligned_cols=25  Identities=32%  Similarity=0.622  Sum_probs=22.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +-|.||+||||||++++|++.+..+
T Consensus        29 ~~liGpsGsGKSTLl~~i~Gl~~p~   53 (232)
T d2awna2          29 VVFVGPSGCGKSTLLRMIAGLETIT   53 (232)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEECCCCChHHHHHHHHhcCCCCC
Confidence            6689999999999999999987654

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=95.81  E-value=0.0031  Score=55.55  Aligned_cols=32  Identities=19%  Similarity=0.508  Sum_probs=26.6

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCC--cEEEE
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKF--NIYDM  275 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~--~i~~l  275 (288)
                      ++++|+.||+|+|||++.+|++++..-  .++.+
T Consensus       166 ~~nili~G~tgSGKTT~l~al~~~i~~~~rivti  199 (323)
T d1g6oa_         166 GKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISI  199 (323)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSCTTCCEEEE
T ss_pred             CCCEEEEeeccccchHHHHHHhhhcccccceeec
Confidence            567999999999999999999998853  45544

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=95.80  E-value=0.0092  Score=47.06  Aligned_cols=25  Identities=28%  Similarity=0.385  Sum_probs=23.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      ++|.|+=|+|||++++.+++.+|.+
T Consensus        36 i~L~G~LGaGKTtfvr~~~~~lg~~   60 (158)
T d1htwa_          36 VYLNGDLGAGKTTLTRGMLQGIGHQ   60 (158)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             EEEecCCCccHHHHHHHHHhhcccc
Confidence            7799999999999999999999863

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=95.78  E-value=0.0016  Score=53.37  Aligned_cols=24  Identities=38%  Similarity=0.725  Sum_probs=21.4

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      +.|.||.|+||||+.++|++.+.-
T Consensus        30 ~~l~G~NGsGKSTLl~~i~gl~~p   53 (200)
T d1sgwa_          30 VNFHGPNGIGKTTLLKTISTYLKP   53 (200)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEECCCCChHHHHHHHHhccccc
Confidence            679999999999999999987743

>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=95.71  E-value=0.0062  Score=51.27  Aligned_cols=39  Identities=18%  Similarity=0.114  Sum_probs=29.5

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHH----hCCcEEEEecC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANY----LKFNIYDMELT  278 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~----l~~~i~~l~~~  278 (288)
                      |..+..-+++.|+||+|||+++..+|..    .|.++..+++.
T Consensus        31 G~~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~E   73 (277)
T d1cr2a_          31 GARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLE   73 (277)
T ss_dssp             SBCTTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEESS
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeeec
Confidence            5544444889999999999988877743    37888888765

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=95.70  E-value=0.0035  Score=50.13  Aligned_cols=29  Identities=24%  Similarity=0.346  Sum_probs=23.8

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHhCCcEE
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYLKFNIY  273 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l~~~i~  273 (288)
                      .+|+||.||+|.|||+++.++... |..++
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~-g~~li   43 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKR-GHRLV   43 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT-TCEEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc-CCeEE
Confidence            468999999999999999887765 65444

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.68  E-value=0.0087  Score=51.70  Aligned_cols=32  Identities=28%  Similarity=0.326  Sum_probs=25.9

Q ss_pred             EEcCCCCChHHHHHHHHHHh------CCcEEEEecCCC
Q 045456          249 LFGPPGTGKSSLIAAMANYL------KFNIYDMELTSV  280 (288)
Q Consensus       249 L~GPpGtGKTsla~aiA~~l------~~~i~~l~~~~~  280 (288)
                      +.||||+||||++..|...|      +..+..++..+.
T Consensus        32 i~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~Ddf   69 (286)
T d1odfa_          32 FSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   69 (286)
T ss_dssp             EECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             eECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCC
Confidence            78999999999999887765      446777777665

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.64  E-value=0.0088  Score=52.19  Aligned_cols=42  Identities=17%  Similarity=0.159  Sum_probs=30.6

Q ss_pred             hCCcccce---eEEEcCCCCChHHHHHHHHHHhC-----CcEEEEecCCC
Q 045456          239 VGKVWKRG---YLLFGPPGTGKSSLIAAMANYLK-----FNIYDMELTSV  280 (288)
Q Consensus       239 ~g~~~~rg---~LL~GPpGtGKTsla~aiA~~l~-----~~i~~l~~~~~  280 (288)
                      +|...++.   +-+.||+|+||||+|+.|+..|.     ..+..|+..+.
T Consensus        72 l~~~~~k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F  121 (308)
T d1sq5a_          72 LGTNGQRIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGF  121 (308)
T ss_dssp             HTCC-CCCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGG
T ss_pred             hcccCCCCCEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeee
Confidence            35544333   44789999999999999999884     45777766654

>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=95.63  E-value=0.005  Score=52.82  Aligned_cols=43  Identities=14%  Similarity=0.113  Sum_probs=31.8

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHH---hCCcEEEEecCCCCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANY---LKFNIYDMELTSVYC  282 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~---l~~~i~~l~~~~~~~  282 (288)
                      |++..+-..++||||||||++|..+|..   .|..++.++...-.+
T Consensus        56 G~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~  101 (269)
T d1mo6a1          56 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALD  101 (269)
T ss_dssp             SBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCC
T ss_pred             CcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCC
Confidence            6666666889999999999997655544   477777777765443

>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=95.63  E-value=0.0029  Score=53.24  Aligned_cols=29  Identities=31%  Similarity=0.290  Sum_probs=21.9

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      |..+..-.+|+||||+|||+++..+|..+
T Consensus        25 G~~pg~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          25 NMVAGTVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             TEETTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CccCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            33333347799999999999998888653

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.52  E-value=0.0028  Score=53.56  Aligned_cols=25  Identities=36%  Similarity=0.685  Sum_probs=21.5

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +-|.||+||||||+.++|++.+.-.
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~~p~   51 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIVKPD   51 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEECCCCChHHHHHHHHHcCCCCC
Confidence            3478999999999999999988643

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=95.46  E-value=0.0026  Score=53.38  Aligned_cols=25  Identities=28%  Similarity=0.521  Sum_probs=21.9

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +-|.||+|||||||.++|++.+...
T Consensus        34 ~~iiG~sGsGKSTLl~~i~gl~~p~   58 (230)
T d1l2ta_          34 VSIMGPSGSGKSTMLNIIGCLDKPT   58 (230)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEECCCCCCcchhhHhccCCCCCC
Confidence            6799999999999999999877543

>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=95.37  E-value=0.0055  Score=52.50  Aligned_cols=41  Identities=20%  Similarity=0.191  Sum_probs=30.8

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecCCC
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELTSV  280 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~~~  280 (288)
                      |++..+-..++||||||||++|..++...   |..++.++...-
T Consensus        53 Gip~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~   96 (268)
T d1xp8a1          53 GIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHA   96 (268)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCC
T ss_pred             CccCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCcc
Confidence            55555557799999999999988777554   667777776643

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=95.35  E-value=0.0037  Score=52.79  Aligned_cols=25  Identities=28%  Similarity=0.559  Sum_probs=22.3

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +-|.||+||||||+.++|++.+.-+
T Consensus        35 ~~liGpsGaGKSTLl~~i~Gl~~p~   59 (239)
T d1v43a3          35 LVLLGPSGCGKTTTLRMIAGLEEPT   59 (239)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEECCCCChHHHHHHHHHcCCCCC
Confidence            6689999999999999999988654

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=95.27  E-value=0.0037  Score=52.80  Aligned_cols=25  Identities=28%  Similarity=0.575  Sum_probs=21.8

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +-|.||+||||||++++|++.+.-+
T Consensus        32 ~~liG~sGaGKSTll~~i~gl~~p~   56 (240)
T d1g2912          32 MILLGPSGCGKTTTLRMIAGLEEPS   56 (240)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEECCCCChHHHHHHHHhcCCCCC
Confidence            6689999999999999999887543

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=95.20  E-value=0.0041  Score=50.08  Aligned_cols=24  Identities=38%  Similarity=0.451  Sum_probs=21.1

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHH
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      .+|+||.||+|.|||++|.++...
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            569999999999999999887754

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.19  E-value=0.0036  Score=53.18  Aligned_cols=26  Identities=23%  Similarity=0.546  Sum_probs=22.7

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      -+-+.||+||||||++++|++.+...
T Consensus        43 ~iaivG~sGsGKSTLl~ll~gl~~p~   68 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITRFYDID   68 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTTCCS
T ss_pred             EEEEECCCCChHHHHHHHHhcccCCC
Confidence            47899999999999999999887643

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {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: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.19  E-value=0.018  Score=46.65  Aligned_cols=31  Identities=23%  Similarity=0.176  Sum_probs=26.6

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCcEEEEec
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFNIYDMEL  277 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~  277 (288)
                      .++..|+|+|||.++.+++.+++.+++.+-.
T Consensus        88 ~ll~~~tG~GKT~~a~~~~~~~~~~~Liv~p  118 (206)
T d2fz4a1          88 GCIVLPTGSGKTHVAMAAINELSTPTLIVVP  118 (206)
T ss_dssp             EEEEESSSTTHHHHHHHHHHHSCSCEEEEES
T ss_pred             cEEEeCCCCCceehHHhHHHHhcCceeEEEc
Confidence            4577899999999999999999988777654

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=95.19  E-value=0.0042  Score=48.38  Aligned_cols=22  Identities=14%  Similarity=0.353  Sum_probs=20.3

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -+++.|.||+|||+|+.++.+.
T Consensus        17 kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          17 KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5999999999999999999866

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=95.10  E-value=0.0037  Score=52.82  Aligned_cols=25  Identities=32%  Similarity=0.494  Sum_probs=21.9

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +-|.||+||||||++++|++.+...
T Consensus        34 ~~iiG~sGsGKSTLl~~i~Gl~~p~   58 (240)
T d3dhwc1          34 YGVIGASGAGKSTLIRCVNLLERPT   58 (240)
T ss_dssp             EEEEESTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEECCCCCCHHHHHHHHcCCcccc
Confidence            6689999999999999999877543

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.10  E-value=0.0044  Score=53.49  Aligned_cols=32  Identities=25%  Similarity=0.424  Sum_probs=25.2

Q ss_pred             CCcccce--eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          240 GKVWKRG--YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       240 g~~~~rg--~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      ....++|  +-+.||+|+||||++++|++.+...
T Consensus        56 sl~i~~Ge~vaivG~nGsGKSTLl~~i~Gl~~p~   89 (281)
T d1r0wa_          56 NLNIEKGEMLAITGSTGSGKTSLLMLILGELEAS   89 (281)
T ss_dssp             EEEECTTCEEEEEESTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEcCCCEEEEECCCCChHHHHHHHHhCCCcCC
Confidence            3344455  7799999999999999999887543

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=94.99  E-value=0.0034  Score=52.66  Aligned_cols=25  Identities=24%  Similarity=0.683  Sum_probs=22.4

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +-|.||+||||||+.++|++.+.-+
T Consensus        29 ~~liGpsGaGKSTll~~l~Gl~~p~   53 (229)
T d3d31a2          29 FVILGPTGAGKTLFLELIAGFHVPD   53 (229)
T ss_dssp             EEEECCCTHHHHHHHHHHHTSSCCS
T ss_pred             EEEECCCCCcHHHHHHHHhcCcCCC
Confidence            7799999999999999999987654

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=94.94  E-value=0.0046  Score=52.17  Aligned_cols=24  Identities=25%  Similarity=0.560  Sum_probs=21.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhC
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      -+.+.||+|+||||++++|++.+.
T Consensus        30 ~vaivG~sGsGKSTLl~ll~gl~~   53 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLLERFYQ   53 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhC
Confidence            377999999999999999998875

>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=94.92  E-value=0.008  Score=52.79  Aligned_cols=37  Identities=30%  Similarity=0.453  Sum_probs=27.9

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh-----CCcEEEEecCCCCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL-----KFNIYDMELTSVYCN  283 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~~  283 (288)
                      +=+.||||.|||||+.+++..+     +.-++.++.++-.+.
T Consensus        54 igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~~~g   95 (323)
T d2qm8a1          54 VGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTG   95 (323)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGSSC
T ss_pred             EeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccHHHH
Confidence            4479999999999999999764     345666666665544

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=94.85  E-value=0.0077  Score=51.52  Aligned_cols=22  Identities=23%  Similarity=0.505  Sum_probs=16.5

Q ss_pred             eeEEEcCCCCChHHHHH-HHHHH
Q 045456          246 GYLLFGPPGTGKSSLIA-AMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~-aiA~~  267 (288)
                      .+++.||||||||+++. .+|..
T Consensus        26 ~~lV~g~aGSGKTt~l~~ri~~l   48 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTHRIAYL   48 (318)
T ss_dssp             CEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CEEEEecCCccHHHHHHHHHHHH
Confidence            48899999999998643 44443

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.81  E-value=0.0053  Score=52.04  Aligned_cols=25  Identities=36%  Similarity=0.570  Sum_probs=22.3

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +-+.||+|||||||+++|++.+.-.
T Consensus        43 vaivG~sGsGKSTLl~li~gl~~p~   67 (251)
T d1jj7a_          43 TALVGPNGSGKSTVAALLQNLYQPT   67 (251)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEECCCCCcHHHHHHHHhcccCCC
Confidence            7799999999999999999887643

>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=94.73  E-value=0.0054  Score=51.71  Aligned_cols=26  Identities=23%  Similarity=0.344  Sum_probs=22.8

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      -+-+.||+|+|||||+++|++.+...
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl~~p~   56 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRFYIPE   56 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHHhcCCCC
Confidence            37899999999999999999987643

>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=94.71  E-value=0.01  Score=44.49  Aligned_cols=34  Identities=21%  Similarity=0.319  Sum_probs=27.7

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELT  278 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  278 (288)
                      +..+|.+|+|+|||.++..++.+.|..++.+-..
T Consensus         9 ~~~ll~apTGsGKT~~~~~~~~~~~~~vli~~P~   42 (136)
T d1a1va1           9 QVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLNPS   42 (136)
T ss_dssp             EEEEEECCTTSCTTTHHHHHHHTTTCCEEEEESC
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHcCCcEEEEcCh
Confidence            4578999999999999887777888877776543

>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=94.67  E-value=0.0094  Score=52.41  Aligned_cols=36  Identities=28%  Similarity=0.452  Sum_probs=25.7

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh-----CCcEEEEecCCCCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL-----KFNIYDMELTSVYC  282 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~~~~  282 (288)
                      +=+.||||.|||||+.+++..+     ..-++.++.++-.+
T Consensus        57 IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~   97 (327)
T d2p67a1          57 LGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVT   97 (327)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC----
T ss_pred             EEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceeee
Confidence            5589999999999999998765     34567777665544

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=94.54  E-value=0.0039  Score=52.69  Aligned_cols=29  Identities=24%  Similarity=0.532  Sum_probs=23.7

Q ss_pred             ccce--eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          243 WKRG--YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       243 ~~rg--~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      .++|  +-|.||+||||||++++|++...-.
T Consensus        28 i~~Ge~~~iiG~sGsGKSTll~~i~gl~~p~   58 (242)
T d1oxxk2          28 IENGERFGILGPSGAGKTTFMRIIAGLDVPS   58 (242)
T ss_dssp             ECTTCEEEEECSCHHHHHHHHHHHHTSSCCS
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHHcCcCCC
Confidence            3445  6799999999999999999877543

>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=94.43  E-value=0.0086  Score=46.64  Aligned_cols=22  Identities=32%  Similarity=0.536  Sum_probs=19.6

Q ss_pred             eeEEEcCCCCChHHHHHHHHHH
Q 045456          246 GYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -+++.|+||+|||+|+.++.+.
T Consensus        18 kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          18 RILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999999653

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=94.42  E-value=0.0075  Score=51.33  Aligned_cols=24  Identities=25%  Similarity=0.423  Sum_probs=21.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      +-|.||+||||||++++|++.+..
T Consensus        31 ~~iiG~sGsGKSTLl~~i~Gl~~p   54 (258)
T d1b0ua_          31 ISIIGSSGSGKSTFLRCINFLEKP   54 (258)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEECCCCCcHHHHHHHHHcCccC
Confidence            668999999999999999987653

>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=94.26  E-value=0.0089  Score=47.57  Aligned_cols=20  Identities=40%  Similarity=0.552  Sum_probs=18.8

Q ss_pred             eEEEcCCCCChHHHHHHHHH
Q 045456          247 YLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~  266 (288)
                      +.|.|+||+|||||+.+|.+
T Consensus        26 I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          26 IALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             EEEEEBTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHhcC
Confidence            88999999999999999975

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=94.24  E-value=0.0086  Score=50.36  Aligned_cols=25  Identities=28%  Similarity=0.558  Sum_probs=22.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +-|.||.|+||||++++|++.+..+
T Consensus        35 ~~liGpnGaGKSTl~~~i~Gl~~p~   59 (240)
T d1ji0a_          35 VTLIGANGAGKTTTLSAIAGLVRAQ   59 (240)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEECCCCCcHHHHHHHHhCCCCCC
Confidence            6689999999999999999988654

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=94.17  E-value=0.0075  Score=50.68  Aligned_cols=25  Identities=28%  Similarity=0.618  Sum_probs=22.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      +-|.||.|+|||||.++|++.+...
T Consensus        31 ~glvG~nGaGKSTLl~~l~G~~~p~   55 (238)
T d1vpla_          31 FGLIGPNGAGKTTTLRIISTLIKPS   55 (238)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCCC
Confidence            5589999999999999999988654

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=94.05  E-value=0.0074  Score=51.18  Aligned_cols=31  Identities=39%  Similarity=0.739  Sum_probs=25.0

Q ss_pred             Ccccce--eEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          241 KVWKRG--YLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       241 ~~~~rg--~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      ...++|  +-|.||.|+|||||+++|++.+..+
T Consensus        25 ~~v~~Gei~~liG~nGaGKSTLl~~i~Gl~~p~   57 (254)
T d1g6ha_          25 ISVNKGDVTLIIGPNGSGKSTLINVITGFLKAD   57 (254)
T ss_dssp             CEEETTCEEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEECCCCEEEEECCCCCcHHHHHHHHHCCCcCC
Confidence            334455  6689999999999999999987654

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=93.84  E-value=0.0067  Score=51.57  Aligned_cols=26  Identities=27%  Similarity=0.489  Sum_probs=22.8

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCc
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFN  271 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~  271 (288)
                      -+.+.||+|+||||+++.|++.+...
T Consensus        46 ~vaivG~sGsGKSTLl~ll~gl~~p~   71 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPRFYDVT   71 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTSSCCS
T ss_pred             EEEEECCCCCcHHHHHHHHHhcCCcc
Confidence            38899999999999999999877654

>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=93.51  E-value=0.029  Score=50.01  Aligned_cols=35  Identities=29%  Similarity=0.318  Sum_probs=27.3

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHH---hCCcEEEEecC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANY---LKFNIYDMELT  278 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~---l~~~i~~l~~~  278 (288)
                      .+++++.|+||+|||.++..+...   .|.+++.+|..
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~~~~~g~~~iiiD~k   87 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDPN   87 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEET
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEEeCC
Confidence            467999999999999988765544   37788887764

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=93.51  E-value=0.019  Score=49.61  Aligned_cols=28  Identities=32%  Similarity=0.560  Sum_probs=23.2

Q ss_pred             cccce--eEEEcCCCCChHHHHHHHHHHhC
Q 045456          242 VWKRG--YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       242 ~~~rg--~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      |..+|  .++.||+|||||+++..|++...
T Consensus        39 PigrGQr~~I~g~~g~GKT~l~~~i~~~~~   68 (289)
T d1xpua3          39 PIGRGQRGLIVAPPKAGKTMLLQNIAQSIA   68 (289)
T ss_dssp             CCBTTCEEEEEECSSSSHHHHHHHHHHHHH
T ss_pred             cccCCCeeeEeCCCCCCHHHHHHHHHHHHh
Confidence            34445  89999999999999999998664

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=93.50  E-value=0.014  Score=48.80  Aligned_cols=29  Identities=31%  Similarity=0.471  Sum_probs=19.0

Q ss_pred             eeEEEcCCCCChHHHHHHHHHHhCCcEEE
Q 045456          246 GYLLFGPPGTGKSSLIAAMANYLKFNIYD  274 (288)
Q Consensus       246 g~LL~GPpGtGKTsla~aiA~~l~~~i~~  274 (288)
                      ..+|.|++|+|||||+.++........-.
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~~~~~t~~  127 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPELGLRTNE  127 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--------
T ss_pred             eEEEECCCCccHHHHHHhhccHhHhhhcc
Confidence            46788999999999999998776554333

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=93.39  E-value=0.0059  Score=47.59  Aligned_cols=23  Identities=39%  Similarity=0.446  Sum_probs=19.9

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .+|+||.|+|||++..||.--|+
T Consensus        27 tvi~G~NGsGKStil~Ai~~~L~   49 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVTALI   49 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            46789999999999999987663

>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=93.32  E-value=0.013  Score=46.08  Aligned_cols=27  Identities=22%  Similarity=0.412  Sum_probs=21.6

Q ss_pred             CCcccceeEEEcCCCCChHHHHHHHHH
Q 045456          240 GKVWKRGYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       240 g~~~~rg~LL~GPpGtGKTsla~aiA~  266 (288)
                      +....--+++.|+||+|||||+..+..
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhc
Confidence            333344699999999999999999864

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=93.28  E-value=0.016  Score=48.32  Aligned_cols=25  Identities=48%  Similarity=0.788  Sum_probs=21.0

Q ss_pred             cce--eEEEcCCCCChHHHHHHHHHHh
Q 045456          244 KRG--YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       244 ~rg--~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      ++|  +-|.||.|+||||+.++|++..
T Consensus        23 ~~Gei~~iiG~nGaGKSTLl~~l~Gl~   49 (231)
T d1l7vc_          23 RAGEILHLVGPNGAGKSTLLARMAGMT   49 (231)
T ss_dssp             ETTCEEECBCCTTSSHHHHHHHHHTSC
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            445  6689999999999999999843

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.07  E-value=0.02  Score=47.58  Aligned_cols=28  Identities=36%  Similarity=0.475  Sum_probs=22.4

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCcE
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFNI  272 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~i  272 (288)
                      +-..|.|++|+|||||+.++........
T Consensus        96 kt~~~~G~SGVGKSTLiN~L~~~~~~~T  123 (225)
T d1u0la2          96 KISTMAGLSGVGKSSLLNAINPGLKLRV  123 (225)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTCCCC-
T ss_pred             CeEEEECCCCCCHHHHHHhhcchhhhhc
Confidence            4578999999999999999987655443

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=92.89  E-value=0.013  Score=45.40  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=20.3

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHH
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      ..-+.|.|+|++|||||..+|.+.
T Consensus        16 ~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          16 GIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            345999999999999999998543

>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=92.73  E-value=0.054  Score=45.38  Aligned_cols=23  Identities=30%  Similarity=0.444  Sum_probs=20.3

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      -.++|.|.||+||||++.+|.++
T Consensus        33 l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          33 LTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             cEEEEECCCCCcHHHHHHHHhCC
Confidence            35999999999999999999754

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=92.48  E-value=0.02  Score=42.08  Aligned_cols=33  Identities=15%  Similarity=0.120  Sum_probs=20.8

Q ss_pred             ceeEEEcCCCCChHHHHH-HHHHH---hCCcEEEEec
Q 045456          245 RGYLLFGPPGTGKSSLIA-AMANY---LKFNIYDMEL  277 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~-aiA~~---l~~~i~~l~~  277 (288)
                      +..+|++|||+|||..+- ++...   .+..++.+..
T Consensus         8 ~~~il~~~tGsGKT~~~~~~~~~~~~~~~~~vli~~p   44 (140)
T d1yksa1           8 MTTVLDFHPGAGKTRRFLPQILAECARRRLRTLVLAP   44 (140)
T ss_dssp             CEEEECCCTTSSTTTTHHHHHHHHHHHTTCCEEEEES
T ss_pred             CcEEEEcCCCCChhHHHHHHHHHHhhhcCceeeeeec
Confidence            458999999999996553 33332   3444554443

>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=92.31  E-value=0.073  Score=44.27  Aligned_cols=35  Identities=29%  Similarity=0.388  Sum_probs=28.2

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      ++-+.+.|--|+||||++..+|..+   |..+..|++.
T Consensus        20 ~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~D   57 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSD   57 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCC
Confidence            4457789999999999877777655   7888888876

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=92.29  E-value=0.029  Score=47.45  Aligned_cols=24  Identities=33%  Similarity=0.520  Sum_probs=20.4

Q ss_pred             eEEEcCCCCChHHHHHHHHHHhCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYLKF  270 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l~~  270 (288)
                      -+|+||.|+|||++..||+-.+|.
T Consensus        27 nvlvG~NgsGKS~iL~Ai~~~lg~   50 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIKWVFGE   50 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHHHTSCC
T ss_pred             EEEECCCCCcHHHHHHHHHHHhCC
Confidence            468999999999999999766653

>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=90.78  E-value=0.078  Score=41.74  Aligned_cols=32  Identities=22%  Similarity=0.376  Sum_probs=22.0

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHH----hCCcEEEEe
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANY----LKFNIYDME  276 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~----l~~~i~~l~  276 (288)
                      +..|+.+|+|+|||.++..++..    -+..++.+-
T Consensus        24 ~n~lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i~   59 (200)
T d1wp9a1          24 TNCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLA   59 (200)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEEC
T ss_pred             CCeEEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEEc
Confidence            45789999999999876655542    344555554

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.39  E-value=0.073  Score=46.48  Aligned_cols=25  Identities=32%  Similarity=0.680  Sum_probs=20.7

Q ss_pred             cee-EEEcCCCCChHHHHHHHHHHhC
Q 045456          245 RGY-LLFGPPGTGKSSLIAAMANYLK  269 (288)
Q Consensus       245 rg~-LL~GPpGtGKTsla~aiA~~l~  269 (288)
                      .|+ +++||.|+|||++..||+=-||
T Consensus        25 ~~l~~i~G~NGsGKS~ileAi~~~lg   50 (427)
T d1w1wa_          25 SNFTSIIGPNGSGKSNMMDAISFVLG   50 (427)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            454 6899999999999999975554

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {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: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=90.11  E-value=0.08  Score=42.10  Aligned_cols=17  Identities=35%  Similarity=0.520  Sum_probs=14.9

Q ss_pred             ceeEEEcCCCCChHHHH
Q 045456          245 RGYLLFGPPGTGKSSLI  261 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla  261 (288)
                      +.+++.+|+|+|||..+
T Consensus        41 ~~~il~apTGsGKT~~a   57 (202)
T d2p6ra3          41 KNLLLAMPTAAGKTLLA   57 (202)
T ss_dssp             SCEEEECSSHHHHHHHH
T ss_pred             CCEEEEcCCCCchhHHH
Confidence            45899999999999875

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {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: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=89.68  E-value=0.22  Score=41.21  Aligned_cols=37  Identities=19%  Similarity=0.118  Sum_probs=25.4

Q ss_pred             cccceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEecC
Q 045456          242 VWKRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDMELT  278 (288)
Q Consensus       242 ~~~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~~~  278 (288)
                      +.+-..||+|.+|+|||.++-..+...   |.-+..+-.+
T Consensus        74 ~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l~Pt  113 (233)
T d2eyqa3          74 PLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVPT  113 (233)
T ss_dssp             SSCCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEECSS
T ss_pred             cCccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEEccH
Confidence            345578999999999999865555432   5666555443

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {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: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.50  E-value=0.078  Score=42.57  Aligned_cols=50  Identities=16%  Similarity=0.198  Sum_probs=29.4

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCc---ccceeEEEcCCCCChHHH
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKV---WKRGYLLFGPPGTGKSSL  260 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~---~~rg~LL~GPpGtGKTsl  260 (288)
                      ||+++...+++.+.|.+.  . +..+.-.++.-++   -.+.++..+|+|+|||..
T Consensus         2 sF~~l~L~~~l~~~L~~~--g-~~~pt~iQ~~aip~il~g~dvi~~a~tGsGKTla   54 (206)
T d1s2ma1           2 TFEDFYLKRELLMGIFEA--G-FEKPSPIQEEAIPVAITGRDILARAKNGTGKTAA   54 (206)
T ss_dssp             CGGGGCCCHHHHHHHHHT--T-CCSCCHHHHHHHHHHHHTCCEEEECCTTSCHHHH
T ss_pred             ChHHcCCCHHHHHHHHHC--C-CCCCCHHHHHHHHHHHcCCCEEEecCCcchhhhh
Confidence            789998888777766542  0 1111111111111   135699999999999954

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=89.23  E-value=0.12  Score=42.77  Aligned_cols=23  Identities=30%  Similarity=0.436  Sum_probs=20.4

Q ss_pred             cceeEEEcCCCCChHHHHHHHHH
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~  266 (288)
                      .+.+++.||..+|||++.+++|-
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l   63 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTAL   63 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEeccCchhhHHHHHHHHH
Confidence            46789999999999999999883

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=89.12  E-value=0.1  Score=44.42  Aligned_cols=22  Identities=41%  Similarity=0.631  Sum_probs=19.8

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      ++++|++|||||+++.-|++..
T Consensus        71 ~~If~~~g~GKt~l~~~i~~~~   92 (276)
T d2jdid3          71 IGLFGGAGVGKTVLIMELINNV   92 (276)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEeeCCCCCCHHHHHHHHHHHH
Confidence            8999999999999999998763

>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=88.69  E-value=0.13  Score=41.81  Aligned_cols=33  Identities=30%  Similarity=0.418  Sum_probs=22.1

Q ss_pred             cceeEEEcCCCCChHHHHHHHHHHh---CCcEEEEe
Q 045456          244 KRGYLLFGPPGTGKSSLIAAMANYL---KFNIYDME  276 (288)
Q Consensus       244 ~rg~LL~GPpGtGKTsla~aiA~~l---~~~i~~l~  276 (288)
                      .+.+++.+|+|+|||..+...+-.+   |..++.+-
T Consensus        58 g~~~~i~apTGsGKT~~~~~~~~~~~~~~~rvliv~   93 (237)
T d1gkub1          58 KESFAATAPTGVGKTSFGLAMSLFLALKGKRCYVIF   93 (237)
T ss_dssp             TCCEECCCCBTSCSHHHHHHHHHHHHTTSCCEEEEE
T ss_pred             CCCEEEEecCCChHHHHHHHHHHHHHHhcCeEEEEe
Confidence            3468999999999998765555433   44444443

>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {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: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.18  E-value=0.1  Score=42.51  Aligned_cols=52  Identities=13%  Similarity=0.173  Sum_probs=32.0

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcc---cceeEEEcCCCCChHHHH
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVW---KRGYLLFGPPGTGKSSLI  261 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~---~rg~LL~GPpGtGKTsla  261 (288)
                      .+|+++..++.+.+.|.+.   -+..+...++..++.   .+.++...|+|+|||...
T Consensus        12 ~sF~~l~L~~~l~~~L~~~---g~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTlay   66 (218)
T d2g9na1          12 DSFDDMNLSESLLRGIYAY---GFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATF   66 (218)
T ss_dssp             CCGGGSCCCHHHHHHHHHH---TCCSCCHHHHHHHHHHHHTCCEEEECCTTSSHHHHH
T ss_pred             CCHHHCCCCHHHHHHHHHC---CCCCCCHHHHHHHHHHHcCCCEEEEcccchhhhhhh
Confidence            3899999888877776431   111121122212211   356999999999999753

>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {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: Tandem AAA-ATPase domain
domain: Spliceosome RNA helicase BAT1 (UAP56)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.72  E-value=0.11  Score=41.89  Aligned_cols=50  Identities=16%  Similarity=0.205  Sum_probs=29.4

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCc---ccceeEEEcCCCCChHHH
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKV---WKRGYLLFGPPGTGKSSL  260 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~---~~rg~LL~GPpGtGKTsl  260 (288)
                      +|+|+..++++.+.|.+.  . +.++--.++.-++   -.+.+++..|+|+|||..
T Consensus         2 ~F~dl~L~~~l~~~l~~~--g-~~~pt~iQ~~aip~il~g~dvl~~A~TGsGKTla   54 (207)
T d1t6na_           2 GFRDFLLKPELLRAIVDC--G-FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAV   54 (207)
T ss_dssp             CSTTSCCCHHHHHHHHHT--T-CCCCCHHHHHHHHHHHTTCCEEEECCTTSCHHHH
T ss_pred             CccccCcCHHHHHHHHHC--C-CCCCCHHHHHHHHHHHcCCCeEEEeccccccccc
Confidence            688888887776666431  0 1111111111111   145799999999999964

>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

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: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=86.61  E-value=0.65  Score=41.45  Aligned_cols=34  Identities=21%  Similarity=0.268  Sum_probs=30.4

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELT  278 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  278 (288)
                      +..+|.|.+|+|||.++.++++.++.|++.|..+
T Consensus        32 ~~q~l~GltGS~ka~~iA~l~~~~~rp~LVVt~n   65 (413)
T d1t5la1          32 KHQTLLGATGTGKTFTISNVIAQVNKPTLVIAHN   65 (413)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHHHHTCCEEEECSS
T ss_pred             CcEEEeCCCCcHHHHHHHHHHHHhCCCEEEEeCC
Confidence            4578999999999999999999999999988654

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase 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: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=86.21  E-value=0.27  Score=41.35  Aligned_cols=37  Identities=27%  Similarity=0.146  Sum_probs=25.1

Q ss_pred             ccceeEEEcCCCCChHHHHHHHHH---HhCCcEEEEecCC
Q 045456          243 WKRGYLLFGPPGTGKSSLIAAMAN---YLKFNIYDMELTS  279 (288)
Q Consensus       243 ~~rg~LL~GPpGtGKTsla~aiA~---~l~~~i~~l~~~~  279 (288)
                      .+-.-||+|..|+|||.++...+.   .-|..+..+-.++
T Consensus       103 ~~m~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~m~Pt~  142 (264)
T d1gm5a3         103 KPMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVPTS  142 (264)
T ss_dssp             SCCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEECSCH
T ss_pred             CcceeeeeccccccccHHHHHHHHHHHhcccceeEEeehH
Confidence            345689999999999998655543   3366665554443

>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {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: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.16  E-value=0.16  Score=41.01  Aligned_cols=51  Identities=16%  Similarity=0.195  Sum_probs=30.2

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCc---ccceeEEEcCCCCChHHH
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKV---WKRGYLLFGPPGTGKSSL  260 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~---~~rg~LL~GPpGtGKTsl  260 (288)
                      .+|+++..+++..+.+.+.   -+.++.-.++..++   ..+.++...|+|+|||..
T Consensus        10 ~sF~~l~l~~~l~~~L~~~---g~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKT~a   63 (212)
T d1qdea_          10 YKFDDMELDENLLRGVFGY---GFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGT   63 (212)
T ss_dssp             CCGGGGTCCHHHHHHHHHH---TCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHH
T ss_pred             cChhhCCCCHHHHHHHHHC---CCCCCCHHHHHHHHHHHcCCCEEeecccccchhhh
Confidence            4899998877766666431   01111111111111   135699999999999974

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {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: Tandem AAA-ATPase domain
domain: DEAD box RNA helicase rck/p54
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.77  E-value=0.5  Score=37.65  Aligned_cols=52  Identities=15%  Similarity=0.134  Sum_probs=29.7

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCc---ccceeEEEcCCCCChHHH
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKV---WKRGYLLFGPPGTGKSSL  260 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~---~~rg~LL~GPpGtGKTsl  260 (288)
                      ..+|+++...+++.+.|.+.  . +..+.-.++..++   -.+.+++..|+|+|||..
T Consensus         2 ~~~F~~l~L~~~l~~~l~~~--g-~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTla   56 (206)
T d1veca_           2 GNEFEDYCLKRELLMGIFEM--G-WEKPSPIQEESIPIALSGRDILARAKNGTGKSGA   56 (206)
T ss_dssp             CSSGGGSCCCHHHHHHHHTT--T-CCSCCHHHHHHHHHHHTTCCEEEECCSSSTTHHH
T ss_pred             CCChhccCcCHHHHHHHHHC--C-CCCCCHHHHHHHHHHHcCCCEEeeccCccccccc
Confidence            35788888777766655431  0 1111111111111   135699999999999964

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=85.35  E-value=0.23  Score=42.35  Aligned_cols=21  Identities=29%  Similarity=0.325  Sum_probs=18.1

Q ss_pred             eEEEcCCCCChHHHHHHHHHH
Q 045456          247 YLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~  267 (288)
                      ++++|++|+|||+++..++..
T Consensus        71 ~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          71 ELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             CEEEESTTSSHHHHHHHHHHH
T ss_pred             EEeecCCCCChHHHHHHHHHh
Confidence            889999999999998777644

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=85.09  E-value=0.9  Score=36.01  Aligned_cols=57  Identities=11%  Similarity=0.071  Sum_probs=32.1

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCc----ccceeEEEcCCCCChHHHHHHHHHH
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKV----WKRGYLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~----~~rg~LL~GPpGtGKTsla~aiA~~  267 (288)
                      +|+++..+++..+.+.+. .  +..+.-.+...++    -++.++...|+|+|||..+...+-+
T Consensus         5 sf~~l~l~~~l~~~l~~~-g--~~~pt~iQ~~~ip~~l~g~~d~iv~a~TGsGKT~~~~l~~~~   65 (208)
T d1hv8a1           5 NFNELNLSDNILNAIRNK-G--FEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIE   65 (208)
T ss_dssp             CGGGSSCCHHHHHHHHHH-T--CCSCCHHHHHHHHHHHHTCSEEEEECCSSSSHHHHHHHHHHH
T ss_pred             CHHHcCCCHHHHHHHHHC-C--CCCCCHHHHHHHHHHHcCCCCeeeechhcccccceeeccccc
Confidence            789988777766655431 0  1111111111111    1246888999999999876554433

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {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: Tandem AAA-ATPase domain
domain: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.35  E-value=0.27  Score=40.01  Aligned_cols=52  Identities=15%  Similarity=0.224  Sum_probs=31.8

Q ss_pred             CCCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcc---cceeEEEcCCCCChHHH
Q 045456          206 PATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVW---KRGYLLFGPPGTGKSSL  260 (288)
Q Consensus       206 p~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~---~rg~LL~GPpGtGKTsl  260 (288)
                      -.+|+++...+++.+.|.+.  . +..+--.+..-++.   .+.++...|+|||||..
T Consensus        16 ~~sF~~l~L~~~l~~~L~~~--g-~~~pt~IQ~~aIp~il~g~dvi~~a~TGSGKTla   70 (222)
T d2j0sa1          16 TPTFDTMGLREDLLRGIYAY--G-FEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTAT   70 (222)
T ss_dssp             CCSGGGGCCCHHHHHHHHHH--T-CCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHH
T ss_pred             CCCHHHCCCCHHHHHHHHHC--C-CCCCCHHHHHHHHHHHCCCCeEEEcCcchhhhhh
Confidence            34899999888777766542  1 11111111111111   45699999999999963

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=84.15  E-value=0.31  Score=39.88  Aligned_cols=22  Identities=32%  Similarity=0.398  Sum_probs=19.1

Q ss_pred             ceeEEEcCCCCChHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~  266 (288)
                      +.+++.||...|||++.+.+|-
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l   57 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTAL   57 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHH
Confidence            3588999999999999998873

>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {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: Tandem AAA-ATPase domain
domain: Probable DEAD box RNA helicase YqfR
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=84.13  E-value=0.44  Score=37.59  Aligned_cols=50  Identities=18%  Similarity=0.157  Sum_probs=27.9

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcc---cceeEEEcCCCCChHHH
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVW---KRGYLLFGPPGTGKSSL  260 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~---~rg~LL~GPpGtGKTsl  260 (288)
                      +|+++..++...+.|.+.  .| .++.-.++.-++.   .+.+++..|+|||||..
T Consensus         2 ~F~~l~L~~~l~~~l~~~--g~-~~pt~iQ~~aip~~l~G~dvii~a~TGSGKTla   54 (209)
T d1q0ua_           2 QFTRFPFQPFIIEAIKTL--RF-YKPTEIQERIIPGALRGESMVGQSQTGTGKTHA   54 (209)
T ss_dssp             CGGGSCCCHHHHHHHHHT--TC-CSCCHHHHHHHHHHHHTCCEEEECCSSHHHHHH
T ss_pred             ccccCCcCHHHHHHHHHC--CC-CCCCHHHHHHHHHHHCCCCeEeeccccccccee
Confidence            578887777766655431  11 1111111111111   34699999999999974

>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=83.66  E-value=0.56  Score=41.48  Aligned_cols=22  Identities=32%  Similarity=0.499  Sum_probs=19.7

Q ss_pred             ceeEEEcCCCCChHHHHHHHHH
Q 045456          245 RGYLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~  266 (288)
                      -.+.+.|.||+||||++.+|-+
T Consensus        57 l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          57 LNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4589999999999999999974

>d1bg2a_ c.37.1.9 (A:) Kinesin {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: Motor proteins
domain: Kinesin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.52  E-value=0.46  Score=40.68  Aligned_cols=49  Identities=14%  Similarity=0.417  Sum_probs=28.6

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHH
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLI  261 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla  261 (288)
                      +||.+.+.+...+++-+.+..++-.. .+.  |  ..-.++-||+.|+|||.+.
T Consensus        45 ~FD~vf~~~~~q~~vf~~~~~~lv~~-~l~--G--~n~~i~aYGqtgSGKTyT~   93 (323)
T d1bg2a_          45 AFDRVFQSSTSQEQVYNDCAKKIVKD-VLE--G--YNGTIFAYGQTSSGKTHTM   93 (323)
T ss_dssp             ECSEEECTTCCHHHHHHHHTHHHHHH-HHT--T--CCEEEEEECSTTSSHHHHH
T ss_pred             ECCEEECCCCCHHHHHHHHHHHHHHH-HHc--C--CCcceeeecccCCCCceec
Confidence            67777666555555544433222111 111  3  2335778999999999976

>d1goja_ c.37.1.9 (A:) Kinesin {Neurospora crassa [TaxId: 5141]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Neurospora crassa [TaxId: 5141]

Probab=82.02  E-value=0.62  Score=40.40  Aligned_cols=49  Identities=20%  Similarity=0.276  Sum_probs=27.3

Q ss_pred             CccccccChhhhHHHHHHHHHHhhcHHHHHHhCCcccceeEEEcCCCCChHHHH
Q 045456          208 TFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKVWKRGYLLFGPPGTGKSSLI  261 (288)
Q Consensus       208 ~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~~~rg~LL~GPpGtGKTsla  261 (288)
                      +||.+...+...++|-+.+..++-.. .+  -|  ..-.++-||++|+|||.++
T Consensus        49 ~FD~vf~~~~~q~~vy~~~~~plv~~-~l--~G--~n~ti~aYG~tgSGKT~Tm   97 (354)
T d1goja_          49 TFDRVFDMSCKQSDIFDFSIKPTVDD-IL--NG--YNGTVFAYGQTGAGKSYTM   97 (354)
T ss_dssp             ECSEEECTTCCHHHHHHHHTHHHHHH-HT--TT--CCEEEEEECSTTSSHHHHH
T ss_pred             ECCeEcCCCCCHHHHHHHHHHHHHHH-hh--cc--CceeEEecccCCCCcceee
Confidence            67777665554455544332222110 11  12  2334778999999999764

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=81.23  E-value=1.6  Score=36.10  Aligned_cols=21  Identities=43%  Similarity=0.669  Sum_probs=19.4

Q ss_pred             eEEEcCCCCChHHHHHHHHHH
Q 045456          247 YLLFGPPGTGKSSLIAAMANY  267 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~  267 (288)
                      +++.|-|.+||||++.++.+.
T Consensus       115 v~vvG~PNvGKSsliN~L~~~  135 (273)
T d1puja_         115 ALIIGIPNVGKSTLINRLAKK  135 (273)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEecCccchhhhhhhhhcc
Confidence            789999999999999999874

>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]}

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 VlgB
species: Flatworm (Dugesia japonica) [TaxId: 6161]

Probab=80.68  E-value=0.64  Score=37.93  Aligned_cols=50  Identities=18%  Similarity=0.371  Sum_probs=28.2

Q ss_pred             CCccccccChhhhHHHHHHHHHHhhcHHHHHHhCCc---ccceeEEEcCCCCChHH
Q 045456          207 ATFDKIAMDPSMKQASIDDLDRFVKRRNFYRRVGKV---WKRGYLLFGPPGTGKSS  259 (288)
Q Consensus       207 ~~~~~l~~~~~~k~~i~~~l~~~~~~~~~~~~~g~~---~~rg~LL~GPpGtGKTs  259 (288)
                      .+|+++...+++.+.|.+.  . +..+--.+..-++   -.+.+++..|+|||||.
T Consensus        21 ~~F~~l~l~~~l~~~L~~~--g-~~~pt~iQ~~~ip~il~g~dvvi~a~TGsGKTl   73 (238)
T d1wrba1          21 ENFDELKLDPTIRNNILLA--S-YQRPTPIQKNAIPAILEHRDIMACAQTGSGKTA   73 (238)
T ss_dssp             CSSGGGSCCCSTTTTTTTT--T-CCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHH
T ss_pred             CCHHHCCCCHHHHHHHHHC--C-CCCCCHHHHHHhhhhhCCCCEEEECCCCCCcce
Confidence            5888988877766654320  0 0011001110000   13569999999999998

>d1c4oa1 c.37.1.19 (A:2-409) Nucleotide excision repair enzyme UvrB {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: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Thermus thermophilus [TaxId: 274]

Probab=80.48  E-value=1.8  Score=38.31  Aligned_cols=34  Identities=26%  Similarity=0.279  Sum_probs=30.3

Q ss_pred             ceeEEEcCCCCChHHHHHHHHHHhCCcEEEEecC
Q 045456          245 RGYLLFGPPGTGKSSLIAAMANYLKFNIYDMELT  278 (288)
Q Consensus       245 rg~LL~GPpGtGKTsla~aiA~~l~~~i~~l~~~  278 (288)
                      +..+|.|.+|++|+.++.+++..++.|++.|..+
T Consensus        29 ~~~~L~GlsgS~ka~~~A~l~~~~~rp~LvVt~~   62 (408)
T d1c4oa1          29 RFVTLLGATGTGKTVTMAKVIEALGRPALVLAPN   62 (408)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHHHHTCCEEEEESS
T ss_pred             CcEEEecCCCCHHHHHHHHHHHHhCCCEEEEeCC
Confidence            3478999999999999999999999999988654

>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=80.44  E-value=0.96  Score=33.37  Aligned_cols=33  Identities=12%  Similarity=-0.002  Sum_probs=26.0

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh-----CCcEEEEecCC
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL-----KFNIYDMELTS  279 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l-----~~~i~~l~~~~  279 (288)
                      ++|.|-+|.||+++|.|+...|     +.++-.++...
T Consensus         9 i~~tg~~~~gk~~ia~al~~~l~q~~G~R~vtll~~~n   46 (122)
T d1g8fa3           9 IVLGNSLTVSREQLSIALLSTFLQFGGGRYYKIFEHNN   46 (122)
T ss_dssp             EEECTTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCTT
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHHHhcCCcceEEecCCC
Confidence            7789999999999999997665     46666665543

>d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {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: DNA helicase UvsW
domain: DNA helicase UvsW
species: Bacteriophage T4 [TaxId: 10665]

Probab=80.43  E-value=0.9  Score=38.05  Aligned_cols=22  Identities=32%  Similarity=0.471  Sum_probs=17.2

Q ss_pred             eEEEcCCCCChHHHHHHHHHHh
Q 045456          247 YLLFGPPGTGKSSLIAAMANYL  268 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~~l  268 (288)
                      .++.-|+|+|||.++.+++..+
T Consensus       131 ~il~~pTGsGKT~i~~~i~~~~  152 (282)
T d1rifa_         131 RILNLPTSAGRSLIQALLARYY  152 (282)
T ss_dssp             EEECCCTTSCHHHHHHHHHHHH
T ss_pred             ceeEEEcccCccHHHHHHHHHh
Confidence            4556699999999988887543

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=80.23  E-value=0.43  Score=40.31  Aligned_cols=20  Identities=25%  Similarity=0.350  Sum_probs=16.8

Q ss_pred             eEEEcCCCCChHHHHHHHHH
Q 045456          247 YLLFGPPGTGKSSLIAAMAN  266 (288)
Q Consensus       247 ~LL~GPpGtGKTsla~aiA~  266 (288)
                      ++++|++|+|||+++..++.
T Consensus        70 ~~Ifg~~g~GKt~l~~~~~~   89 (276)
T d1fx0a3          70 ELIIGDRQTGKTAVATDTIL   89 (276)
T ss_dssp             CBEEESSSSSHHHHHHHHHH
T ss_pred             EeeccCCCCChHHHHHHHHh
Confidence            88899999999999875443